Table 2 Assemble gaps of ATCC26695 sequence data from sample 6
Type | Length (bp) | Sequence | Nucleotide position in reference sequence | Locus tag | Locus_tag (5' ? 3') | Annotation | Coverage | ||
|---|---|---|---|---|---|---|---|---|---|
Insertion | Deletion | Start | End | Insertion: consensus side/Deletion: reference side | |||||
Short insertion | |||||||||
1 | 1 | A | 39762 | 39763 | HP0041 | → | hypothetical protein | 63 | |
2 | 1 | G | 159581 | 159582 | HP0147 | → | cytochrome c oxidase, diheme subunit, membrane-bound (fixP) | 89 | |
3 | 1 | C | 173256 | 173257 | HP0165 | ← | hypothetical protein | 94 | |
4 | 1 | G | 208167 | 208168 | HP0203 | → | hypothetical protein | 85 | |
5 | 1 | C | 263286 | 263287 | HP0253 | → | hypothetical protein | 105 | |
6 | 1 | C | 331675 | 331676 | 2 | ||||
7 | 1 | T | 331678 | 331679 | 2 | ||||
8 | 1 | G | 331680 | 331681 | 2 | ||||
9 | 1 | T | 331682 | 331683 | 2 | ||||
10 | 1 | G | 474218 | 474219 | 88 | ||||
11 | 1 | C | 475466 | 475467 | HP0456 | → | hypothetical protein | 53 | |
12 | 1 | C | 475645 | 475646 | 46 | ||||
13 | 1 | T | 524751 | 524752 | HP0498 | → | sodium- and chloride-dependent transporter | 54 | |
14 | 1 | G | 579891 | 579892 | 76 | ||||
15 | 1 | A | 626216 | 626217 | 57 | ||||
16 | 1 | A | 674290 | 674291 | HP0628 | → | hypothetical protein | 63 | |
17 | 1 | C | 683744 | 683745 | HP0636 | ← | hypothetical protein | 54 | |
18 | 1 | G | 739962 | 739963 | HP0688 | → | hypothetical protein | 45 | |
19 | 1 | T | 745341 | 745342 | HP0694 | → | hypothetical protein | 84 | |
20 | 1 | T | 745352 | 745353 | 86 | ||||
21 | 1 | A | 745389 | 745390 | 95 | ||||
22 | 1 | T | 745429 | 745430 | 97 | ||||
23 | 2 | AG | 773423 | 773424 | HP0719 | → | hypothetical protein | 55 | |
24 | 1 | C | 787709 | 787710 | HP0732 | ← | hypothetical protein | 62 | |
25 | 1 | G | 808800 | 808801 | fliD | → | flagellar capping protein | 57 | |
26 | 1 | C | 838354 | 838355 | HP0783 | ← | hypothetical protein | 74 | |
27 | 1 | A | 843491 | 843492 | 69 | ||||
28 | 1 | G | 861042 | 861043 | HP0807 | ← | iron(III) dicitrate transport protein (fecA) | 86 | |
29 | 1 | G | 888773 | 888774 | HP0836 | → | hypothetical protein | 98 | |
30 | 2 | AG | 915893 | 915894 | HP0863 | ← | hypothetical protein | 112 | |
31 | 1 | A | 915897 | 915898 | HP0863 | ← | hypothetical protein | 112 | |
32 | 1 | C | 993909 | 993910 | HP0931 | → | hypothetical protein | 109 | |
33 | 1 | G | 1026924 | 1026925 | 63 | ||||
34 | 1 | T | 1057531 | 1057532 | 69 | ||||
35 | 1 | T | 1057599 | 1057600 | 59 | ||||
36 | 1 | T | 1077873 | 1077874 | HP1014 | → | 7-alpha-hydroxysteroid dehydrogenase | 83 | |
37 | 1 | G | 1207116 | 1207117 | HP1144 | → | hypothetical protein | 74 | |
38 | 1 | C | 1207608 | 1207609 | HPr04 | ← | 16S ribosomal RNA | 101 | |
39 | 1 | G | 1208482 | 1208483 | HPr04 | ← | 16S ribosomal RNA | 1 | |
40 | 1 | C | 1208483 | 1208484 | HPr04 | ← | 16S ribosomal RNA | 2 | |
41 | 1 | T | 1256328 | 1256329 | HP1186 | → | carbonic anhydrase | 72 | |
42 | 1 | C | 1259151 | 1259152 | 113 | ||||
43 | 1 | A | 1264196 | 1264197 | HP1193 | → | aldo/keto reductase | 92 | |
44 | 1 | G | 1291618 | 1291619 | HP1216 | ← | hypothetical protein | 74 | |
45 | 2 | GG | 1475694 | 1475695 | HPr06 | ← | 23S ribosomal RNA | 1 | |
46 | 1 | C | 1511030 | 1511031 | 4 | ||||
47 | 1 | C | 1511162 | 1511163 | HPr04 | ← | 16S ribosomal RNA | 83 | |
48 | 1 | C | 1511398 | 1511399 | HPr04 | ← | 16S ribosomal RNA | 11 | |
Total | 51 | ||||||||
Short deletion | |||||||||
1 | 1 | A | 25622 | 58 | |||||
2 | 1 | C | 38695 | HP0039m | → | conjugal plasmid transfer system protein | 62 | ||
3 | 2 | YC | 129158 | 129159 | 1 | ||||
4 | 1 | C | 342188 | HP0326 | → | CMP-N-acetylneuraminic acid synthetase | 86 | ||
5 | 1 | T | 426389 | HP0413 | ← | transposase-like protein, PS3IS | 18 | ||
6 | 1 | A | 463967 | HP0445 | ← | hypothetical protein | 75 | ||
7 | 1 | A | 593944 | 81 | |||||
8 | 1 | G | 650897 | HP0609 | → | hypothetical protein | 73 | ||
9 | 1 | A | 674221 | HP0627 | → | hypothetical protein | 47 | ||
10 | 1 | T | 728119 | HP0678 | ← | hypothetical protein | 75 | ||
11 | 1 | G | 745422 | 98 | |||||
12 | 1 | C | 815405 | HP0760 | ← | phosphodiesterase | 41 | ||
13 | 1 | C | 815420 | HP0760 | ← | phosphodiesterase | 48 | ||
14 | 1 | R | 1027030 | 73 | |||||
15 | 1 | G | 1049706 | 58 | |||||
16 | 1 | G | 1071033 | HP1009 | ← | site-specific recombinase | 77 | ||
17 | 1 | T | 1077870 | HP1014 | → | 7-alpha-hydroxysteroid dehydrogenase | 87 | ||
18 | 1 | G | 1081560 | HP1018 | → | hypothetical protein | 97 | ||
19 | 1 | G | 1192591 | HP1127 | ← | hypothetical protein | 61 | ||
20 | 1 | T | 1256382 | 81 | |||||
21 | 1 | C | 1258321 | HP1188 | ← | hypothetical protein | 71 | ||
22 | 1 | T | 1264200 | HP1193 | → | aldo/keto reductase | 91 | ||
23 | 2 | NA | 1480608 | 1480609 | HP1410 | → | hypothetical protein | 1 | |
24 | 1 | A | 1480611 | HP1410 | → | hypothetical protein | 1 | ||
25 | 1 | A | 1480614 | HP1410 | → | hypothetical protein | 1 | ||
Total | 27 | ||||||||
Long deletion | |||||||||
1 | 42 | TGATTATATTTGTAATGGTGCTCRCTTGTTTAAAATGAGYCT | 129001 | 129042 | HP0118 | ← | hypothetical protein | not calculated | |
2 | 61 | KTCTTTTGGGTTTTGTAAAAATTACCTCCTTAATTTGGTTTTGTTTTGTTTAGACTTTAAC | 425976 | 426036 | HP0413 | ← | transposase-like protein, PS3IS | not calculated | |
3 | 14 | GGATGGGTGCTTTT | 1475703 | 1475716 | HPrrnB23S | ← | transposase-like protein, PS3IS | not calculated | |
4 | 16 | NATCCGCGCTTAAGCG | 1480568 | 1480583 | HP1410 | → | hypothetical protein | not calculated | |
Total | 133 | ||||||||