Sample Resequencing Stats
Note: The mutation counts shown below represent unfiltered mutation sets.
| ALE, Flask, Isolate |
Predicted Mutations |
Mean Coverage |
Total Reads |
Percent Mapped |
Mapped Reads |
Average Read Length |
|
A1 F28 I2 R2
|
356 |
55.1 |
4139924 |
95.4% |
3949487 |
63.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
442,006 |
G→A |
D412N (GAT→AAT) |
thiI → |
sulfurtransferase required for thiamine and 4‑thiouridine biosynthesis |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 442,006 | 0 | G | A | 91.0%
| 217.9
/ 11.4
| 78 | D412N (GAT→AAT) | thiI | sulfurtransferase required for thiamine and 4‑thiouridine biosynthesis |
| Reads supporting (aligned to +/- strand): ref base G (7/0); new base A (49/22); total (56/22) |
| Fisher's exact test for biased strand distribution p-value = 1.82e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.15e-01 |
GCAGACCGAGCAGGAAGTGGTGGAAGTGGAAACCGTCAATGGCTTCGGCCCGAACGACGTGATCCTCGATATCCGTTCTATCGATGAACAGGAAGATAAGCCACTGAAAGTCGAAGGGATTGATGTGGTTTC > W3110S.gb/441939‑442070
|
gcagACCGAGCAGGAAGTGGTGGAAGTGGAAACCGTCAATGTCTTCGGCCCGAACGACGTGATCCTCAata < 1:645398/71‑1 (MQ=255)
gcagACCGAGCAGGAAGTGGTGGAAGTGGAAACCGTCAATGGCTTCGGCCCGAACGACGTGATCCTCAata < 1:1053470/71‑1 (MQ=255)
gcagACCGAGCAGGAAGTGGTGGAAGTGGAAACCGTCAATGGCTTCGGCCCGAACGACGTGATCCTCAata < 1:806762/71‑1 (MQ=255)
gcagACCGAGCAGGAAGTGGTGGAAGTGGAAACCGTCAATGGCTTCGGCCCGAACGACGTGATCCTCAata < 1:1496683/71‑1 (MQ=255)
gcagACCGAGCAGGAAGTGGTGGAAGTGGAAACCGTCAATGGCTTCGGCCCGAACGACGTGATCCTCAata < 1:1963283/71‑1 (MQ=255)
gcagACCGAGCAGGAAGTGGTGGAAGTGGAAACCGTCAATGGCTTCGGCCCGAACGACGTGATCCTCAata < 1:3494350/71‑1 (MQ=255)
gcagACCGAGCAGGAAGTGGTGGAAGTGGAAACCGTCAATGGCTTCGGCCCGAACGACGTGATCCTCAata < 1:3524139/71‑1 (MQ=255)
gcagACCGAGCAGGAAGTGGTGGAAGTGGAAACCGTCAATGGCTTCGGCCCGAACGACGTGATCCTCAata < 1:1315848/71‑1 (MQ=255)
cagACCGAGCAGGAAGTGGTGGAAGTGGAAACCGTCAATGGCTTCGGCCCGAACGACGTGATCCTCAata < 1:3796526/70‑1 (MQ=255)
agtggaaACCGTCAATGGCTTCGGCCCGAACGACGTGATCCTCAata < 1:2675013/47‑1 (MQ=255)
gtggaaACCGTCAATGGCTTCGGCCCGAACGACGTGATCCTCAata < 1:3487255/46‑1 (MQ=255)
aaCCGTCAATGGCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTCTATCGATGAACAGGAAGATAAGc > 1:3013065/1‑71 (MQ=255)
aaCCGTCAATGGCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTCTATCGATGAACAGGAAGATAAGc > 1:787481/1‑71 (MQ=255)
tCAATGGCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTc < 1:16274/43‑1 (MQ=255)
tCAATGGCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTc < 1:2686941/43‑1 (MQ=255)
aaTGGCTTCGGCCCGAACGACGTGATCCTCAATATCCGtt > 1:3463558/1‑40 (MQ=255)
aaTGGCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTCt > 1:2529127/1‑42 (MQ=255)
aaTGGCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTCTa > 1:3013502/1‑43 (MQ=255)
aaTGGCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTCTa > 1:1303415/1‑43 (MQ=255)
aaTGGCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTCTa > 1:1841594/1‑43 (MQ=255)
aaTGGCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTCTa > 1:184714/1‑43 (MQ=255)
aaTGGCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTCTa > 1:2730510/1‑43 (MQ=255)
aaTGGCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTCTa > 1:3812504/1‑43 (MQ=255)
aaTGGCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTCTa > 1:2693029/1‑43 (MQ=255)
aaTGGCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTCTa > 1:755216/1‑43 (MQ=255)
aaTGGCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTCTa > 1:2076330/1‑43 (MQ=255)
aaTGGCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTCTa > 1:2099435/1‑43 (MQ=255)
aaTGGCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTCTa > 1:889960/1‑43 (MQ=255)
aaTGGCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTCTa > 1:230541/1‑43 (MQ=255)
aaTGGCTTCGGCCCGAACGACGTGATACTCAATATCCGt > 1:2954475/1‑39 (MQ=255)
tGGCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTCTATCGATg < 1:504243/47‑1 (MQ=255)
tGGCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTCTATCGATg < 1:1017968/47‑1 (MQ=255)
tGGCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTCTATCGATg < 1:2596721/47‑1 (MQ=255)
tGGCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTCTATCGATg < 1:3103090/47‑1 (MQ=255)
tGGCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTCTATCGATg < 1:1017862/47‑1 (MQ=255)
tGGCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTCTATCGATg < 1:1087978/47‑1 (MQ=255)
tGGCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTCTATCGATg < 1:1055034/47‑1 (MQ=255)
ggCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTCTATCGATg < 1:3173365/46‑1 (MQ=255)
gCTTCGGCCCGAACGAGGTGATCCTCAATATCCGTTCTATCGATGAACAGGAAGATAAGCCACTGAAAGTc > 1:193060/1‑71 (MQ=255)
gCTTCGGCCCGAACGACGTGATCCTCGATATCCGTTCTATCGATGAACAg > 1:1207269/1‑50 (MQ=255)
gCTTCGGCCCGAACGACGTGATCCTCGATATCCGTTCTATCGATGAACAGGAAGATAAGCCACTGAAAGt > 1:2460793/1‑70 (MQ=255)
gCTTCGGCCCGAACGACGTGATCCTCGATATCCGTTCTATCGATGAACAGGAAGATAAGCCACTGAAAGTc > 1:824002/1‑71 (MQ=255)
gCTTCGGCCCGAACGACGTGATCCTCGATATCCGTTCTATCGATGAACAGGAAGATAAGCCACTGAAAGTc > 1:2964952/1‑71 (MQ=255)
gCTTCGGCCCGAACGACGTGATCCTCGATATCCGTTCTATCGATGAACAGGAAGATAAGCCACTGAAAGTc > 1:3780797/1‑71 (MQ=255)
gCTTCGGCCCGAACGACGTGATCCTCGATATCCGTTCTATCGATGAACAGGAAGATAAGCCACTGAAAGTc > 1:3585540/1‑71 (MQ=255)
gCTTCGGCCCGAACGACGTGATCCTCGATATCCGTTCTATCGATGAACAGGAAGATAAGCCACTGAAAGTc > 1:1547033/1‑71 (MQ=255)
gCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTCTATCGATGaa > 1:2065495/1‑47 (MQ=255)
gCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTCTATCGATGaa > 1:1893728/1‑47 (MQ=255)
gCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTCTATCGATGAACAGGaa > 1:1314161/1‑53 (MQ=255)
gCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTCTATCGATGAACAGGaa > 1:93232/1‑53 (MQ=255)
gCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTCTATCGATGAACAGGaa > 1:3703133/1‑53 (MQ=255)
gCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTCTATCGATGAACAGGaa > 1:3586314/1‑53 (MQ=255)
gCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTCTATCGATGAACAGGaa > 1:1424030/1‑53 (MQ=255)
gCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTCTATCGATGAACAGGAAGATAAGCCACTGAAAGt > 1:4001122/1‑70 (MQ=255)
gCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTCTATCGATGAACAGGAAGATAAGCCACTGAAAGTc > 1:890910/1‑71 (MQ=255)
gCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTCTATCGATGAACAGGAAGATAAGCCACTGAAAGTc > 1:1347308/1‑71 (MQ=255)
gCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTCTATCGATGAACAGGAAGATAAGCCACTGAAAGTc > 1:2740814/1‑71 (MQ=255)
gCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTCTATCGATGAACAGGAAGATAAGCCACTGAAAGTc > 1:3197448/1‑71 (MQ=255)
gCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTCTATCGATGAACAGGAAGATAAGCCACTGAAAGTc > 1:1683042/1‑71 (MQ=255)
gCTTCGGCCCGAACGACGTGATCCTCAATATCCGTTCTATCGATGAACAGGAAGATAAGCCACTGAAAGTc > 1:2747452/1‑71 (MQ=255)
ttCGGCCCGAACGACGTGATCCTCAATATCCGTTCTATCGATGAACAGGAAGATAAGCCACTGaa > 1:737728/1‑65 (MQ=255)
ttCGGCCCGAACGACGTGATCCTCAATATCCGTTCTATCGATGAACAGGAAGATAAGCCACTGAAAGTCg > 1:3210905/1‑70 (MQ=255)
ttCGGCCCGAACGACGTGATCCTCAATATCCGTTCTATCGATGAACAGGAAGATAAGCCACTGAAAGTCg > 1:1080898/1‑70 (MQ=255)
ttCGGCCCGAACGACGTGATCCTCAATATCCGTTCTATCGATGAACAGGAAGATAAGCCACTGAAAGTCg > 1:384616/1‑70 (MQ=255)
ttCGGCCCGAACGACGTGATCCTCAATATCCGTTCTATCGATGAACAGGAAGATAAGCCACTGAAAGTCg > 1:1679913/1‑70 (MQ=255)
ttCGGCCCGAACGACGTGATCCTCAATATCCGTTCTATCGATGAACAGGAAGATAAGCCACTGAAAGTCg > 1:1277844/1‑70 (MQ=255)
ccGAACGACGTGATCCTCAATATCCGTTCTATCGATGAACAGGAAGATAAGCCACTGAAAGTCGAAGGGAt > 1:1631578/1‑71 (MQ=255)
cGAACGACGTGATCCTCAATATCCGTTCTATCGATg < 1:1341041/36‑1 (MQ=255)
gTGATCCTCAATATCCGTTCTATCGATGAACAGGAAGATAAGCCACTGAAAGTCGaa > 1:2015584/1‑57 (MQ=255)
gTGATCCTCAATATCCGTTCTATCGATGAACAGGAAGATAAGCCACTGAAAGTCGAAggg > 1:3086983/1‑60 (MQ=255)
gTGATCCTCAATATCCGTTCTATCGATGAACAGGAAGATAAGCCACTGAAAGTCGAAGGGAt > 1:2180671/1‑62 (MQ=255)
gTGATCCTCAATATCCGTTCTATCGATGAACAGGAAGATAAGCCACTGAAAGTCGAAGGGAt > 1:24513/1‑62 (MQ=255)
gTGATCCTCAATATCCGTTCTATCGATGAACAGGAAGATAAGCCACTGAAAGTCGAAGGGAt > 1:262002/1‑62 (MQ=255)
gTGATCCTCAATATCCGTTCTATCGATGAACAGGAAGATAAGCCACTGAAAGTCGAAGGGAt > 1:3505692/1‑62 (MQ=255)
gTGATCCTCAATATCCGTTCTATCGATGAACAGGAAGATAAGCCACTGAAAGTCGAAGGGAt > 1:76715/1‑62 (MQ=255)
gTGATCCTCAATATCCGTTCTATCGATGAACAGGAAGATAAGCCACTGAAAGTCGAAGGGAt > 1:3623159/1‑62 (MQ=255)
gTGATCCTCAATATCCGTTCTATCGATGAACAGGAAGATAAGCCACTGAAAGTCGAAGGGAt > 1:1610474/1‑62 (MQ=255)
aTCCTCAATATCCGTTCTATCGATGAACAGGAAGATAAGCCACTGAAAGTCGAAGGGATTGATGTGGTTtc > 1:3983272/1‑71 (MQ=255)
|
GCAGACCGAGCAGGAAGTGGTGGAAGTGGAAACCGTCAATGGCTTCGGCCCGAACGACGTGATCCTCGATATCCGTTCTATCGATGAACAGGAAGATAAGCCACTGAAAGTCGAAGGGATTGATGTGGTTTC > W3110S.gb/441939‑442070
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
