Recherche:Les clusters de gènes tRNA et rRNA chez les procaryotes/Fiche/Les autres bactéries
Fiche mémoire sur Les autres bactéries
- Fiche en préparation
Paris le 7.2.20
tenericutes
modifiertener blocs
modifier- Lien tableur: tener blocs
- Légende:
- - 23s': possible 23S ribosomal RNA but does not have good blast hits on one or both of the ends.
- - 23s°: 23S ribosomal RNA rRNA prediction is too short
- - 16s': possible 16S ribosomal RNA but does not have good blast hits on one or both of the ends.
- - 16s°: 16S ribosomal RNA rRNA prediction is too short
lien | blocs | 16s | total aas | avec | sans | total page | tn001-108 | Notes | ||||
---|---|---|---|---|---|---|---|---|---|---|---|---|
tn001 | tac-16s-atc-235-aac-5s-aac | 4 | 46 | 19 | 27 | 16s23s5s | 16-atc-35 | 16s23s, 5s | avant | |||
16s-atc-235-11aas | sans | 12 | 5 | 2 | 1-3 | |||||||
16s23s5s-aac | 1-3 | 4 | 4 | 2*16s23s5s-aac | ||||||||
16s23s5s-aac-5s-aac | 11aas | 4 | 1 | 16s23s5s-aac-5s-aac | ||||||||
16s23s5s-aac-gaa | ||||||||||||
tn003 | tac-16atcgca235-11aas | 2 | 35 | 15 | 20 | 32 | total | 16 | 4 | 5 | 7 | |
16s23s5s-aac | avant | |||||||||||
tac-16atcgca235-11aas | ||||||||||||
tn004 | tac-16s-atc-235-gta-aac | 2 | 32 | 16 | 16 | tac-16s-atc-235-aac-5s-aac | ||||||
16s-atc-235-11aas | 2*tac-16s-atc-235-gta-aac | |||||||||||
tac-16s-atc-235-aac | ||||||||||||
tn005 | 16s23s5s | 1 | 28 | 0 | 28 | 6aas-16s23s5s | ||||||
aaa-cta-16s23s5s | ||||||||||||
tn008 | tac-16s-atc-235-aac | 2 | 35 | 15 | 20 | |||||||
16s-atc-235-11aas | 5s de trop | |||||||||||
16s23s5s-aac-5s-aac | ||||||||||||
tn012 | 6aas-16s23s5s | 2 | 29 | 6 | 23 | tac-16s-atc-235-aac-5s-aac | ||||||
16s23s5s | 16s°aac-gaa-5s | |||||||||||
5s | ||||||||||||
tn014 | 16s23s5s-aac-gaa | 1 | 40 | 4 | 36 | |||||||
16s°aac-gaa-5s | ||||||||||||
tn018 | 16s23s, 5s | 1 | 34 | 0 | 34 | |||||||
5s | ||||||||||||
tn026 | 16s23s5s | 2 | 31 | 2 | 29 | |||||||
aaa-cta-16s23s5s | ||||||||||||
tn030 | 16s23s, 5s | 1 | 29 | 0 | 29 | |||||||
tn038 | 16s23s5s | 2 | 33 | 0 | 33 | |||||||
16s23s, 5s | ||||||||||||
tn050 | 16s23s5s | 1 | 36 | 0 | 36 | |||||||
tn066 | 16s23s, 5s | 1 | 31 | 0 | 31 | |||||||
tn075 | 16s23s, 5s | 1 | 28 | 0 | 28 | |||||||
tn078 | 2*16s23s5s | 2 | 31 | 0 | 31 | |||||||
tn086 | 16s23s5s | 1 | 37 | 0 | 37 | |||||||
tn097 | tac-16s-atc-235-gta-aac | 2 | 32 | 16 | 16 | |||||||
16s-atc-235-11aas | ||||||||||||
tn098 | 16s23s5s | 1 | 31 | 0 | 31 | |||||||
tn102 | 16s23s5s | 1 | 34 | 0 | 34 | |||||||
tn108 | 2*16s23s5s | 2 | 30 | 0 | 30 | |||||||
32 | ||||||||||||
lien | blocs | 16s | total aas | avec | sans | total clade | Total | Notes | ||||
20 | 16s23s5s | 16-atc-35 | 16s23s, 5s | avant | ||||||||
Total | 662 | 93 | 569 | sans | 12 | 5 | 2 | 1-3 | ||||
Moyenne | 33 | 5 | 28 | 1-3 | 4 | 4 | 2*16s23s5s-aac | |||||
ecartype | 4 | 7 | 6 | 11aas | 4 | 1 | 16s23s5s-aac-5s-aac | |||||
max | 46 | 19 | 37 | 16s23s5s-aac-gaa | ||||||||
min | 28 | 0 | 16 | 32 | total | 16 | 4 | 5 | 7 | |||
avant | ||||||||||||
tac-16atcgca235-11aas | ||||||||||||
tac-16s-atc-235-aac-5s-aac | ||||||||||||
2*tac-16s-atc-235-gta-aac | ||||||||||||
blocs | 32 | tac-16s-atc-235-aac | ||||||||||
génomes | 20 | 6aas-16s23s5s | ||||||||||
aas longs | 6 / 6 | aaa-cta-16s23s5s | ||||||||||
1-3 aac | 10 | |||||||||||
16s23s5s | 23 | 5s de trop | ||||||||||
16-atc-35 | 8 | 16s23s5s-aac-5s-aac | ||||||||||
16-atcgca-35 | 1 | tac-16s-atc-235-aac-5s-aac | ||||||||||
16s°aac-gaa-5s | ||||||||||||
5s |
tener notes
modifier- Lien tableur: tener notes
- Légende: tn001 génome (voir noms), comp pour complement, intercal pour intercalaire en pbs, et long longueur en pbs.
DUF951 DUF951 domain-containing protein cobalamin ATP:cob(I)alamin adenosyltransferase DegV DegV family protein cobyrinic cob(I)yrinic acid a,c-diamide adenosyltransferase N-acetyl N-acetyltransferase ABCu ABC transporter permease subunit P-ligase proline--tRNA ligase DUF2963 DUF2963 domain-containing protein NADP NAD(P)-dependent oxidoreductase THF methylenetetrahydrofolate dehydrogenase ABCs substrate ABC transporter permease
tn001 | 16s-atc-235-11aas | tn003 | ||||||||
tac-16s-atc-235-aac-5s-aac | intercal | long pbs | protéine | tac-16atcgca235-11aas | intercal | long pbs | protéine | |||
cds | 86 | 174 | DUF951 | comp | cds | 154 | 852 | NADP | ||
tac | 214 | 85 | comp | ttc | 7 | 76 | ||||
16s | 137 | 1536 | comp | gac | 4 | 76 | ||||
atc | 88 | 77 | comp | atgf | 55 | 77 | ||||
23s | 34 | 2854 | comp | tca | 22 | 91 | ||||
5s | 11 | 111 | comp | atgi | 4 | 77 | ||||
aac | 149 | 77 | comp | atgj | 45 | 77 | ||||
5s | 11 | 111 | comp | gca | 5 | 76 | ||||
aac | 860 | 77 | comp | tta | 20 | 85 | ||||
cds | 432 | 105 | cobalamin | comp | aaa | 6 | 76 | |||
16s | 137 | 1536 | comp | aca | 15 | 76 | ||||
atc | 88 | 77 | comp | gta | 21 | 76 | ||||
23s | 34 | 2854 | comp | 5s | 34 | 108 | ||||
5s | 14 | 111 | comp | 23s | 50 | 2838 | ||||
gta | 44 | 76 | comp | gca | 6 | 76 | ||||
aca | 11 | 76 | comp | atc | 110 | 77 | ||||
aaa | 7 | 76 | comp | 16s | 206 | 1523 | ||||
tta | 8 | 87 | comp | tac | 114 | 84 | ||||
gca | 72 | 76 | comp | cds | 171 | DUF951 | ||||
atgj | 7 | 77 | tn004 | |||||||
atgi | 44 | 77 | 16s-atc-235-11aas | intercal | long pbs | protéine | ||||
tca | 8 | 91 | cds | 729 | 582 | hp | ||||
atgf | 4 | 77 | 16s | 98 | 1539 | |||||
gac | 11 | 76 | atc | 54 | 77 | |||||
ttc | 137 | 76 | 23s | 19 | 2891 | |||||
cds | 855 | DegV | 5s | 25 | 109 | |||||
2*16s23s5s | intercal | long pbs | protéine | gta | 53 | 76 | ||||
comp | cds | 96 | 312 | N-acetyl | aca | 7 | 76 | |||
comp | aac | 11 | 77 | aaa | 61 | 76 | ||||
comp | 5s | 34 | 111 | tta | 8 | 86 | ||||
comp | 23s | 158 | 2854 | gca | 38 | 76 | ||||
comp | 16s | 432 | 1535 | atgj | 1 | 77 | ||||
comp | cds | 860 | 105 | cobalamin | atgi | 6 | 77 | |||
comp | aac | 11 | 77 | tca | 17 | 91 | ||||
comp | 5s | 149 | 111 | atgf | 5 | 77 | ||||
comp | aac | 11 | 77 | gac | 2 | 76 | ||||
comp | 5s | 34 | 111 | ttc | 324 | 76 | ||||
comp | 23s | 159 | 2854 | comp | cds | 735 | ABCu | |||
comp | 16s | 431 | 1536 | tn012 | ||||||
comp | cds | 531 | cobyrinic | 6aas-16s23s5s | intercal | long pbs | protéine | |||
tn008 | cds | 148 | 861 | THF | ||||||
16s-atc-235-11aas | intercal | long pbs | protéine | aac | 8 | 76 | ||||
comp | cds | 1035 | 2811 | hp | gaa | 9 | 76 | |||
comp | ttc | 0 | 76 | gta | 9 | 76 | ||||
comp | gac | 7 | 76 | aca | 116 | 76 | ||||
comp | atgf | 20 | 77 | aaa | 4 | 76 | ||||
comp | tca | 7 | 91 | cta | 264 | 84 | ||||
comp | atgi | 1 | 77 | 16s | 207 | 1528 | ||||
comp | atgj | 22 | 77 | 23s | 249 | 2736 | ||||
comp | gca | 6 | 76 | 5s | 97 | 103 | ||||
comp | tta | 17 | 86 | cds | 1593 | ABCs | ||||
comp | aaa | 2 | 76 | tn014 | 16s°aac-gaa-5s | |||||
comp | aca | 50 | 76 | 16s23s5s-aac-gaa | intercal | long pbs | protéine | |||
comp | gta | 21 | 76 | comp | cds | 178 | 597 | hp | ||
comp | 5s | 26 | 106 | comp | gaa | 8 | 77 | |||
comp | 23s | 55 | 2866 | comp | aac | 67 | 77 | |||
comp | atc | 61 | 77 | comp | 5s | 0 | 91 | |||
comp | 16s | 2069 | 1537 | comp | 16s° | 745 | 381 | |||
comp | cds | 246 | DUF2963 | comp | gaa | 8 | 77 | |||
tn086 | comp | aac | 67 | 77 | ||||||
16s23s5s | intercal | long pbs | protéine | comp | 5s | 33 | 108 | |||
cds | 570 | 423 | hp | comp | 23s | 143 | 2861 | |||
comp | ncRNA | 199 | 833 | comp | 16s | 478 | 1544 | |||
16s | -445 | 1513 | comp | cds | 1287 | P-ligase | ||||
comp | ncRNA | 221 | 456 | |||||||
23s | -262 | 2905 | ||||||||
comp | ncRNA | 70 | 229 | |||||||
5s | 183 | 108 | ||||||||
cds | 765 | hp | ||||||||
tn097 | cds–11 aas | tn001 | tn003 | tn004 | tn008 | tn097 | ||||
16s-atc-235-11aas | intercal | long pbs | protéine | intercal | intercal | intercal | intercal | intercal | ||
cds | 217 | 186 | hp | cds | 137 | 154 | 324 | 1035 | 217 | |
comp | ttc | 2 | 76 | ttc | 11 | 7 | 2 | 0 | 2 | |
comp | gac | 5 | 76 | gac | 4 | 4 | 5 | 7 | 5 | |
comp | atgf | 17 | 77 | atgf | 8 | 55 | 17 | 20 | 17 | |
comp | tca | 7 | 91 | tca | 44 | 22 | 6 | 7 | 7 | |
comp | atgi | 1 | 77 | atgi | 7 | 4 | 1 | 1 | 1 | |
comp | atgj | 38 | 77 | atgj | 72 | 45 | 38 | 22 | 38 | |
comp | gca | 4 | 76 | gca | 8 | 5 | 8 | 6 | 4 | |
comp | tta | 66 | 86 | tta | 7 | 20 | 61 | 17 | 66 | |
comp | aaa | 7 | 76 | aaa | 11 | 6 | 7 | 2 | 7 | |
comp | aca | 52 | 76 | aca | 44 | 15 | 53 | 50 | 52 | |
comp | gta | 25 | 76 | gta | 14 | 21 | 25 | 21 | 25 | |
comp | 5s | 19 | 109 | 5s | 34 | 34 | 19 | 26 | 19 | |
comp | 23s | 54 | 2890 | 23s | 88 | 50 | 54 | 55 | 54 | |
comp | atc | 102 | 77 | atc | 137 | - | 98 | 61 | 102 | |
comp | 16s | 734 | 1535 | 16s | 432 | - | 729 | 2069 | 734 | |
comp | cds | 582 | hp | cds |
tener typage
modifier- Lien tableur: tener typage
tener type 16-y-235 après 16s
modifier- Type
type tableau avant 16s total % 16s23s5s 16 2 18 56 atc 4 4 8 25 atcgca 1 1 3 16s23s, 5s 5 5 16 total 25 7 32
tener type 16235-z après 5s
modifier- Type: Les 5 blocs 11aas sont tous identiques, voir tener notes
- gta-aca-aaa-tta-gca-atgj-atgi-tca-atgf-gac-ttc
type tableau avant 16s total % aac 2 1 3 23 aac-5s-aac 1 1 2 15 aac-gaa 1 1 8 gta-aac 2 2 15 11aas 4 1 5 38 total 8 5 13 sans 12 7 19
- tRNA
tRNA total % aac 10 67 gaa 1 7 gta 2 13 5s 2 13 total 15
tener type x-16235 avant 16s
modifier- Type; Voir tener notes pour le blocs 6aas. Il a une séquence de 3 aas qui se trouve dans les 11aas de 16s23s5s-z, gta-aca-aaa.
- aac-gaa-gta-aca-aaa-cta
type tableau tac 5 aaa-cta 1 6aas 1
tener noms
modifier- Lien tableur: tener noms
- Prélèvement: fait vers le 20.8.19 et mise en forme le 4.9.19 Paris.
- Légende:
- - notes
- - 31*2, à partir de gtRNAdb et la méthode de construction de la liste des noms, le même noms peut regrouper quelques échantillons ayant le même nombre de tRNAs.
- - rRNAs, 666 ou "10,10,10", sous la forme indiquée par NCBI, (5S, 16S, 23S).
- - rupture, sélection des génomes sur les 2 premiers attributs
- - fait, dans génomes tener
- - code, utilisé dans les génomes "fait"
- - tRNAs, nombre de tRNAs tel qu'il est déduit de la de la construction des noms.
- - notes
- Construction de la liste des noms
- Statistiques
tRNAs total 3579 génomes ruptures faits total 58 20 111
ruptures | notes | rRNAs | faits | code | tRNAs | génomes |
---|---|---|---|---|---|---|
1 | 644 | 1 | tn001 | §46 | Acholeplasma brassicae O502 | |
1 | tn002 | §36 | Acholeplasma laidlawii PG-8A | |||
1 | 222 | 1 | tn003 | §35 | Acholeplasma palmae J233 | |
1 | 222 | 1 | tn004 | §32 | Aster yellows witches-broom phytoplasma AYWB | |
1 | 111 | 1 | tn005 | §28 | Candidatus Hepatoplasma crinochetorum Av | |
1 | tn006 | §31 | Candidatus Mycoplasma girerdii VCU M1 | |||
1 | tn007 | §33 | Candidatus Mycoplasma haemolamae str. Purdue | |||
1 | 222 | 1 | tn008 | §35 | Candidatus Phytoplasma australiense | |
1 | tn009 | §32 | Candidatus Phytoplasma mali AT | |||
1 | tn010 | §8 | Candidatus Phytoplasma solani 231/09 | |||
1 | tn011 | §27 | Candidatus Phytoplasma solani 284/09 | |||
1 | 222 | 1 | tn012 | §29 | Mesoplasma florum L1 ATCC 33453 | |
tn013 | 29 | Mesoplasma florum W37 | ||||
1 | 211 | 1 | tn014 | §40 | Mollicutes bacterium HR1 | |
1 | tn015 | §34 | Mycoplasma agalactiae 5632 | |||
tn016 | 34 | Mycoplasma agalactiae PG2 | ||||
1 | tn017 | §33 | Mycoplasma arthritidis 158L3-1 | |||
1 | 211 | 1 | tn018 | §34 | Mycoplasma bovis CQ-W70 | |
tn019 | 34 | Mycoplasma bovis HB0801 | ||||
tn020 | 34 | Mycoplasma bovis Hubei-1 | ||||
tn021 | 34 | Mycoplasma bovis PG45 | ||||
1 | tn022 | §30 | Mycoplasma bovoculi M165/69 | |||
1 | tn023 | §32 | Mycoplasma californicum HAZ160 1 | |||
tn024 | 32 | Mycoplasma californicum ST-6 | ||||
1 | tn025 | §32 | Mycoplasma canadense HAZ360 1 | |||
1 | 222 | 1 | tn026 | §31 | Mycoplasma capricolum subsp. capricolum ATCC 27343 | |
tn027 | 31 | Mycoplasma capricolum subsp. capripneumoniae 87001 | ||||
tn028 | 31 | Mycoplasma capricolum subsp. capripneumoniae F38 | ||||
tn029 | 31 | Mycoplasma capricolum subsp. capripneumoniae ILRI181 | ||||
1 | 111 | 1 | tn030 | §29 | Mycoplasma conjunctivae HRC/581T | |
1 | tn031 | §34 | Mycoplasma crocodyli MP145 | |||
1 | tn032 | §30 | Mycoplasma cynos C142 | |||
1 | tn033 | §32 | Mycoplasma dispar ATCC 27140 | |||
1 | tn034 | §36 | Mycoplasma fermentans JER | |||
tn035 | 36 | Mycoplasma fermentans M64 | ||||
tn036 | 36 | Mycoplasma fermentans PG18 | ||||
1 | tn037 | §30 | Mycoplasma flocculare ATCC 27399 Ms42 | |||
1 | 222 | 1 | tn038 | §33 | Mycoplasma gallisepticum CA06 2006.052-5-2P | |
tn039 | 33 | Mycoplasma gallisepticum NC06 2006.080-5-2P | ||||
tn040 | 33 | Mycoplasma gallisepticum NC08 2008.031-4-3P | ||||
tn041 | 33 | Mycoplasma gallisepticum NC95 13295-2-2P | ||||
tn042 | 33 | Mycoplasma gallisepticum NC96 1596-4-2P | ||||
tn043 | 33 | Mycoplasma gallisepticum NY01 2001.047-5-1P | ||||
tn044 | 33 | Mycoplasma gallisepticum S6 | ||||
tn045 | 32 | Mycoplasma gallisepticum str. F | ||||
tn046 | 32 | Mycoplasma gallisepticum str. Rhigh | ||||
tn047 | 32 | Mycoplasma gallisepticum str. Rlow | ||||
tn048 | 33 | Mycoplasma gallisepticum VA94 7994-1-7P | ||||
tn049 | 33 | Mycoplasma gallisepticum WI01 2001.043-13-2P | ||||
1 | 111 | 1 | tn050 | §36 | Mycoplasma genitalium G37 G-37 | |
tn051 | 36 | Mycoplasma genitalium M2288 | ||||
tn052 | 36 | Mycoplasma genitalium M2321 | ||||
tn053 | 36 | Mycoplasma genitalium M6282 | ||||
tn054 | 36 | Mycoplasma genitalium M6320 | ||||
1 | tn055 | §32 | Mycoplasma haemocanis str. Illinois | |||
1 | tn056 | §32 | Mycoplasma haemofelis Ohio2 | |||
tn057 | 32 | Mycoplasma haemofelis str. Langford 1 | ||||
1 | tn058 | §33 | Mycoplasma hominis AF1 | |||
tn059 | 33 | Mycoplasma hominis ATCC 23114 | ||||
tn060 | 33 | Mycoplasma hominis ATCC 27545 LBD-4 | ||||
1 | tn061 | §31 | Mycoplasma hyopneumoniae 168 | |||
tn062 | 31 | Mycoplasma hyopneumoniae 168-L | ||||
tn063 | 31 | Mycoplasma hyopneumoniae 232 | ||||
tn064 | 31 | Mycoplasma hyopneumoniae 7422 | ||||
tn065 | 31 | Mycoplasma hyopneumoniae 7448 | ||||
111 | 1 | tn066 | 31 | Mycoplasma hyopneumoniae J | ||
1 | tn067 | §30 | Mycoplasma hyorhinis DBS 1050 | |||
tn068 | 30 | Mycoplasma hyorhinis GDL-1 | ||||
tn069 | 30 | Mycoplasma hyorhinis HUB-1 | ||||
tn070 | 30 | Mycoplasma hyorhinis MCLD | ||||
tn071 | 30 | Mycoplasma hyorhinis SK76 | ||||
1 | tn072 | §31 | Mycoplasma leachii 99/014/6 | |||
tn073 | 31 | Mycoplasma leachii PG50 | ||||
1 | tn074 | §17 | Mycoplasma meleagridis B2096 8B | |||
1 | 111 | 1 | tn075 | §28 | Mycoplasma mobile 163K | |
1 | tn076 | §31 | Mycoplasma mycoides subsp. capri LC str. 95010 | |||
31*2 | tn077 | 62 | Mycoplasma mycoides subsp. capri str. GM12 | |||
222 | 1 | tn078 | 31 | Mycoplasma mycoides subsp. mycoides izsam mm5713 | ||
tn079 | 31 | Mycoplasma mycoides subsp. mycoides SC str. Gladysdale | ||||
tn080 | 31 | Mycoplasma mycoides subsp. mycoides SC str. PG1 | ||||
1 | tn081 | §31 | Mycoplasma ovis str. Michigan | |||
1 | tn082 | §32 | Mycoplasma parvum str. Indiana | |||
1 | tn083 | §30 | Mycoplasma penetrans HF-2 | |||
1 | tn084 | §36 | Mycoplasma pneumoniae 309 | |||
tn085 | 36 | Mycoplasma pneumoniae FH | ||||
111 | 1 | tn086 | 37 | Mycoplasma pneumoniae M129 ATCC 29342 | ||
tn087 | 37 | Mycoplasma pneumoniae M129-B7 | ||||
tn088 | 37 | Mycoplasma pneumoniae M29 | ||||
1 | tn089 | §31 | Mycoplasma putrefaciens KS1 | |||
tn090 | 31 | Mycoplasma putrefaciens Mput9231 | ||||
1 | tn091 | §32 | Mycoplasma suis KI3806 | |||
tn092 | 32 | Mycoplasma suis str. Illinois | ||||
1 | tn093 | §34 | Mycoplasma synoviae 53 | |||
tn094 | 34 | Mycoplasma synoviae ATCC 25204 WVU1853 | ||||
1 | tn095 | §32 | Mycoplasma wenyonii str. Massachusetts | |||
1 | tn096 | §31 | Mycoplasma yeatsii GM274B | |||
1 | 222 | 1 | tn097 | §32 | Onion yellows phytoplasma OY-M onion yellows | |
1 | 111 | 1 | tn098 | §31 | Spiroplasma apis B31 | |
1 | tn099 | §33 | Spiroplasma chrysopicola DF-1 | |||
1 | tn100 | §30 | Spiroplasma culicicola AES-1 | |||
1 | tn101 | §30 | Spiroplasma diminutum CUAS-1 | |||
1 | 111 | 1 | tn102 | §34 | Spiroplasma mirum ATCC 29335 | |
tn103 | 34 | Spiroplasma mirum ATCC 29335 SMCA | ||||
1 | tn104 | §30 | Spiroplasma sabaudiense Ar-1343 | |||
1 | tn105 | §32 | Spiroplasma syrphidicola EA-1 | |||
1 | tn106 | §30 | Spiroplasma taiwanense CT-1 | |||
1 | tn107 | §22 | Ureaplasma diversum ATCC 49782 | |||
1 | 222 | 1 | tn108 | §30 | Ureaplasma parvum serovar 3 str. ATCC 27815 | |
tn109 | 30 | Ureaplasma parvum serovar 3 str. ATCC 700970 | ||||
tn110 | 30 | Ureaplasma parvum serovar 3 SV3F4 | ||||
1 | tn111 | §30 | Ureaplasma urealyticum serovar 10 str. ATCC 33699 | |||
58 | 20 |
Chlamydiae
modifierchlam blocs
modifier- Lien tableur: chlam blocs
- Légende:
- - 23s': possible 23S ribosomal RNA but does not have good blast hits on one or both of the ends.
- - 23s°: 23S ribosomal RNA rRNA prediction is too short
- - 16s': possible 16S ribosomal RNA but does not have good blast hits on one or both of the ends.
- - 16s°: 16S ribosomal RNA rRNA prediction is too short
lien | blocs | 16s | total aas | avec | sans | total page | chl001-124 | Notes | |||
---|---|---|---|---|---|---|---|---|---|---|---|
chl001 | 2*16s23s5s | 2 | 35 | 0 | 35 | 16s23s5s | 6-gcaatc-35 | avant | |||
16s°-23s°-5s | sans | 10 | 2 | 5 | avant | ||||||
1-3 | 5*cac-16s235 | ||||||||||
chl002 | cac-16s235 | 1 | 39 | 1 | 38 | cac en direct et le reste en comp | |||||
chl003 | 2*16s23s5s | 2 | 37 | 0 | 37 | 17 | total | 10 | 2 | 5 | les intercalaires sont très variables |
entre 422-822 | |||||||||||
chl009 | cac-16s235 | 1 | 38 | 1 | 37 | ||||||
chl012 | cac-16s235 | 1 | 38 | 1 | 37 | autres incomplets | |||||
chl029 | cac-16s235 | 1 | 37 | 1 | 36 | 16s°-23s°-5s | |||||
chl118 | 16s23s5s | 1 | 38 | 0 | 38 | 5s de trop | |||||
chl120 | cac-16s235 | 1 | 38 | 1 | 37 | 16s-gcaatc-235-5s | |||||
chl121 | 16s23s5s | 1 | 38 | 0 | 38 | ||||||
chl122 | 2*16s23s5s | 3 | 41 | 2 | 39 | ||||||
16s-gcaatc-235-5s | |||||||||||
chl123 | 16s23s5s | 1 | 35 | 0 | 35 | ||||||
chl124 | 16s23s5s | 2 | 37 | 2 | 35 | ||||||
16s-gcaatc-235 | |||||||||||
17 | |||||||||||
lien | blocs | 16s | total aas | avec | sans | total page | chl001-124 | Notes | |||
12 | 16s23s5s | 6-gcaatc-35 | avant | ||||||||
sans | 10 | 2 | 5 | avant | |||||||
Moyenne | 38 | 1 | 37 | 1-3 | 5*cac-16s235 | ||||||
ecartype | 2 | 1 | 1 | cac en direct et le reste en comp | |||||||
max | 41 | 2 | 39 | 17 | total | 10 | 2 | 5 | les intercalaires sont très variables | ||
min | 35 | 0 | 35 | entre 422-822 | |||||||
blocs | 17 | autres incomplets | |||||||||
génomes | 12 | 16s°-23s°-5s | |||||||||
cds | 0 | ||||||||||
devant | 0 | 5s de trop | |||||||||
avant | 5 | 16s-gcaatc-235-5s | |||||||||
16s23s5s | 15 |
chlam notes
modifier- Lien tableur: chlam notes
- avant 16s: Sur 17 blocs 16s seulement 5 ont cac en avant avec changement de sens comp/direct. Les intercalaires cac-16s sont très variables
chl012 comp 16s 1023009..1024561 813 cac 1025375..1025448 chl029 comp 16s 133365..133438 532 cac 133971..135520 chl002 comp 16s 721467..723020 679 cac 723700..723775 chl009 comp 16s 962658..964211 422 cac 964634..964707 chl120 comp 16s 1023977..1025529 822 cac 1026352..1026425
- autres incomplets: taille des rRNAs modifiés, s° ribosomal RNA rRNA prediction is too short.
autre incomplet intercalaire long pbs protéines chl001 comp cds 77 294 hp comp 5s 130 115 comp 23s° 0 809 comp 16s° 619 927 cds 837 fasciclin domain-containing protein
chlam typage
modifier- Lien tableur: chlam typage
- Type 16-y-235 après 16s
type tableau avant 16s total % 16s23s5s 10 5 15 88 gcaatc 2 2 12 total 12 5 17
- Type 16235-z après 5s, un seul 5s.
- Type x-16235 avant 16s, 5 cac, tous sur le brin opposé, 5 génomes, voir chlam notes
chlam noms
modifier- Lien tableur: chlam noms
Prélèvement: fait vers le 20.8.19 et mise en forme le
- Légende:
- - notes
- - 37*3, à partir de gtRNAdb et la méthode de construction de la liste des noms, le même noms peut regrouper quelques échantillons ayant le même nombre de tRNAs.
- - rRNAs, 666 ou "10,10,10", sous la forme indiquée par NCBI, (5S, 16S, 23S).
- - rupture, sélection des génomes sur les 2 premiers attributs
- - fait, dans génomes chlam
- - code, utilisé dans les génomes "fait"
- - tRNAs, nombre de tRNAs tel qu'il est déduit de la de la construction des noms.
- - notes
- Construction de la liste des noms
- Statistiques
tRNAs total 4762 génomes ruptures faits total 12 12 124
ruptures | notes | rRNAs | faits | code | tRNAs | génomes |
---|---|---|---|---|---|---|
1 | 322 | 1 | chl001 | 35 | Candidatus Protochlamydia amoebophila UWE25 | |
1 | 111 | 1 | chl002 | 39 | Chlamydia avium 10DC88 | |
1 | 222 | 1 | chl003 | 37 | Chlamydia muridarum MopnTet14 | |
37*3 | chl004 | 111 | Chlamydia muridarum Nigg3 | |||
chl005 | 37 | Chlamydia muridarum str. Nigg | ||||
chl006 | 37 | Chlamydia muridarum str. Nigg 2 MCR | ||||
chl007 | 37 | Chlamydia muridarum str. Nigg CM972 | ||||
chl008 | 37 | Chlamydia muridarum str. Nigg3 CMUT3-5 | ||||
1 | 111 | 1 | chl009 | 38 | Chlamydia pecorum P787 | |
chl010 | 38 | Chlamydia pecorum PV3056/3 | ||||
chl011 | 38 | Chlamydia pecorum W73 | ||||
1 | 111 | 1 | chl012 | 38 | Chlamydia psittaci 01DC11 | |
chl013 | 38 | Chlamydia psittaci 01DC12 | ||||
chl014 | 38 | Chlamydia psittaci 02DC15 | ||||
chl015 | 38 | Chlamydia psittaci 08DC60 | ||||
2*38 | chl016 | 76 | Chlamydia psittaci 6BC | |||
chl017 | 38 | Chlamydia psittaci 84/55 | ||||
chl018 | 38 | Chlamydia psittaci C19/98 | ||||
chl019 | 38 | Chlamydia psittaci CP3 | ||||
chl020 | 38 | Chlamydia psittaci GR9 | ||||
chl021 | 38 | Chlamydia psittaci M56 | ||||
chl022 | 38 | Chlamydia psittaci Mat116 | ||||
chl023 | 38 | Chlamydia psittaci MN | ||||
chl024 | 38 | Chlamydia psittaci NJ1 | ||||
chl025 | 37 | Chlamydia psittaci RD1 | ||||
chl026 | 38 | Chlamydia psittaci VS225 | ||||
chl027 | 38 | Chlamydia psittaci WC | ||||
chl028 | 38 | Chlamydia psittaci WS/RT/E30 | ||||
1 | 111 | 1 | chl029 | 37 | Chlamydia trachomatis 434/Bu | |
chl030 | 37 | Chlamydia trachomatis 6276 | ||||
chl031 | 37 | Chlamydia trachomatis 6276s | ||||
chl032 | 37 | Chlamydia trachomatis 70 | ||||
chl033 | 37 | Chlamydia trachomatis 70s | ||||
chl034 | 37 | Chlamydia trachomatis A/363 | ||||
chl035 | 37 | Chlamydia trachomatis A/5291 | ||||
chl036 | 37 | Chlamydia trachomatis A/7249 | ||||
chl037 | 37 | Chlamydia trachomatis A/HAR-13 | ||||
2*37 | chl038 | 74 | Chlamydia trachomatis A2497 | |||
chl039 | 37 | Chlamydia trachomatis B/Jali20/OT | ||||
chl040 | 37 | Chlamydia trachomatis B/TZ1A828/OT | ||||
chl041 | 37 | Chlamydia trachomatis C/TW-3 | ||||
chl042 | 37 | Chlamydia trachomatis D-EC | ||||
chl043 | 37 | Chlamydia trachomatis D-LC | ||||
chl044 | 37 | Chlamydia trachomatis D/13-96 | ||||
chl045 | 37 | Chlamydia trachomatis D/14-96 | ||||
chl046 | 37 | Chlamydia trachomatis D/SotonD1 | ||||
chl047 | 37 | Chlamydia trachomatis D/SotonD5 | ||||
chl048 | 37 | Chlamydia trachomatis D/SotonD6 | ||||
chl049 | 37 | Chlamydia trachomatis D/UW-3/CX | ||||
chl050 | 37 | Chlamydia trachomatis Ds2923 | ||||
chl051 | 37 | Chlamydia trachomatis E/11023 | ||||
chl052 | 36 | Chlamydia trachomatis E/12-94 | ||||
chl053 | 37 | Chlamydia trachomatis E/150 | ||||
chl054 | 37 | Chlamydia trachomatis E/Bour | ||||
chl055 | 37 | Chlamydia trachomatis E/C599 | ||||
chl056 | 37 | Chlamydia trachomatis E/SotonE4 | ||||
chl057 | 37 | Chlamydia trachomatis E/SotonE8 | ||||
chl058 | 37 | Chlamydia trachomatis E/SW3 | ||||
chl059 | 37 | Chlamydia trachomatis F/1-93 | ||||
chl060 | 37 | Chlamydia trachomatis F/11-96 | ||||
chl061 | 37 | Chlamydia trachomatis F/2-93 | ||||
chl062 | 37 | Chlamydia trachomatis F/6-94 | ||||
chl063 | 37 | Chlamydia trachomatis F/SotonF3 | ||||
chl064 | 37 | Chlamydia trachomatis F/SW4 | ||||
chl065 | 37 | Chlamydia trachomatis F/SW5 | ||||
chl066 | 37 | Chlamydia trachomatis F/SWFPminus | ||||
chl067 | 37 | Chlamydia trachomatis G/11074 | ||||
chl068 | 37 | Chlamydia trachomatis G/11222 | ||||
chl069 | 37 | Chlamydia trachomatis G/9301 | ||||
chl070 | 37 | Chlamydia trachomatis G/9768 | ||||
chl071 | 37 | Chlamydia trachomatis G/SotonG1 | ||||
chl072 | 37 | Chlamydia trachomatis Ia/SotonIa1 | ||||
chl073 | 37 | Chlamydia trachomatis Ia/SotonIa3 | ||||
chl074 | 37 | Chlamydia trachomatis Ia20-97 | ||||
chl075 | 37 | Chlamydia trachomatis IU824 | ||||
chl076 | 37 | Chlamydia trachomatis IU888 | ||||
chl077 | 38 | Chlamydia trachomatis J/27-97 | ||||
chl078 | 37 | Chlamydia trachomatis J/31-98 | ||||
chl079 | 37 | Chlamydia trachomatis J/6276tet1 | ||||
chl080 | 37 | Chlamydia trachomatis K/SotonK1 | ||||
chl081 | 37 | Chlamydia trachomatis L1/115 | ||||
chl082 | 37 | Chlamydia trachomatis L1/1322/p2 | ||||
chl083 | 37 | Chlamydia trachomatis L1/224 | ||||
chl084 | 37 | Chlamydia trachomatis L1/440/LN | ||||
chl085 | 37 | Chlamydia trachomatis L2/25667R | ||||
chl086 | 37 | Chlamydia trachomatis L2/434/Buf | ||||
chl087 | 37 | Chlamydia trachomatis L2/434/Bui | ||||
chl088 | 37 | Chlamydia trachomatis L2b/795 | ||||
chl089 | 37 | Chlamydia trachomatis L2b/8200/07 | ||||
chl090 | 37 | Chlamydia trachomatis L2b/Ams1 | ||||
chl091 | 37 | Chlamydia trachomatis L2b/Ams2 | ||||
chl092 | 37 | Chlamydia trachomatis L2b/Ams3 | ||||
chl093 | 37 | Chlamydia trachomatis L2b/Ams4 | ||||
chl094 | 37 | Chlamydia trachomatis L2b/Ams5 | ||||
chl095 | 37 | Chlamydia trachomatis L2b/Canada1 | ||||
chl096 | 37 | Chlamydia trachomatis L2b/Canada2 | ||||
chl097 | 37 | Chlamydia trachomatis L2b/CS19/08 | ||||
chl098 | 37 | Chlamydia trachomatis L2b/CS784/08 | ||||
chl099 | 37 | Chlamydia trachomatis L2b/CV204 | ||||
chl100 | 37 | Chlamydia trachomatis L2b/LST | ||||
chl101 | 37 | Chlamydia trachomatis L2b/UCH-1/proctitis | ||||
chl102 | 37 | Chlamydia trachomatis L2b/UCH-2 | ||||
chl103 | 37 | Chlamydia trachomatis L2c | ||||
chl104 | 37 | Chlamydia trachomatis L2tet1 | ||||
chl105 | 37 | Chlamydia trachomatis L3/404/LN | ||||
chl106 | 37 | Chlamydia trachomatis RC-F/69 | ||||
chl107 | 37 | Chlamydia trachomatis RC-Fs/342 | ||||
chl108 | 37 | Chlamydia trachomatis RC-Fs/852 | ||||
chl109 | 37 | Chlamydia trachomatis RC-J/943 | ||||
chl110 | 37 | Chlamydia trachomatis RC-J/953 | ||||
chl111 | 37 | Chlamydia trachomatis RC-J/966 | ||||
chl112 | 37 | Chlamydia trachomatis RC-J/971 | ||||
chl113 | 37 | Chlamydia trachomatis RC-Js/122 | ||||
chl114 | 37 | Chlamydia trachomatis RC-L2/55 | ||||
chl115 | 37 | Chlamydia trachomatis RC-L2s/3 | ||||
chl116 | 37 | Chlamydia trachomatis RC-L2s/46 | ||||
chl117 | 37 | Chlamydia trachomatis Sweden2 | ||||
1 | 111 | 1 | chl118 | 38 | Chlamydophila abortus AB7 | |
chl119 | 38 | Chlamydophila abortus S26/3 | ||||
1 | 111 | 1 | chl120 | 38 | Chlamydophila caviae GPIC | |
1 | 111 | 1 | chl121 | 38 | Chlamydophila felis Fe/C-56 | |
1 | 433 | 1 | chl122 | 41 | Parachlamydia acanthamoebae UV-7 | |
1 | 111 | 1 | chl123 | 35 | Simkania negevensis Z | |
1 | 222 | 1 | chl124 | 37 | Waddlia chondrophila WSU 86-1044 | |
12 | 12 |
cyanobacteria
modifiercyano blocs
modifier- Lien tableur: cyano blocs
- Légende:
- - 23s': possible 23S ribosomal RNA but does not have good blast hits on one or both of the ends.
- - 23s°: 23S ribosomal RNA rRNA prediction is too short
- - 16s': possible 16S ribosomal RNA but does not have good blast hits on one or both of the ends.
- - 16s°: 16S ribosomal RNA rRNA prediction is too short
lien | blocs | 16s | total aas | avec | sans | total page | cya01-83 | Notes | |||
---|---|---|---|---|---|---|---|---|---|---|---|
cya01 | 2*16atcgca235 | 2 | 77 | 4 | 73 | 16s23s5s | 16-atcgca-35 | 16-atc-35 | |||
cya02 | 2*16atcgca235 | 4 | 68 | 4 | 64 | sans | 17 | 44 | 13 | cds | |
2*16s23s5s | cds | 1 | 16atcgca-23s°-cds-23s°-5s | ||||||||
16atcgca-cds-235 | |||||||||||
cya05 | 16atcgca235 | 2 | 40 | 4 | 36 | 75 | total | 17 | 45 | 13 | |
16atcgca23 | incomplets | ||||||||||
5s | 3*16atcgca23 | ||||||||||
16atcgca-23s°-cds-23s°-5s | |||||||||||
cya08 | 2*16atcgca235 | 3 | 80 | 4 | 76 | 16s-atcgca – | |||||
16s23s5s | 23s°-16s°-atcgca | ||||||||||
16atcgca-23s’ | |||||||||||
cya09 | 2*16-atc-235 | 2 | 39 | 2 | 37 | 16s | |||||
cya10 | 3*16atcgca235 | 3 | 57 | 6 | 51 | ||||||
cya11 | 3*16-atc-235 | 3 | 46 | 3 | 43 | autres incomplets | |||||
cya12 | 4*16s23s5s | 4 | 43 | 0 | 43 | 2*23s5s | |||||
cya13 | 3*16atcgca235 | 3 | 44 | 6 | 38 | 16s°-atcgca-23s° – | |||||
cya16 | 2*16atcgca235 | 2 | 46 | 4 | 42 | 16s23s5s-16s°-23s° – | |||||
cya17 | 2*16-atc-235 | 2 | 44 | 2 | 42 | 23s°-5s | |||||
cya23 | 2*16atcgca235 | 4 | 77 | 4 | 73 | 5s de trop | |||||
2*16s23s5s | 2*5s | ||||||||||
cya24 | 2*16atcgca235 | 3 | 42 | 4 | 38 | ||||||
16s23s5s | |||||||||||
cya25 | 3*16atcgca235 | 3 | 50 | 6 | 44 | ||||||
cya26 | 16atcgca235 | 1 | 52 | 2 | 50 | ||||||
cya28 | 2*16-atc-235 | 2 | 41 | 2 | 39 | ||||||
cya29 | 3*16atcgca235 | 3 | 46 | 6 | 40 | ||||||
cya30 | 2*16atcgca235 | 2 | 48 | 4 | 44 | ||||||
cya31 | 2*16atcgca235 | 4 | 74 | 4 | 70 | ||||||
2*16s23s5s | |||||||||||
cya32 | 2*16-atc-235 | 2 | 42 | 2 | 40 | ||||||
cya33 | 16s23s5s | 5 | 48 | 8 | 40 | ||||||
2*23s5s | |||||||||||
16atcgca-23s’ | |||||||||||
16s°-atcgca-23s° – | |||||||||||
16s23s5s-16s°-23s° – | |||||||||||
23s°-5s | |||||||||||
16s-atcgca – | |||||||||||
23s°-16s°-atcgca | |||||||||||
16s | |||||||||||
cya34 | 4*16atcgca235 | 4 | 90 | 8 | 82 | ||||||
cya38 | 2*16s23s5s | 3 | 72 | 2 | 70 | ||||||
16atcgca235 | |||||||||||
cya40 | 2*16-atc-235 | 42 | 2 | 40 | |||||||
16s23s5s | 3 | ||||||||||
cya41 | 16atcgca235 | 1 | 41 | 2 | 39 | ||||||
cya55 | 2*16atcgca235 | 2 | 47 | 4 | 43 | ||||||
cya56 | 3*16atcgca235 | 3 | 57 | 6 | 51 | ||||||
cya57 | 16atcgca235 | 2 | 45 | 4 | 41 | ||||||
16atcgca-23s°-cds-23s°-5s | |||||||||||
cya58 | 2*16atcgca235 | 2 | 46 | 4 | 42 | ||||||
cya81 | 16atcgca-cds-235 | 1 | 42 | 2 | 40 | ||||||
cya83 | 2*16atcgca23s | 2 | 38 | 4 | 34 | ||||||
5s | 82 | ||||||||||
lien | blocs | 16s | total aas | avec | sans | total page | cya01-83 | Notes | |||
31 | 16s23s5s | 16-atcgca-35 | 16-atc-35 | ||||||||
Total | 1624 | 119 | 1505 | sans | 17 | 44 | 13 | cds | |||
Moyenne | 52 | 4 | 49 | cds | 1 | 16atcgca-23s°-cds-23s°-5s | |||||
Ecartype | 14 | 2 | 14 | 16atcgca-cds-235 | |||||||
Max | 90 | 8 | 82 | 75 | total | 17 | 45 | 13 | |||
Min | 38 | 0 | 34 | incomplets | |||||||
3*16atcgca23 | |||||||||||
16atcgca-23s°-cds-23s°-5s | |||||||||||
blocs | 82 | 16s-atcgca – | |||||||||
génomes | 31 | 23s°-16s°-atcgca | |||||||||
avant | 0 | 16atcgca-23s’ | |||||||||
après | 0 | 16s | |||||||||
cds | 2 | ||||||||||
atcgca | 62% | autres incomplets | |||||||||
atc | 16% | 2*23s5s | |||||||||
16s23s5s | 21% | 16s°-atcgca-23s° – | |||||||||
16s23s5s-16s°-23s° – | |||||||||||
23s°-5s | |||||||||||
5s de trop | |||||||||||
2*5s |
cyano notes
modifier- Lien tableur: cyano notes
intercalaire | long pbs | protéines | ||
---|---|---|---|---|
Notes du cya033 | ||||
16s23s5s-16s°-23s°-23s°-5s | ||||
< | cds | 161 | 144 | IS630 family transposase |
comp | 5s | 121 | 118 | |
comp | 23s° | 61 | 1836 | |
comp | 23s° | 349 | 1103 | |
comp | 16s° | 258 | 223 | |
comp | 5s | 121 | 118 | |
comp | 23s | 349 | 2834 | |
comp | 16s | 60 | 1326 | |
comp | 23s° | 123 | 1027 | |
comp | gca | 83 | 73 | |
comp | atc | 121 | 74 | |
comp | 16s° | 66 | 975 | |
comp | cds | 216 | gas vesicle structural protein GvpA | |
16s | ||||
> | cds | 129 | 400 | IS630 family transposase |
comp | gca | 83 | 73 | |
comp | atc | 121 | 74 | |
comp | 16s° | 60 | 152 | |
comp | 23s° | 314 | 1446 | |
comp | gca | 83 | 73 | |
comp | atc | 121 | 74 | |
comp | 16s | 312 | 1491 | |
dir | cds | 867 | carboxylating nicotinate-nucleotide diphosphorylase | |
16s | ||||
> comp | cds | 205 | 1206 | HNH endonuclease |
comp | 16s | 270 | 1491 | |
dir | cds | 204 | hp | |
Notes du cya057 | ||||
16atcgca-23s°-cds-23s°-5s | ||||
comp | cds | 93 | 1299 | dihydroorotase |
comp | 5s | 71 | 118 | |
comp | 23s° | 24 | 1005 | |
comp | cds | 92 | 1176 | transposase |
comp | 23s° | 174 | 1834 | |
comp | gca | 83 | 76 | |
comp | atc | 119 | 77 | |
comp | 16s | 304 | 1498 | |
comp | cds | :2 | 1518 | 4-alpha-glucanotransferase |
Notes du cya057 | ||||
16atcgca-cds-235 | ||||
comp | cds | 228 | 243 | hp |
comp | 5s | 123 | 121 | |
comp | 23s | 150 | 306 | |
comp | cds | 67 | 528 | site-specific DNA endonuclease |
comp | 23s suite | 146 | 2565 | |
comp | gca | 12 | 73 | |
comp | atc | 115 | 74 | |
comp | 16s | 294 | 1491 | |
cds | 297 | hp |
cyano typage
modifier- Lien tableur: cyano typage
- Type 16-y-235 après 16s
type tableau incomplets total % 16s23s5s 17 17 22 atcgca 44 3 47 60 atc 13 13 17 atcgca-cds 1 1 1 total 75 3 78
- Type 16235-z après 5s, néant
- Type x-16235 avant 16s, néant
cyano noms
modifier- Lien tableur: cyano noms
Prélèvement: fait vers le 20.8.19 et mise en forme le
- Légende:
- - rRNAs, 666 ou "10,10,10", sous la forme indiquée par NCBI, (5S, 16S, 23S).
- - rupture, sélection des génomes sur les 2 premiers attributs
- - fait, dans génomes cyano
- - code, utilisé dans les génomes "fait"
- - tRNAs, nombre de tRNAs tel qu'il est déduit de la de la construction des noms.
- Construction de la liste des noms
- Statistiques
tRNAs total 4062 génomes ruptures faits total 72 31 83
ruptures | notes | rRNAs | faits | code | tRNAs | génome |
---|---|---|---|---|---|---|
1 | 222 | 1 | cya01 | 77 | Acaryochloris marina MBIC11017 | |
1 | 444 | 1 | cya02 | 68 | Anabaena cylindrica PCC 7122 | |
1 | cya03 | 44 | Anabaena sp. 90 | |||
1 | cya04 | 49 | Anabaena variabilis ATCC 29413 | |||
1 | 222 | 1 | cya05 | 40 | Arthrospira platensis NIES-39 | |
1 | cya06 | 42 | Arthrospira sp. PCC 8005 | |||
1 | cya07 | 44 | Calothrix sp. PCC 6303 | |||
1 | 333 | 1 | cya08 | 80 | Calothrix sp. PCC 7507 | |
1 | 222 | 1 | cya09 | 39 | Candidatus Atelocyanobacterium thalassa isolate ALOHA | |
1 | 333 | 1 | cya10 | 57 | Chamaesiphon minutus PCC 6605 | |
1 | 333 | 1 | cya11 | 46 | Chroococcidiopsis thermalis PCC 7203 | |
1 | 444 | 1 | cya12 | 43 | Crinalium epipsammum PCC 9333 | |
1 | 333 | 1 | cya13 | 44 | Cyanobacterium aponinum PCC 10605 | |
1 | cya14 | 40 | cyanobacterium endosymbiont of Epithemia turgida isolate EtSB Lake Yunoko | |||
1 | cya15 | 43 | Cyanobacterium stanieri PCC 7202 | |||
1 | 222 | 1 | cya16 | 46 | Cyanobium gracile PCC 6307 | |
1 | 222 | 1 | cya17 | 44 | Cyanothece sp. ATCC 51142 | |
1 | cya18 | 47 | Cyanothece sp. PCC 7424 | |||
1 | cya19 | 49 | Cyanothece sp. PCC 7425 | |||
1 | cya20 | 52 | Cyanothece sp. PCC 7822 | |||
1 | cya21 | 47 | Cyanothece sp. PCC 8801 | |||
1 | cya22 | 46 | Cyanothece sp. PCC 8802 | |||
1 | 444 | 1 | cya23 | 77 | Cylindrospermum stagnale PCC 7417 | |
1 | 333 | 1 | cya24 | 42 | Dactylococcopsis salina PCC 8305 | |
1 | 333 | 1 | cya25 | 50 | Geitlerinema sp. PCC 7407 | |
1 | 111 | 1 | cya26 | 52 | Gloeobacter kilaueensis JS1 | |
1 | cya27 | 44 | Gloeobacter violaceus PCC 7421 | |||
1 | 222 | 1 | cya28 | 41 | Gloeocapsa sp. PCC 7428 | |
1 | 333 | 1 | cya29 | 46 | Halothece sp. PCC 7418 | |
1 | 222 | 1 | cya30 | 48 | Leptolyngbya sp. PCC 7376 | |
1 | 444 | 1 | cya31 | 74 | Microcoleus sp. PCC 7113 | |
1 | 222 | 1 | cya32 | 42 | Microcystis aeruginosa NIES-843 | |
1 | 454 | 1 | cya33 | 48 | Nodularia spumigena CCY9414 | |
1 | 444 | 1 | cya34 | 90 | Nostoc punctiforme PCC 73102 ATCC 29133 | |
1 | cya35 | 82 | Nostoc sp. PCC 7107 | |||
1 | cya36 | 74 | Nostoc sp. PCC 7120 | |||
1 | cya37 | 70 | Nostoc sp. PCC 7524 | |||
1 | 333 | 1 | cya38 | 72 | Oscillatoria acuminata PCC 6304 | |
1 | cya39 | 78 | Oscillatoria nigro-viridis PCC 7112 | |||
1 | 333 | 1 | cya40 | 42 | Pleurocapsa sp. PCC 7327 | |
1 | 111 | 1 | cya41 | 41 | Prochlorococcus marinus str. AS9601 | |
cya42 | 40 | Prochlorococcus marinus str. MIT 9211 MIT9211 | ||||
cya43 | 41 | Prochlorococcus marinus str. MIT 9215 | ||||
cya44 | 38 | Prochlorococcus marinus str. MIT 9301 | ||||
cya45 | 46 | Prochlorococcus marinus str. MIT 9303 | ||||
cya46 | 45 | Prochlorococcus marinus str. MIT 9312 | ||||
cya47 | 48 | Prochlorococcus marinus str. MIT 9313 MIT9313 | ||||
cya48 | 38 | Prochlorococcus marinus str. MIT 9515 | ||||
cya49 | 39 | Prochlorococcus marinus str. NATL1A | ||||
cya50 | 39 | Prochlorococcus marinus str. NATL2A | ||||
cya51 | 40 | Prochlorococcus marinus subsp. marinus str. CCMP1375 SS120 | ||||
cya52 | 38 | Prochlorococcus marinus subsp. pastoris str. CCMP1986 MED4 | ||||
1 | cya53 | 43 | Prochlorococcus sp. MIT 0604 | |||
1 | cya54 | 41 | Prochlorococcus sp. MIT 0801 | |||
1 | 222 | 1 | cya55 | 47 | Pseudanabaena sp. PCC 7367 | |
1 | 333 | 1 | cya56 | 57 | Rivularia sp. PCC 7116 | |
1 | 221 | 1 | cya57 | 45 | Stanieria cyanosphaera PCC 7437 | |
1 | 222 | 1 | cya58 | 46 | Synechococcus elongatus PCC 6301 | |
1 | cya59 | 46 | Synechococcus elongatus PCC 7942 | |||
1 | cya60 | 44 | Synechococcus sp. CC9311 | |||
1 | cya61 | 52 | Synechococcus sp. CC9605 | |||
1 | cya62 | 45 | Synechococcus sp. CC9902 | |||
1 | cya63 | 45 | Synechococcus sp. JA-2-3Ba2-13 | |||
1 | cya64 | 47 | Synechococcus sp. JA-3-3Ab | |||
1 | cya65 | 43 | Synechococcus sp. KORDI-100 | |||
1 | cya66 | 45 | Synechococcus sp. KORDI-49 | |||
1 | cya67 | 48 | Synechococcus sp. KORDI-52 | |||
1 | cya68 | 42 | Synechococcus sp. PCC 6312 | |||
1 | cya69 | 45 | Synechococcus sp. PCC 7002 ATCC 27264 | |||
1 | cya70 | 43 | Synechococcus sp. PCC 7502 | |||
1 | cya71 | 42 | Synechococcus sp. RCC307 | |||
1 | cya72 | 45 | Synechococcus sp. UTEX 2973 | |||
1 | cya73 | 45 | Synechococcus sp. WH 7803 | |||
1 | cya74 | 44 | Synechococcus sp. WH 8109 | |||
1 | cya75 | 42 | Synechocystis sp. PCC 6714 | |||
1 | cya76 | 82 | Synechocystis sp. PCC 6803 | |||
1 | cya77 | 41 | Synechocystis sp. PCC 6803 GT-S | |||
1 | cya78 | 41 | Synechocystis sp. PCC 6803 substr. GT-I | |||
1 | cya79 | 41 | Synechocystis sp. PCC 6803 substr. PCC-N | |||
1 | cya80 | 41 | Synechocystis sp. PCC 6803 substr. PCC-P | |||
1 | 111 | 1 | cya81 | 42 | Thermosynechococcus elongatus BP-1 | |
1 | cya82 | 42 | Thermosynechococcus sp. NK55a | |||
1 | 122 | 1 | cya83 | 38 | Trichodesmium erythraeum IMS101 | |
72 | 31 |
Spirochaetes
modifierspiro blocs
modifier- Lien tableur: spiro blocs
- Légende:
- - 23s': possible 23S ribosomal RNA but does not have good blast hits on one or both of the ends.
- - 23s°: 23S ribosomal RNA rRNA prediction is too short
- - 16s': possible 16S ribosomal RNA but does not have good blast hits on one or both of the ends.
- - 16s°: 16S ribosomal RNA rRNA prediction is too short
lien | blocs | 16s | total aas | avec | sans | total page | spi01-70 | Notes | ||||
---|---|---|---|---|---|---|---|---|---|---|---|---|
spi01 | 16s-gca, cds,235 | 2 | 32 | 2 | 30 | 16-atcgca-35 | 16-gca-35 | 16-atc-35 | 16s, 235s | |||
16s-atc, cds,235 | sans | 2 | 7 | 5 | 2 | incomplets | ||||||
cds | 3 | 2 | 4*16s | |||||||||
spi07 | 16s-gca, cds,235 | 1 | 32 | 2 | 30 | |||||||
16s°-cds-atc, 235 | 21 | total | 2 | 10 | 7 | 2 | autres incomplets | |||||
4*23s | ||||||||||||
spi14 | 16s-gca, cds,235 | 2 | 32 | 2 | 30 | 16s°-cds-atc, 235 | ||||||
16s-atc, cds,235 | ||||||||||||
cds création | ||||||||||||
spi26 | 16s, 235s | 1 | 34 | 0 | 34 | 3*(16s-gca, cds,235) | ||||||
spi30 | 16s, 235s | 1 | 34 | 0 | 34 | 2*(16s-atc, cds,235) | ||||||
spi33 | 2*16s | 2 | 35 | 0 | 35 | 16s°-cds-atc, 235 | ||||||
2*23s | ||||||||||||
2*5s | 5s de trop | |||||||||||
3*5s | ||||||||||||
spi37 | 2*16s | 2 | 37 | 0 | 37 | |||||||
2*23s | ||||||||||||
5s | ||||||||||||
spi41 | 16-gca-235 | 2 | 44 | 2 | 42 | |||||||
16s-atc-235 | ||||||||||||
spi42 | 2*16-gca-235 | 3 | 47 | 3 | 44 | |||||||
16s-atc-235 | ||||||||||||
spi45 | 2*16-atc-235 | 3 | 47 | 3 | 44 | |||||||
16-gca-235 | ||||||||||||
spi49 | 2*16-gca-235 | 2 | 47 | 2 | 45 | |||||||
spi53 | 16-gca-235 | 2 | 45 | 2 | 43 | |||||||
16s-atc-235 | ||||||||||||
spi70 | 2*16atcgca235 | 2 | 41 | 4 | 37 | |||||||
25 | ||||||||||||
lien | blocs | 16s | total aas | avec | sans | total page | spi01-70 | Notes | ||||
13 | 16-atcgca-35 | 16-gca-35 | 16-atc-35 | 16s, 235s | ||||||||
sans | 2 | 7 | 5 | 2 | incomplets | |||||||
Moyenne | 39 | 2 | 37 | cds | 3 | 2 | 4*16s | |||||
Ecartype | 6 | 1 | 6 | |||||||||
Max | 47 | 4 | 45 | 21 | total | 2 | 10 | 7 | 2 | autres incomplets | ||
Min | 32 | 0 | 30 | 4*23s | ||||||||
16s°-cds-atc, 235 | ||||||||||||
blocs | 25 | cds création | ||||||||||
génomes | 13 | 3*(16s-gca, cds,235) | ||||||||||
avant | 0 | 2*(16s-atc, cds,235) | ||||||||||
après | 0 | 16s°-cds-atc, 235 | ||||||||||
cds | 6 / 3 | |||||||||||
5s de trop | ||||||||||||
3*5s |
spiro notes
modifier- Lien tableur: spiro notes
génome | sens | gène | intercal | long pbs | protéines |
---|---|---|---|---|---|
spi01 | 16s-gca, 16s-atc, 235-235 | ||||
comp | cds | 97 | 4482 | transporter substrate-binding domain-containing protein | |
comp | 5s | 20 | 111 | ||
comp | 23s | 170 | 2935 | ||
comp | 5s | 20 | 111 | ||
comp | 23s | 198 | 2935 | ||
comp | cds | 135 | 843 | Cof-type HAD-IIB family hydrolase | |
comp | cds | 640 | 558 | DNA-3-methyladenine glycosylase | |
atc | 377 | 74 | |||
comp | 16s | 193 | 1464 | ||
comp | gca | 173 | 74 | ||
comp | 16s | 209 | 1543 | ||
comp | cds | 549 | nucleoside deoxyribosyltransferase | ||
spi07 | 16s-gca, 16s°-atc, 235-235 | ||||
comp | cds | 97 | 4485 | response regulator | |
comp | 5s | 21 | 111 | ||
comp | 23s | 178 | 2935 | ||
comp | 5s | 21 | 111 | ||
comp | 23s | 200 | 2935 | ||
comp | cds | 135 | 840 | Cof-type HAD-IIB family hydrolase | |
comp | cds | 374 | 561 | DNA-3-methyladenine glycosylase | |
atc | 66 | 74 | |||
comp | cds | 168 | 204 | hp | |
comp | 16s° | 79 | 122 | ||
comp | gca | 168 | 74 | ||
comp | 16s | 204 | 1545 | ||
comp | cds | 549 | nucleoside deoxyribosyltransferase | ||
spi14 | 16s-gca, 16s-atc, 235-235 | ||||
comp | cds | 98 | 4485 | transporter substrate-binding domain-containing protein | |
comp | 5s | 21 | 111 | ||
comp | 23s | 177 | 2935 | ||
comp | 5s | 21 | 111 | ||
comp | 23s | 197 | 2935 | ||
comp | cds | 124 | 843 | Cof-type HAD-IIB family hydrolase | |
comp | cds | 1030 | 561 | DNA-3-methyladenine glycosylase | |
atc | 383 | 74 | |||
comp | 16s | 147 | 1087 | ||
comp | gca | 166 | 74 | ||
comp | 16s | 208 | 1543 | ||
comp | cds | 549 | nucleoside deoxyribosyltransferase |
spiro typage
modifier- Lien tableur: spiro typage
- Type 16-y-235 après 16s: Les 5 blocs à cds sont particuliers et appartiennent à 3 génomes. Voir spiro notes
type tableau % 16s23s5s 0 0 atcgca 2 10 atc 5 24 gca 7 33 atc, gca, cds 5 24 16s, 235s 2 10 total 21
- Type 16235-z après 5s, néant
- Type x-16235 avant 16s, néant
spiro noms
modifier- Lien tableur: spiro noms
Prélèvement: fait vers le 20.8.19 et mise en forme le
- Légende:
- - rRNAs, 666 ou "10,10,10", sous la forme indiquée par NCBI, (5S, 16S, 23S).
- - rupture, sélection des génomes sur les 2 premiers attributs
- - fait, dans génomes spiro
- - code, utilisé dans les génomes "fait"
- - tRNAs, nombre de tRNAs tel qu'il est déduit de la de la construction des noms.
- Construction de la liste des noms
- Statistiques
tRNAs total 2841 génomes ruptures faits total 39 13 70
ruptures | notes | rRNAs | faits | code | tRNAs | génomes |
---|---|---|---|---|---|---|
1 | 222 | 1 | spi01 | 32 | Borrelia afzelii HLJ01 | |
spi02 | 32 | Borrelia afzelii K78 | ||||
spi03 | 33 | Borrelia afzelii PKo | ||||
spi04 | 32 | Borrelia afzelii Tom3107 | ||||
1 | spi05 | 32 | Borrelia bissettii DN127 | |||
1 | 32*2 | spi06 | 64 | Borrelia burgdorferi B31 | ||
212 | 1 | spi07 | 32 | Borrelia burgdorferi CA382 | ||
spi08 | 32 | Borrelia burgdorferi JD1 | ||||
spi09 | 32 | Borrelia burgdorferi N40 | ||||
spi10 | 32 | Borrelia burgdorferi ZS7 | ||||
1 | spi11 | 31 | Borrelia chilensis VA1 | |||
1 | spi12 | 32 | Borrelia crocidurae str. Achema | |||
1 | spi13 | 32 | Borrelia duttonii Ly | |||
1 | 222 | 1 | spi14 | 32 | Borrelia garinii BgVir | |
spi15 | 33 | Borrelia garinii NMJW1 | ||||
spi16 | 32 | Borrelia garinii PBi | ||||
spi17 | 33 | Borrelia garinii SZ | ||||
1 | spi18 | 32 | Borrelia hermsii CC1 | |||
1 | spi19 | 32 | Borrelia miyamotoi CT14D4 | |||
spi20 | 32 | Borrelia miyamotoi LB-2001 | ||||
1 | spi21 | 32 | Borrelia parkeri HR1 | |||
1 | spi22 | 32 | Borrelia recurrentis A1 | |||
1 | spi23 | 32 | Borrelia turicatae 91E135 | |||
1 | spi24 | 32 | Borrelia valaisiana Tom4006 | |||
spi25 | 33 | Borrelia valaisiana VS116 | ||||
1 | 111 | 1 | spi26 | 34 | Brachyspira hyodysenteriae WA1 ATCC 49526 | |
1 | spi27 | 34 | Brachyspira intermedia PWS/A | |||
1 | spi28 | 35 | Brachyspira murdochii DSM 12563 | |||
1 | spi29 | 34 | Brachyspira pilosicoli 95/1000 | |||
111 | 1 | spi30 | 34 | Brachyspira pilosicoli B2904 | ||
spi31 | 34 | Brachyspira pilosicoli P43/6/78 | ||||
spi32 | 34 | Brachyspira pilosicoli WesB | ||||
1 | 222 | 1 | spi33 | 35 | Leptospira biflexa serovar Patoc strain Patoc 1 Ames | |
spi34 | 35 | Leptospira biflexa serovar Patoc strain Patoc 1 Paris | ||||
1 | spi35 | 37 | Leptospira borgpetersenii serovar Hardjo-bovis str. JB197 | |||
spi36 | 37 | Leptospira borgpetersenii serovar Hardjo-bovis str. L550 | ||||
1 | 122 | 1 | spi37 | 37 | Leptospira interrogans serovar Copenhageni str. Fiocruz L1-130 | |
spi38 | 37 | Leptospira interrogans serovar Lai str. 56601 | ||||
spi39 | 37 | Leptospira interrogans serovar Lai str. IPAV | ||||
spi40 | 37 | Leptospira interrogans serovar Linhai str. 56609 | ||||
1 | 222 | 1 | spi41 | 44 | Salinispira pacifica L21-RPul-D2 | |
1 | 333 | 1 | spi42 | 47 | Sphaerochaeta coccoides DSM 17374 | |
1 | spi43 | 48 | Sphaerochaeta globosa str. Buddy | |||
1 | spi44 | 49 | Sphaerochaeta pleomorpha str. Grapes | |||
1 | 333 | 1 | spi45 | 47 | Spirochaeta africana DSM 8902 | |
1 | spi46 | 50 | Spirochaeta smaragdinae DSM 11293 | |||
1 | spi47 | 46 | Spirochaeta thermophila DSM 6192 | |||
spi48 | 46 | Spirochaeta thermophila DSM 6578 | ||||
1 | 222 | 1 | spi49 | 47 | Treponema azotonutricium ZAS-9 | |
1 | spi50 | 47 | Treponema brennaborense DSM 12168 | |||
1 | spi51 | 48 | Treponema caldaria DSM 7334 | |||
1 | spi52 | 44 | Treponema denticola ATCC 35405 | |||
1 | 222 | 1 | spi53 | 45 | Treponema pallidum str. Fribourg-Blanc | |
spi54 | 45 | Treponema pallidum subsp. endemicum str. Bosnia A | ||||
spi55 | 45 | Treponema pallidum subsp. pallidum DAL-1 | ||||
spi56 | 90 | Treponema pallidum subsp. pallidum SS14 | ||||
spi57 | 45 | Treponema pallidum subsp. pallidum str. Chicago | ||||
spi58 | 45 | Treponema pallidum subsp. pallidum str. Mexico A | ||||
spi59 | 90 | Treponema pallidum subsp. pallidum str. Nichols | ||||
spi60 | 45 | Treponema pallidum subsp. pallidum str. Sea 81-4 | ||||
spi61 | 45 | Treponema pallidum subsp. pertenue str. CDC2 | ||||
spi62 | 45 | Treponema pallidum subsp. pertenue str. Gauthier | ||||
spi63 | 45 | Treponema pallidum subsp. pertenue str. SamoaD | ||||
1 | spi64 | 45 | Treponema paraluiscuniculi Cuniculi A | |||
1 | spi65 | 45 | Treponema pedis str. T A4 | |||
1 | spi66 | 53 | Treponema primitia ZAS-2 | |||
1 | spi67 | 45 | Treponema putidum OMZ 758 | |||
1 | spi68 | 49 | Treponema sp. OMZ 838 | |||
1 | spi69 | 49 | Treponema succinifaciens DSM 2489 | |||
1 | 222 | 1 | spi70 | 41 | Turneriella parva DSM 21527 | |
39 | 13 |
Chloroflexi
modifierchlor blocs
modifier- Lien tableur: chlor blocs
- Légende:
- - 23s': possible 23S ribosomal RNA but does not have good blast hits on one or both of the ends.
- - 23s°: 23S ribosomal RNA rRNA prediction is too short
- - 16s': possible 16S ribosomal RNA but does not have good blast hits on one or both of the ends.
- - 16s°: 16S ribosomal RNA rRNA prediction is too short
lien | blocs | 16s | total aas | avec | sans | total page | clo01-22 | Notes | |||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
clo01 | 16s23s5s | 2 | 54 | 2 | 52 | 16s23s5s | 16-atcgca-35 | 16-atc-35 | 16s, 235s | 16-atc,35 | |||
16atcgca235 | sans | 2 | 1 | 2 | 2 | 2 | |||||||
atgf | 4 | 2 | |||||||||||
clo02 | 2*16-atc-235 | 2 | 48 | 2 | 46 | ||||||||
clo03 | 16s23s5s | 3 | 49 | 15 | total | 6 | 3 | 2 | 2 | 2 | |||
2*(16s,235s) | |||||||||||||
clo06 | 16s-atc, 235 | 1 | 49 | 1 | 48 | ||||||||
clo17 | 16s-atc, 235 | 1 | 48 | 1 | 47 | ||||||||
clo19 | 2*16235-atgf | 2 | 48 | 2 | 46 | ||||||||
clo21 | 16235-atgf | 2 | 50 | 2 | 48 | ||||||||
16atcgca235-atgf | |||||||||||||
clo22 | 16235-atgf | 2 | 49 | 2 | 47 | ||||||||
16atcgca235-atgf | |||||||||||||
15 | |||||||||||||
lien | blocs | 16s | total aas | avec | sans | total page | total | Notes | |||||
8 | 16s23s5s | 16-atcgca-35 | 16-atc-35 | 16s, 235s | 16-atc,35 | ||||||||
sans | 2 | 1 | 2 | 2 | 2 | ||||||||
Moyenne | 49 | 2 | 48 | atgf | 4 | 2 | |||||||
Ecartype | 2 | 0 | 2 | ||||||||||
Max | 54 | 2 | 52 | 15 | total | 6 | 3 | 2 | 2 | 2 | |||
Min | 48 | 1 | 46 | ||||||||||
blocs | 15 | ||||||||||||
génomes | 8 | ||||||||||||
avant | 0 | ||||||||||||
après atgf | 6 / 3 | ||||||||||||
cds | 0 | ||||||||||||
16s23s5s | 8 | ||||||||||||
16-aas-235 | 7 |
chlor notes
modifier- Lien tableur: chlor notes
chlor typage
modifier- Lien tableur: chlor typage
- Type 16-y-235 après 16s
type tableau incomplets total % 16s23s5s 6 2 8 53 atcgca 3 3 20 atc 2 2 4 27 total 13 2 15
- Type 16235-z après 5s, 6 blocs avec atgf en 3 génomes.
- Type x-16235 avant 16s, néant
chlor noms
modifier- Lien tableur: chlor noms
Prélèvement: fait vers le 20.8.19 et mise en forme le
- Légende:
- - rRNAs, 666 ou "10,10,10", sous la forme indiquée par NCBI, (5S, 16S, 23S).
- - rupture, sélection des génomes sur les 2 premiers attributs
- - fait, dans génomes chlor
- - code, utilisé dans les génomes "fait"
- - tRNAs, nombre de tRNAs tel qu'il est déduit de la de la construction des noms.
- Construction de la liste des noms
- Statistiques
tRNAs total 1076 génomes ruptures faits total 12 8 22
ruptures | notes | rRNAs | faits | code | tRNAs | génomes |
---|---|---|---|---|---|---|
1 | 222 | 1 | clo01 | 54 | Anaerolinea thermophila UNI-1 | |
1 | 222 | 1 | clo02 | 48 | Caldilinea aerophila DSM 14535 NBRC 104270 | |
1 | 333 | 1 | clo03 | 49 | Chloroflexus aggregans DSM 9485 | |
1 | clo04 | 50 | Chloroflexus aurantiacus J-10-fl | |||
1 | clo05 | 50 | Chloroflexus sp. Y-400-fl | |||
1 | 111 | 1 | clo06 | 49 | Dehalococcoides mccartyi 195 | |
clo07 | 48 | Dehalococcoides mccartyi BAV1 | ||||
clo08 | 49 | Dehalococcoides mccartyi BTF08 | ||||
clo09 | 47 | Dehalococcoides mccartyi CBDB1 | ||||
clo10 | 51 | Dehalococcoides mccartyi CG1 | ||||
clo11 | 47 | Dehalococcoides mccartyi CG4 | ||||
clo12 | 47 | Dehalococcoides mccartyi CG5 | ||||
clo13 | 47 | Dehalococcoides mccartyi DCMB5 | ||||
clo14 | 48 | Dehalococcoides mccartyi GT | ||||
clo15 | 47 | Dehalococcoides mccartyi GY50 | ||||
clo16 | 47 | Dehalococcoides mccartyi VS | ||||
1 | 111 | 1 | clo17 | 47 | Dehalogenimonas lykanthroporepellens BL-DC-9 | |
1 | clo18 | 55 | Herpetosiphon aurantiacus DSM 785 | |||
1 | 222 | 1 | clo19 | 48 | Roseiflexus castenholzii DSM 13941 | |
1 | clo20 | 49 | Roseiflexus sp. RS-1 | |||
1 | 222 | 1 | clo21 | 50 | Sphaerobacter thermophilus DSM 20745 | |
1 | 222 | 1 | clo22 | 49 | Thermomicrobium roseum DSM 5159 | |
12 | 8 |
Deinococcus-Thermus
modifierdeino blocs
modifier- Lien tableur: deino blocs
- Légende:
- - 23s': possible 23S ribosomal RNA but does not have good blast hits on one or both of the ends.
- - 23s°: 23S ribosomal RNA rRNA prediction is too short
- - 16s': possible 16S ribosomal RNA but does not have good blast hits on one or both of the ends.
- - 16s°: 16S ribosomal RNA rRNA prediction is too short
lien | blocs | 16s | total aas | avec | sans | total page | det01-20 | Notes | ||
---|---|---|---|---|---|---|---|---|---|---|
det01 | 16s23s5s | 4 | 50 | 3 | 47 | 16s23s5s | 16s, 235s | |||
3*16s, 23s5s-ggc | sans | 2 | 2 | incomplets | ||||||
ggc | 11 | 2*16s | ||||||||
det09 | 16s, 23s5s-ggc | 3 | 51 | 1 | 50 | |||||
2*16s | 15 | total | 2 | 13 | autres incomplets | |||||
235s | 235s | |||||||||
det10 | 2*16s, 23s5s-ggc | 2 | 50 | 2 | 48 | |||||
det12 | 2*16s, 23s5s | 2 | 48 | 0 | 48 | |||||
det13 | 2*16s, 23s5s-ggc | 2 | 56 | 2 | 54 | |||||
det16 | 2*16s, 23s5s-ggc | 2 | 49 | 2 | 47 | |||||
det20 | 16s23s5s | 2 | 46 | 1 | 45 | |||||
16s,23s5s-ggc | ||||||||||
17 | ||||||||||
lien | blocs | 16s | total aas | avec | sans | total page | det01-20 | Notes | ||
7 | 16s23s5s | 16s, 235s | ||||||||
sans | 2 | 2 | incomplets | |||||||
Moyenne | 50 | 2 | 48 | ggc | 11 | 2*16s | ||||
Ecartype | 3 | 1 | 3 | |||||||
Max | 56 | 3 | 54 | 15 | total | 2 | 13 | autres incomplets | ||
Min | 46 | 0 | 45 | 235s | ||||||
blocs | 17 | |||||||||
génomes | 7 | |||||||||
avant | 0 | |||||||||
après ggc | 11 / 6 | |||||||||
cds | 0 | |||||||||
16s23s5s | 15 | |||||||||
16-aas-235 | 0 |
deino notes
modifier- Lien tableur: deino notes
deino typage
modifier- Lien tableur: deino typage
- Type 16-y-235 après 16s
type tableau % 16s23s5s 2 13 16s,23s5s 13 87 total 15
- Type 16235-z après 5s, 11 blocs avec ggc en 6 génomes.
- Type x-16235 avant 16s, néant
deino noms
modifier- Lien tableur: deino noms
Prélèvement: fait vers le 20.8.19 et mise en forme le
- Légende:
- - rRNAs, 666 ou "10,10,10", sous la forme indiquée par NCBI, (5S, 16S, 23S).
- - rupture, sélection des génomes sur les 2 premiers attributs
- - fait, dans génomes deino
- - code, utilisé dans les génomes "fait"
- - tRNAs, nombre de tRNAs tel qu'il est déduit de la de la construction des noms.
- Construction de la liste des noms
- Statistiques
tRNAs total 1001 génomes ruptures faits total 17 7 20
ruptures | notes | rRNAs | faits | code | tRNAs | génomes |
---|---|---|---|---|---|---|
1 | 444 | 1 | det01 | 50 | Deinococcus deserti VCD115 | |
1 | det02 | 49 | Deinococcus geothermalis DSM 11300 | |||
1 | det03 | 49 | Deinococcus gobiensis I-0 | |||
1 | det04 | 58 | Deinococcus maricopensis DSM 21211 | |||
1 | det05 | 52 | Deinococcus peraridilitoris DSM 19664 | |||
1 | det06 | 47 | Deinococcus proteolyticus MRP | |||
1 | det07 | 51 | Deinococcus radiodurans R1 | |||
1 | det08 | 47 | Deinococcus swuensis DY59 | |||
1 | 232 | 1 | det09 | 51 | Marinithermus hydrothermalis DSM 14884 | |
1 | 222 | 1 | det10 | 50 | Meiothermus ruber DSM 1279 | |
1 | det11 | 52 | Meiothermus silvanus DSM 9946 | |||
1 | 222 | 1 | det12 | 48 | Oceanithermus profundus DSM 14977 | |
1 | 222 | 1 | det13 | 56 | Thermus oshimai JL-2 | |
1 | det14 | 50 | Thermus scotoductus SA-01 | |||
1 | det15 | 48 | Thermus sp. CCB US3 UF1 | |||
1 | 222 | 1 | det16 | 49 | Thermus thermophilus HB27 | |
det17 | 49 | Thermus thermophilus HB8 | ||||
det18 | 50 | Thermus thermophilus JL-18 | ||||
det19 | 49 | Thermus thermophilus SG0.5JP17-16 | ||||
1 | 222 | 1 | det20 | 46 | Truepera radiovictrix DSM 17093 | |
17 | 7 |
Thermotogae
modifiertoga blocs
modifier- Lien tableur: toga blocs
- Légende:
- - 23s': possible 23S ribosomal RNA but does not have good blast hits on one or both of the ends.
- - 23s°: 23S ribosomal RNA rRNA prediction is too short
- - 16s': possible 16S ribosomal RNA but does not have good blast hits on one or both of the ends.
- - 16s°: 16S ribosomal RNA rRNA prediction is too short
lien | blocs | 16s | total aas | avec | sans | total page | ter01-16 | Notes | ||||
---|---|---|---|---|---|---|---|---|---|---|---|---|
ter01 | 3*16s23s5s | 3 | 48 | 0 | 48 | 16s23s5s | 16atcgca235 | 16-gca-235 | 16-atc-235 | |||
ter02 | 2*16atcgca235 | 2 | 51 | 4 | 47 | sans | 7 | 8 | 3 | 2 | ||
20 | ||||||||||||
ter04 | 16s23s5s | 2 | 47 | 2 | 45 | |||||||
16atcgca235 | ||||||||||||
ter05 | 2*16-gca-235 | 3 | 52 | 3 | 49 | |||||||
16-atc-235 | ||||||||||||
ter06 | 16s23s5s | 2 | 46 | 2 | 44 | |||||||
16atcgca235 | ||||||||||||
ter07 | 16-gca-235 | 2 | 49 | 2 | 47 | |||||||
16-atc-235 | ||||||||||||
ter08 | 16atcgca235 | 1 | 47 | 2 | 45 | |||||||
ter12 | 2*16s23s5s | 3 | 49 | 2 | 47 | |||||||
16atcgca235 | ||||||||||||
ter14 | 16atcgca235 | 1 | 47 | 2 | 45 | |||||||
ter16 | 16atcgca235 | 1 | 47 | 2 | 45 | |||||||
20 | ||||||||||||
lien | blocs | 16s | total aas | avec | sans | total page | ter01-16 | Notes | ||||
10 | 16s23s5s | 16atcgca235 | 16-gca-235 | 16-atc-235 | ||||||||
sans | 7 | 8 | 3 | 2 | ||||||||
Moyenne | 48 | 2 | 46 | 20 | ||||||||
Ecartype | 2 | 1 | 2 | |||||||||
Max | 52 | 4 | 49 | |||||||||
Min | 46 | 0 | 44 | |||||||||
blocs | 20 | |||||||||||
génomes | 10 | |||||||||||
avant | 0 | |||||||||||
après | 0 | |||||||||||
cds | 0 | |||||||||||
16s23s5s | 7 | |||||||||||
16-aas-235 | 13 |
toga notes
modifier- Lien tableur: toga notes
toga typage
modifier- Lien tableur: toga typage
- Type 16-y-235 après 16s
type tableau % 16s23s5s 7 35 atcgca 8 40 atc 2 10 gca 3 15 total 20
- Type 16235-z après 5s, néant
- Type x-16235 avant 16s, néant
toga noms
modifier- Lien tableur: toga noms
Prélèvement: fait vers le 20.8.19 et mise en forme le
- Légende:
- - rRNAs, 666 ou "10,10,10", sous la forme indiquée par NCBI, (5S, 16S, 23S).
- - rupture, sélection des génomes sur les 2 premiers attributs
- - fait, dans génomes toga
- - code, utilisé dans les génomes "fait"
- - tRNAs, nombre de tRNAs tel qu'il est déduit de la de la construction des noms.
- Construction de la liste des noms
- Statistiques
tRNAs total 1337 génomes ruptures faits total 23 10 25
ruptures | notes | rRNAs | faits | code | tRNAs | génomes |
---|---|---|---|---|---|---|
1 | 333 | 1 | ter01 | §48 | Defluviitoga tunisiensis | |
1 | 222 | 1 | ter02 | §51 | Fervidobacterium nodosum Rt17-B1 | |
1 | ter03 | §49 | Fervidobacterium pennivorans DSM 9078 | |||
1 | 222 | 1 | ter04 | §47 | Kosmotoga olearia TBF 19.5.1 | |
1 | 333 | 1 | ter05 | §52 | Marinitoga piezophila KA3 | |
1 | 222 | 1 | ter06 | §46 | Mesotoga prima MesG1.Ag.4.2 | |
1 | 222 | 1 | ter07 | §49 | Petrotoga mobilis SJ95 | |
1 | 111 | 1 | ter08 | §47 | Pseudothermotoga elfii DSM 9442 NBRC 107921 | |
1 | ter09 | §47 | Pseudothermotoga hypogea DSM 11164 NBRC 106472 | |||
1 | ter10 | §47 | Pseudothermotoga lettingae TMO | |||
1 | ter11 | §47 | Pseudothermotoga thermarum DSM 5069 | |||
1 | 333 | 1 | ter12 | §49 | Thermosipho africanus TCF52B | |
1 | ter13 | §51 | Thermosipho melanesiensis BI429 | |||
1 | 111 | 1 | ter14 | §47 | Thermotoga caldifontis AZM44c09 | |
1 | 4*47 | ter15 | §188 | Thermotoga maritima MSB8 | ||
111 | 1 | ter16 | 47 | Thermotoga maritima Tma100 | ||
ter17 | 47 | Thermotoga maritima Tma200 | ||||
1 | ter18 | §47 | Thermotoga naphthophila RKU-10 | |||
1 | ter19 | §49 | Thermotoga neapolitana DSM 4359 | |||
1 | ter20 | §47 | Thermotoga petrophila RKU-1 | |||
1 | ter21 | §47 | Thermotoga profunda AZM34c06 | |||
1 | ter22 | §47 | Thermotoga sp. 2812B | |||
1 | ter23 | §47 | Thermotoga sp. Cell2 | |||
1 | ter24 | §47 | Thermotoga sp. RQ2 | |||
1 | ter25 | §47 | Thermotoga sp. RQ7 | |||
23 | 10 |
Autres
modifierautre blocs
modifier- Lien tableur: autre blocs
- Légende:
- - 23s': possible 23S ribosomal RNA but does not have good blast hits on one or both of the ends.
- - 23s°: 23S ribosomal RNA rRNA prediction is too short
- - 16s': possible 16S ribosomal RNA but does not have good blast hits on one or both of the ends.
- - 16s°: 16S ribosomal RNA rRNA prediction is too short
lien | blocs | 16s | total aas | avec | sans | total page | ab001-35 | Notes | |||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Acidobacteria | 16s23s5s | 16atcgca235 | avant | ||||||||||
ab001 | 16atcgca235 | 1 | 48 | 2 | 46 | sans | 3 | 17 | 4 | 1-3 | |||
ab002 | 16atcgca235 | 1 | 50 | 2 | 48 | 1-3 | 1 | 1 | 16atcgca235-aga | ||||
ab004 | 16atcgca235 | 1 | 48 | 2 | 46 | 16s23s5s-atgi | |||||||
ab005 | 16atcgca235 | 1 | 55 | 2 | 53 | 26 | total | 4 | 18 | 4 | |||
ab007 | 16atcgca235 | 2 | 55 | 5 | 50 | avant | |||||||
aag-16atcgca235 | aag-16atcgca235 | ||||||||||||
Aquificae | ggc-16s23s5s | ||||||||||||
ab011 | 16atcgca235 | 2 | 45 | 5 | 40 | cca-aga-atgf-16atcgca235 | |||||||
16atcgca235-aga | ggc-16atcgca235 | ||||||||||||
ab012 | 16atcgca235 | 2 | 44 | 3 | 41 | incomplet | |||||||
ggc-16s23s5s | 16s | ||||||||||||
ab013 | 16atcgca235 | 1 | 90 | 2 | 88 | ||||||||
ab014 | 2*16atcgca235 | 2 | 46 | 4 | 42 | ||||||||
ab018 | 16atcgca235 | 2 | 42 | 7 | 35 | ||||||||
cca-aga-atgf-16atcgca235 | |||||||||||||
ab019 | 2*16atcgca235 | 2 | 39 | 4 | 35 | ||||||||
ab021 | 16atcgca235 | 1 | 45 | 2 | 43 | ||||||||
ab023 | 16atcgca235 | 3 | 47 | 5 | 42 | ||||||||
ggc-16atcgca235 | |||||||||||||
16s23s5s | |||||||||||||
Armatimonadetes | |||||||||||||
ab027 | 16atcgca235 | 2 | 47 | 2 | 45 | ||||||||
16s | |||||||||||||
Caldiserica | |||||||||||||
ab032 | 16s23s5s | 1 | 47 | 0 | 47 | ||||||||
Chrysiogenetes | |||||||||||||
ab035 | 16s23s5s | 3 | 37 | 3 | 34 | ||||||||
16s23s5s-atgi | |||||||||||||
16atcgca235 | 27 | ||||||||||||
lien | blocs | 16s | total aas | avec | sans | total page | ab041-82 | Notes | |||||
Deferribacteres | 16s23s5s | 16atcgca235 | avant | ||||||||||
ab041 | 2*16atcgca235 | 2 | 41 | 4 | 37 | sans | 9 | 17 | 1 | 1-3 | |||
ab042 | 16atcgca235 | 2 | 44 | 5 | 39 | 1-3 | 3 | 5 | 2*16s23s5s-aac | ||||
16atcgca235-tgc | 3*16atcgca235-aac | ||||||||||||
35 | total | 12 | 22 | 1 | 16atcgca235-tgc | ||||||||
ab043 | 2*16atcgca235 | 2 | 43 | 4 | 39 | 16s23s5s-aac-5s | |||||||
Dictyoglomi | 16atcgca235-aac-5s | ||||||||||||
ab047 | 16atcgca235 | 2 | 47 | 2 | 45 | ||||||||
16s23s5s | avant | ||||||||||||
Elusimicrobia | cca-aga-aag-16s23s5s | ||||||||||||
ab051 | 16atcgca235 | 1 | 45 | 2 | 43 | ||||||||
Fibrobacteres | incomplet | ||||||||||||
ab055 | 3*16atcgca235 | 3 | 58 | 6 | 52 | 16s23s, 5s | |||||||
Fusobacteria | |||||||||||||
ab058 | 3*16s23s5s | 5 | 46 | 4 | 42 | 5s en trop | |||||||
16s23s5s-aac | 16s23s5s-aac-5s | ||||||||||||
16atcgca235-aac | 16atcgca235-aac-5s | ||||||||||||
16s23s5s-5s | |||||||||||||
ab063 | 3*16s23s5s | 8 | 79 | 10 | 69 | ||||||||
16atcgca235 | |||||||||||||
16s23s5s-aac | |||||||||||||
16s23s5s-aac-5s | |||||||||||||
16atcgca235-aac | |||||||||||||
16atcgca235-aac-5s | |||||||||||||
ab066 | 16s23s5s | 3 | 36 | 3 | 33 | ||||||||
16s23s5s-5s | |||||||||||||
16atcgca235-aac | |||||||||||||
Gemmatimonadetes | |||||||||||||
ab071 | cca-aga-aag-16s23s5s | 1 | 50 | 3 | 47 | ||||||||
Ignavibacteriae | |||||||||||||
ab074 | 16atcgca235 | 1 | 45 | 2 | 43 | ||||||||
Nitrospirae | |||||||||||||
ab079 | 2*16atcgca235 | 2 | 53 | 4 | 49 | ||||||||
ab081 | 3*16atcgca235 | 3 | 55 | 6 | 49 | ||||||||
ab082 | 16s23s, 5s | 1 | 50 | 0 | 50 | ||||||||
36 | |||||||||||||
lien | blocs | 16s | total aas | avec | sans | total page | ab085-129 | Notes | |||||
Planctomycetes | 16s23s5s | 16atcgca235 | 16gcaatc235 | ||||||||||
ab085 | 3*16s23s5s | 3 | 49 | 0 | 49 | sans | 17 | 5 | 8 | cds | |||
ab088 | 16s, 235s | 2 | 48 | 2 | 46 | cds | 2 | 3 | 2*16-cds-gca-atc-gta-cds-235 | ||||
16s, atcgca235 | 16-cds-gca-atc-235 | ||||||||||||
35 | total | 17 | 7 | 11 | 2*16atcgca23-cds-5s | ||||||||
ab089 | 2*16s, atcgca235 | 2 | 70 | 4 | 66 | ||||||||
ab090 | 8*16s23s5s | 8 | 73 | 0 | 73 | incomplet | |||||||
Synergistetes | 16s, 235s | ||||||||||||
ab093 | 2*16s23s5s | 3 | 48 | 2 | 46 | 16s, atcgca235 | |||||||
16atcgca235 | 2*16s | ||||||||||||
ab094 | 2*16s23s5s | 2 | 50 | autres incomplets | |||||||||
ab096 | 2*16s23s5s | 3 | 51 | 2 | 49 | atcgca235 | |||||||
16atcgca235 | |||||||||||||
Thermobaculum | |||||||||||||
ab100 | 2*16atcgca235 | 2 | 52 | 4 | 48 | ||||||||
Thermodesulfobacteria | |||||||||||||
ab103 | 2*16atcgca23-cds-5s | 2 | 51 | 4 | 47 | ||||||||
ab104 | 16atcgca235 | 1 | 47 | 2 | 45 | Notes total | |||||||
Verrucomicrobia | 1-3 | ||||||||||||
ab108 | 3*16-gca-atc-235 | 3 | 53 | 6 | 47 | 2*16s23s5s-aac | |||||||
ab110 | 16-cds-gca-atc-235 | 1 | 48 | 2 | 46 | 3*16atcgca235-aac | |||||||
ab113 | 16-gca-atc-235 | 1 | 76 | 2 | 74 | 16atcgca235-tgc | |||||||
ab115 | 4*16-gca-atc-235 | 4 | 71 | 8 | 63 | 16s23s5s-aac-5s | |||||||
Candidatus Saccharibacteria | 16atcgca235-aac-5s | ||||||||||||
ab128 | 16-cds-gca-atc-gta-cds-235 | 1 | 44 | 3 | 41 | 16atcgca235-aga | |||||||
ab129 | 16-cds-gca-atc-gta-cds-235 | 1 | 48 | 3 | 45 | 16s23s5s-atgi | |||||||
39 | |||||||||||||
lien | blocs | 16s | total aas | avec | sans | total page | total | Notes | |||||
16s23s5s | 16atcgca235 | 16gcaatc235 | avant | ||||||||||
sans | 29 | 39 | 8 | 5 | avant | ||||||||
Moyenne | 51 | 3 | 48 | 1-3 | 4 | 6 | 0 | 0 | cca-aga-aag-16s23s5s | ||||
Ecartype | 11 | 2 | 11 | cds | 2 | 3 | 0 | ggc-16s23s5s | |||||
Max | 90 | 10 | 88 | aag-16atcgca235 | |||||||||
Min | 36 | 0 | 33 | 96 | total | 33 | 47 | 11 | 5 | ggc-16atcgca235 | |||
cca-aga-atgf-16atcgca235 | |||||||||||||
incomplet | |||||||||||||
16s, 235s | |||||||||||||
16s, atcgca235 | |||||||||||||
3*16s | |||||||||||||
16s23s, 5s | |||||||||||||
blocs | 102 | ||||||||||||
génomes | 46 | autres incomplets | |||||||||||
avant | 5 | atcgca235 | |||||||||||
après 1-3 | 10 | ||||||||||||
cds | 5 / 4 | cds | |||||||||||
16s23s5s | 33 | 2*16-cds-gca-atc-gta-cds-235 | |||||||||||
atcgca | 47 | 16-cds-gca-atc-235 | |||||||||||
gcaatc | 11 | 2*16atcgca23-cds-5s | |||||||||||
5s en trop | |||||||||||||
16s23s5s-aac-5s | |||||||||||||
16atcgca235-aac-5s | |||||||||||||
16s23s5s-5s |
autre notes
modifier- Lien tableur: autre notes
- Légende:
- Les aas en dehors des blocs 16s23s5s
- - 11 génomes sur 46 et 15 blocs sur 102 ont des aas.
- - 13 blocs n’ont qu’un seul aa en dehors du bloc.
avant 16s après 5s aag-16atcgca235 16atcgca235-aga ggc-16atcgca235 16s23s5s-atgi ggc-16s23s5s 16atcgca235-tgc cca-aga-atgf-16atcgca235 3*16atcgca235-aac cca-aga-aag-16s23s5s 2*16s23s5s-aac 16s23s5s-aac-5s 16atcgca235-aac-5s cca 2 aac-5s 2 aga 2 aac 5 ggc 2 aga 1 aag 2 atgi 1 atgf 1 tgc 1
- Les cds dans ab103 110 128 129
- - ab103, comme écrit dans "autre blocs" j'avais 2 blocs avec chacun un cds le 20.8.19 (voir autre noms). A cette date je n'avais pas relevé les adresses par contre j'avais relevé les séquences en aas des cds et elles étaient identiques. Le 10.2.20 j'ai relevé les adresses et le 2ème bloc n'avait plus de cds. La séquence en aas du cds restant est la même que celle du 20.8.19.
- - séquence: MLDIPKKYQVKILDALRKLEKGKGDIKKLAPKRYRLRVGCYRILFKEEDDLLVVYKIVHRQGADRYYDNV
- - ab110, le relevé des adresses n' a été fait que le 10.2.20. Le 20.8.19 j'avais relevé la séquence en aas, elles sont identiques.
- - séquence: MPPIIYLYDYRFFTPFPKHAIVIHSSLPDKVFCCCFLYLPEIPIPGVRDIQQQNHLVKVKMDPLTFYWMLFSAVGFFFKRLWSPVQQN
- - ab128 129, j'avais relevé les adresses et les séquences le 20.8.19.
- - ab128 cds comp en 2019: MLYQFSFGALFFGILIMTAGGLVVIFHQKLADNLGGGISSYERFKFWGLITCGVGFAIMLSLHTIPLNWLLNSLFGGGL
- - ab129 cds comp en 2019: MTYEFSWTWFGIGFLILLAGAALTVWYRQIADNLGSGVSSYERYKLWGLIGCGIGLLTMLNLHTLILNMLIGGLFHR
- - ab103, comme écrit dans "autre blocs" j'avais 2 blocs avec chacun un cds le 20.8.19 (voir autre noms). A cette date je n'avais pas relevé les adresses par contre j'avais relevé les séquences en aas des cds et elles étaient identiques. Le 10.2.20 j'ai relevé les adresses et le 2ème bloc n'avait plus de cds. La séquence en aas du cds restant est la même que celle du 20.8.19.
intercalaire | long pbs | protéines | ||
---|---|---|---|---|
ab103 | ||||
2*16atcgca23-cds-5s | ||||
cds | 215 | 765 | ABC transporter ATP-binding protein | |
comp | 5s | 172 | 117 | |
comp | cds | 160 | 213 | type II toxin-antitoxin system RelE/ParE family toxin |
comp | 23s | 171 | 3030 | |
comp | gca | 11 | 76 | |
comp | atc | 193 | 79 | |
comp | 16s | 410 | 1570 | |
comp | cds | 1014 | hp | |
cds | 149 | 684 | 4Fe-4S dicluster domain-containing protein | |
comp | 5s | 127 | 117 | |
comp | 23s | 171 | 3030 | |
comp | gca | 11 | 76 | |
comp | atc | 193 | 79 | |
comp | 16s | 480 | 1570 | |
cds | 228 | hp | ||
ab110 | ||||
16-cds-gca-atc-235 | ||||
cds | 258 | 228 | hp | |
comp | 5s | 99 | 116 | |
comp | 23s | 141 | 2850 | |
comp | atc | 34 | 74 | |
comp | gca | -8 | 76 | |
comp | cds | 130 | 267 | hp |
16s | 333 | 1534 | ||
comp | cds | 1749 | glycosyltransferase family 39 protein | |
ab128 | ||||
16-cds-gca-atc-gta-cds-235 | ||||
cds | 211 | 432 | divergent PAP2 family protein | |
16s | 285 | 1482 | ||
comp | cds | 63 | 240 | hp |
gca | 51 | 77 | ||
atc | 22 | 77 | ||
gta | 61 | 77 | ||
cds | 237 | 1176 | dihydroorotate dehydrogenase (quinone) | |
23s | 191 | 3110 | ||
5s | 103 | 109 | ||
cds | 714 | DUF3152 domain-containing protein | ||
ab129 | ||||
16-cds-gca-atc-gta-cds-235 | ||||
cds | 191 | 435 | divergent PAP2 family protein | |
16s | 211 | 1506 | ||
comp | cds | 67 | 234 | hp |
gca | 130 | 77 | ||
atc | 31 | 77 | ||
gta | 282 | 77 | ||
cds | 398 | 582 | hp | |
23s | 174 | 3214 | ||
5s | 420 | 110 | ||
cds | 672 | hp |
autre typage
modifierLes 3 types
modifier- Lien tableur: autre typage
- Légende:
- - 8 **, type 16s23s5s-z du clade Fusobacteria: 5 x aac, 2 x aac-5s, 1 x 5s
- - cds *,
clade type blocs CandidatusSaccharibacteria 16s-y-23s5s 2 x 16-cds-gca-atc-gta-cds-235 Verrucomicrobia 16s-y-23s5s 1 x 16-cds-gca-atc-235 Thermodesulfobacteria 16s23s5s-z 2 x 16atcgca23-cds-5s
type | 16s-y-23s5s | 16s23s5s-z | x-16s23s5s | |||
---|---|---|---|---|---|---|
clade | 16s23s5s | atcgca | gcaatc | cds * | ||
Acidobacteria | 6 | aag | ||||
Aquificae | 2 | 13 | aga | cca-aga-atgf, 2 x gcc | ||
Armatimonadetes | 1 | |||||
Caldiserica | 1 | |||||
Chrysiogenetes | 2 | 1 | atgi | |||
Deferribacteres | 6 | tgc | ||||
Dictyoglomi | 1 | 1 | ||||
Elusimicrobia | 1 | |||||
Fibrobacteres | 3 | |||||
Fusobacteria | 11 | 5 | 8 ** | |||
Gemmatimonadetes | 1 | cca-aga-aag | ||||
Ignavibacteriae | 1 | |||||
Nitrospirae | 1 | 5 | ||||
Planctomycetes | 12 | 3 | ||||
Synergistetes | 6 | 2 | ||||
Thermobaculum | 2 | |||||
Thermodesulfobacteria | 3 | 2 cds * | ||||
Verrucomicrobia | 8 | 1 | ||||
CandidatusSaccharibacteria | 2 | |||||
total | 37 | 53 | 8 | 3 |
- total11, type y.
génomes clade 16s23s5s atcgca cds-gca-atc-gta-cds 1 Armatimonadetes 1 1 Caldiserica 1 1 Chrysiogenetes 2 1 1 Dictyoglomi 1 1 1 Elusimicrobia 1 1 Fibrobacteres 3 1 Gemmatimonadetes 1 1 Ignavibacteriae 1 1 Thermobaculum 2 2 Thermodesulfobacteria 3 2 CandidatusSaccharibacteria 2 13 total11 5 13 2
Pourcentages du type 16s-y-23s5s
modifier16s-y-23s5s 16s23s5s atcgca gcaatc cds total total 37 53 8 3 101 % 37 52 8 3
autre noms
modifier- Lien tableur: autre noms
Prélèvement: fait vers le 20.8.19 et mise en forme le
- Légende:
- - rRNAs, 666 ou "10,10,10", sous la forme indiquée par NCBI, (5S, 16S, 23S).
- - rupture, sélection des génomes sur les 2 premiers attributs
- - fait, dans génomes autre
- - code, utilisé dans les génomes "fait"
- - tRNAs, nombre de tRNAs tel qu'il est déduit de la de la construction des noms.
- Construction de la liste des noms
- Statistiques
tRNAs total 4081 génomes ruptures faits total 78 46 83
ruptures | ordre | rRNAs | faits | code | tRNAs | génomes |
---|---|---|---|---|---|---|
1 | Acidobacteria | |||||
1 | 2 | 111 | 1 | ab001 | 48 | Acidobacterium capsulatum ATCC 51196 |
1 | 3 | 111 | 1 | ab002 | 50 | Candidatus Koribacter versatilis Ellin345 |
1 | 4 | ab003 | 56 | Candidatus Solibacter usitatus Ellin6076 | ||
1 | 5 | 111 | 1 | ab004 | 48 | Chloracidobacterium thermophilum B |
1 | 6 | 111 | 1 | ab005 | 55 | Granulicella mallensis MP5ACTX8 |
1 | 7 | ab006 | 48 | Granulicella tundricola MP5ACTX9 | ||
1 | 8 | 222 | 1 | ab007 | 55 | Terriglobus roseus DSM 18391 |
1 | 9 | ab008 | 49 | Terriglobus saanensis SP1PR4 | ||
10 | ||||||
11 | Aquificae | |||||
1 | 12 | 222 | 1 | ab011 | 45 | Aquifex aeolicus VF5 |
1 | 13 | 222 | 1 | ab012 | 44 | Desulfurobacterium thermolithotrophum DSM 11699 |
1 | 14 | 111 | 1 | ab013 | 90 | Hydrogenobacter thermophilus TK-6 |
1 | 15 | 222 | 1 | ab014 | 46 | Hydrogenobaculum sp. 3684 |
1 | 16 | ab015 | 46 | Hydrogenobaculum sp. HO | ||
1 | 17 | ab016 | 46 | Hydrogenobaculum sp. SN | ||
1 | 18 | ab017 | 46 | Hydrogenobaculum sp. Y04AAS1 | ||
1 | 19 | 222 | 1 | ab018 | 42 | Persephonella marina EX-H1 |
1 | 20 | 222 | 1 | ab019 | 39 | Sulfurihydrogenibium azorense Az-Fu1 |
1 | 21 | ab020 | 41 | Sulfurihydrogenibium sp. YO3AOP1 | ||
1 | 22 | 111 | 1 | ab021 | 45 | Thermocrinis albus DSM 14484 |
1 | 23 | ab022 | 45 | Thermocrinis ruber DSM 23557 | ||
1 | 24 | 333 | 1 | ab023 | 47 | Thermovibrio ammonificans HB-1 |
25 | ||||||
26 | Armatimonadetes | |||||
1 | 27 | 121 | 1 | ab027 | 47 | Chthonomonas calidirosea T49 |
1 | 28 | ab028 | 50 | Fimbriimonas ginsengisoli Gsoil 348 | ||
29 | ||||||
30 | Caldiserica | |||||
1 | 31 | 111 | 1 | ab032 | 47 | Caldisericum exile AZM16c01 |
32 | ||||||
33 | Chrysiogenetes | |||||
1 | 34 | 333 | 1 | ab035 | 37 | Desulfurispirillum indicum S5 |
35 | ||||||
36 | Cloacimonetes | |||||
1 | 37 | ab038 | 47 | Candidatus Cloacimonas acidaminovorans str. Evry | ||
38 | ||||||
39 | Deferribacteres | |||||
1 | 40 | 222 | 1 | ab041 | 41 | Calditerrivibrio nitroreducens DSM 19672 |
1 | 41 | 222 | 1 | ab042 | 44 | Deferribacter desulfuricans SSM1 |
1 | 42 | 222 | 1 | ab043 | 43 | Denitrovibrio acetiphilus DSM 12809 |
1 | 43 | ab044 | 45 | Flexistipes sinusarabici DSM 4947 | ||
44 | ||||||
45 | Dictyoglomi | |||||
1 | 46 | 222 | 1 | ab047 | 47 | Dictyoglomus thermophilum H-6-12 ATCC 35947 |
1 | 47 | ab048 | 48 | Dictyoglomus turgidum DSM 6724 | ||
48 | ||||||
49 | Elusimicrobia | |||||
1 | 50 | 111 | 1 | ab051 | 45 | Elusimicrobium minutum Pei191 |
1 | 51 | ab052 | 45 | uncultured Termite group 1 bacterium phylotype Rs-D17 | ||
52 | ||||||
53 | Fibrobacteres | |||||
1 | 54 | 333 | 1 | ab055 | 58 | Fibrobacter succinogenes subsp. succinogenes S85 |
55 | ||||||
56 | Fusobacteria | |||||
1 | 57 | 555 | 1 | ab058 | 46 | Fusobacterium nucleatum subsp. animalis 4 8 |
58 | ab059 | 46 | Fusobacterium nucleatum subsp. animalis 7 1 | |||
59 | ab060 | 48 | Fusobacterium nucleatum subsp. nucleatum ATCC 25586 | |||
60 | ab061 | 47 | Fusobacterium nucleatum subsp. vincentii 3 1 27 | |||
61 | ab062 | 48 | Fusobacterium nucleatum subsp. vincentii 3 1 36A2 | |||
1 | 62 | 10,8,8 | 1 | ab063 | 79 | Ilyobacter polytropus DSM 2926 |
1 | 63 | ab064 | 47 | Leptotrichia buccalis C-1013-b DSM 1135 | ||
1 | 64 | ab065 | 41 | Sebaldella termitidis ATCC 33386 | ||
1 | 65 | 433 | 1 | ab066 | 36 | Sneathia sp. Sn35 SN35 |
1 | 66 | ab067 | 39 | Streptobacillus moniliformis DSM 12112 | ||
67 | ||||||
68 | Gemmatimonadetes | |||||
1 | 69 | ab070 | 50 | Gemmatimonadetes bacterium KBS708 | ||
1 | 70 | 111 | 1 | ab071 | 50 | Gemmatimonas aurantiaca T-27 |
71 | ||||||
72 | Ignavibacteriae | |||||
1 | 73 | 111 | 1 | ab074 | 45 | Ignavibacterium album JCM 16511 |
1 | 74 | ab075 | 46 | Melioribacter roseus P3M-2 | ||
75 | ||||||
76 | Nitrospirae | |||||
1 | 77 | ab078 | 49 | Candidatus Nitrospira defluvii | ||
1 | 78 | 222 | 1 | ab079 | 53 | Leptospirillum ferriphilum ML-04 |
79 | ab080 | 52 | Leptospirillum ferriphilum YSK | |||
1 | 80 | 333 | 1 | ab081 | 55 | Leptospirillum ferrooxidans C2-3 |
1 | 81 | 111 | 1 | ab082 | 50 | Thermodesulfovibrio yellowstonii DSM 11347 |
82 | ||||||
83 | Planctomycetes | |||||
1 | 84 | 333 | 1 | ab085 | 49 | Isosphaera pallida ATCC 43644 |
1 | 85 | ab086 | 46 | Phycisphaera mikurensis NBRC 102666 | ||
1 | 86 | ab087 | 50 | Pirellula staleyi DSM 6068 | ||
1 | 87 | 222 | 1 | ab088 | 48 | Planctomyces brasiliensis DSM 5305 |
1 | 88 | 121 | 1 | ab089 | 70 | Planctomyces limnophilus DSM 3776 |
1 | 89 | 888 | 1 | ab090 | 73 | Singulisphaera acidiphila DSM 18658 |
90 | ||||||
91 | Synergistetes | |||||
1 | 92 | 333 | 1 | ab093 | 48 | Aminobacterium colombiense DSM 12261 |
1 | 93 | 222 | 1 | ab094 | 50 | Anaerobaculum mobile DSM 13181 |
1 | 94 | ab095 | 42 | Fretibacterium fastidiosum SGP1 | ||
1 | 95 | 333 | 1 | ab096 | 51 | Thermanaerovibrio acidaminovorans DSM 6589 |
1 | 96 | ab097 | 49 | Thermovirga lienii DSM 17291 | ||
97 | ||||||
98 | Thermobaculum | |||||
1 | 99 | 222 | 1 | ab100 | 52 | Thermobaculum terrenum ATCC BAA-798 |
100 | ||||||
101 | Thermodesulfobacteria | |||||
1 | 102 | 222 | 1 | ab103 | 51 | Thermodesulfatator indicus DSM 15286 |
1 | 103 | 111 | 1 | ab104 | 47 | Thermodesulfobacterium commune DSM 2178 |
1 | 104 | ab105 | 47 | Thermodesulfobacterium geofontis OPF15 | ||
105 | ||||||
106 | Verrucomicrobia | |||||
1 | 107 | 333 | 1 | ab108 | 53 | Akkermansia muciniphila ATCC BAA-835 |
1 | 108 | ab109 | 47 | Coraliomargarita akajimensis DSM 45221 | ||
1 | 109 | 111 | 1 | ab110 | 48 | Methylacidiphilum fumariolicum SolV |
1 | 110 | ab111 | 46 | Methylacidiphilum infernorum V4 | ||
1 | 111 | ab112 | 49 | Opitutaceae bacterium TAV5 | ||
1 | 112 | 111 | 1 | ab113 | 76 | Opitutus terrae PB90-1 |
1 | 113 | ab114 | 49 | Verrucomicrobia bacterium IMCC26134 | ||
1 | 114 | 444 | 1 | ab115 | 71 | Verrucomicrobium spinosum DSM 4136 JCM 18804 |
115 | ||||||
116 | candidate divisionNC10 | |||||
1 | 117 | ab118 | 48 | Candidatus Methylomirabilis oxyfera | ||
118 | ||||||
119 | candidate divisionSR1 | |||||
1 | 120 | ab121 | 37 | candidate division SR1 bacterium RAAC1_SR1_1 | ||
121 | ||||||
122 | candidate divisionWWE3 | |||||
1 | 123 | ab124 | 46 | candidate division WWE3 bacterium RAAC2_WWE3_1 | ||
124 | ||||||
125 | Candidatus Saccharibacteria | |||||
1 | 126 | ab127 | 44 | Candidatus Saccharibacteria bacterium RAAC3_TM7_1 | ||
1 | 127 | 111 | 1 | ab128 | 44 | Candidatus Saccharibacteria oral taxon TM7x |
1 | 128 | 111 | 1 | ab129 | 48 | Candidatus Saccharimonas aalborgensis |
78 | 46 |