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 F3 I0 R1
|
560 |
56.4 |
4650532 |
94.9% |
4413354 |
59.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
953,140 |
A→C |
21.8% |
R279R (CGT→CGG) |
pflB ← |
pyruvate formate lyase I |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 953,140 | 0 | A | C | 21.8%
| 71.4
/ 35.6
| 55 | R279R (CGT→CGG) | pflB | pyruvate formate lyase I |
| Reads supporting (aligned to +/- strand): ref base A (20/23); new base C (7/5); total (27/28) |
| Fisher's exact test for biased strand distribution p-value = 5.28e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.60e-01 |
GCTTCTTGTTCGGTGATCTTGCCAGCTTTCAGGTCACGTTCGATGTACACATCCAGGAAGGTGGAGGTACGACCGAAGGACATTGCAGCACCGTTCTGAGACTTAACAGCAGCCAGGTAGCCGAAGTAAGTCCACTGGA > W3110S.gb/953072‑953210
|
gcTTCTTGTTCGGTGATCTTGCCAGCTTTCAGGTCACGTTCGATGTACACATCCAGGAAGGTGGAGGTAc > 1:1090749/1‑70 (MQ=255)
ttcttGTTCGGTGATCTTGCCAGCTTTCAGGTCACGTTCGATGTACACATCCAGGAAGGTGGAGGTACGAc > 1:1345947/1‑71 (MQ=255)
ttGTTCGGTGATCTTGCCAGCTTTCAGGTCACGTTCGATGTACACATCCAGGAAGGTGGAGGTACGACCg > 1:1768399/1‑70 (MQ=255)
gTTCGGTGATCTTGCCAGCTTTCAGGTCACGTTCGATGTACACATCCAGGAAGGTGGAGGTACGACCGa < 1:602485/69‑1 (MQ=255)
gTTCGGTGATCTTGCCAGCTTTCAGGTCACGTTCGATGTACACATCCAGGAAGGTGGAGGTACGACCGa < 1:616097/69‑1 (MQ=255)
cGGTGATCTTGCCAGCTTTCAGGTCACGTTCGATGTACACATCCAGGAAGTTGGAGGTCCGACCGAAGGa < 1:3022725/70‑1 (MQ=255)
ggTGATCTTGCCAGCTTTCAGGTCACGTTCGATGTACACATCCAGGAAGGTGGAGGTACGACCGAAGGACa < 1:2182110/71‑1 (MQ=255)
gATCTTGCCAGCTTTCAGGTCACGTTCGATGTACACATCCAGGAAGGTGGAGGTACGACCGaa > 1:3757805/1‑63 (MQ=255)
aTCTTGCCAGCTTTCAGGTCACGTTCGATGTACACATCCAGGAAGGTGGAGGTCCGACCGAAGGACATTg > 1:728855/1‑70 (MQ=255)
tCTTGCCAGCTTTCAGGTCACGTTCGATGTACACATCCAGGAAGGTGGAGGTa > 1:749179/1‑53 (MQ=255)
tCTTGCCAGCTTTCAGGTCACGTTCGATGTACACATCCAGGAAGGTGGAGGTACGACCGAAGGACa > 1:2374540/1‑66 (MQ=255)
tCTTGCCAGCTTTCAGGTCACGTTCGATGTACACATCCAGGAAGGTGGAGGTACGACCGAAGGACATTg > 1:231800/1‑69 (MQ=255)
cTTGCCAGCTTTCAGGTCACGTTCGATGTACACATCCAGGAAGGTGGAGGTCCGAcc > 1:1526003/1‑57 (MQ=255)
cTTGCCAGCTTTCAGGTCACGTTCGATGTACACATCCAGGAAGGTGGAGGTCCGAcc > 1:1531434/1‑57 (MQ=255)
cTTGCCAGCTTTCAGGTCACGTTCGATGTACACATCCAGGAAGGTGGAGGTACGACCGAAGGAc > 1:1687832/1‑64 (MQ=255)
ttGCCAGCTTTCAGGTCACGTTCGATGTACACATCCAGGAAGGTGGAGGTCCGACCGAAGGACATTgcag > 1:519424/1‑70 (MQ=255)
ttGCCAGCTTTCAGGTCACGTTCGATGTACACATCCAGGAAGGTGGAGGTACGACCGAAGGAc < 1:2797923/63‑1 (MQ=255)
ttCAGGTCACGTTCGATGTACACATCCAGGAAGGTGGAGGTACGACCGAAGGACATTGCAGCACCGTTCt > 1:2555288/1‑70 (MQ=255)
tCAGGTCACGTTCGATGTACACATCCAGGAAGGTGGAGGTCCGACCGAAGGACATTGCAGCACCg < 1:865568/65‑1 (MQ=255)
tCAGGTCACGTTCGATGTACACATCCAGGAAGGTGGAGGTACGAc > 1:4466844/1‑45 (MQ=255)
tCAGGTCACGTTCGATGTACACATCCAGGAAGGTGGAGGTACGACCGAAGGACATTgc > 1:3338942/1‑58 (MQ=255)
cAGGTCACGTTCGATGTACACATCCAGGAAGGTGGAGGTACGACCGAAGGACATTGCAGCACCGTTCTga < 1:2700700/70‑1 (MQ=255)
cAGGTCACGTTCGATGTACACATCCAGGAAGGTGGAGGTACGACCGAAGGACATTGCAGCACCGTTCTga < 1:1077653/70‑1 (MQ=255)
aGGTCACGTTCGATGTACACATCCAGGAAGGTGGAGGTACGACCGAAGGACATTGCAGCACCGTTCTgaga < 1:829700/71‑1 (MQ=255)
cACGTTCGATGTACACATCCAGGAAGGTGGAGGTACGACCGAAGGACa > 1:925248/1‑48 (MQ=255)
aCGTTCGATGTACACATCCAGGAAGGTGGAGGTACGACCGAAGGACATTgcag > 1:248101/1‑53 (MQ=255)
aCGTTCGATGTACACATCCAGGAAGGTGGAGGTACGACCGAAGGACATTGCAGCACCGTTCTGAGACTTaa > 1:4456545/1‑71 (MQ=255)
ttCGATGTACACATCCAGGAAGGTGGAGGTCCGACCGAAGGACATTGCAGCACCGTTCTGAGACTTAAcag > 1:963034/1‑71 (MQ=255)
gATGTACACATCCAGGAAGGTGGAGGTACGACCGAAGGACATTGCAGCACCGTTCTGAGACTTAAcagcag < 1:1138710/71‑1 (MQ=255)
gATGTACACATCCAGGAAGGTGGAGGTACGACCGAAGGACATTGCAGCACCGTTCTGAGACTTAAcagcag < 1:2565572/71‑1 (MQ=255)
tGTACACATCCAGGAAGGTGGAGGTCCGACCGAAGGACATTGCAGCACCGTTCTGAGACTTAACAGCAGcc < 1:4447722/71‑1 (MQ=255)
tGTACACATCCAGGAAGGTGGAGGTACGACCGAAGGACATTGCAGCACCGTTCTGAGACTTAACAGCAGcc < 1:1126737/71‑1 (MQ=255)
acacATCCAGGAAGGTGGAGGTACGACCGAAGGACATTGCAGCACCGTTCTGAGACTTAACAGCAGcc < 1:1850419/68‑1 (MQ=255)
cactTCCAGGAAGGTGGAGGTCCGACCGAAGGACATTGCAGCACCGTTCTGAGACTTAAca > 1:4259324/1‑61 (MQ=255)
cacaTCCAGGAAGGTGGAGGTCCGACCGAAGGACATTGCAGCACCGTTCTGAGACTTAACAGCAGCCAgg < 1:2311723/70‑1 (MQ=255)
cacaTCCAGGAAGGTGGAGGTACGACCGAAGGACATTGCAGCACCGTTCTGAGACTTAACAGCAGCCAgg < 1:2841015/70‑1 (MQ=255)
cacaTCCAGGAAGGTGGAGGTACGACCGAAGGACATTGCAGCACCGTTCTGAGACTTAACAGCAGCCAgg < 1:4062777/70‑1 (MQ=255)
cacaTCCAGGAAGGTGGAGGTACGACCGAAGGACATTGCAGCACCGTTCTGAGACTTAACAGCAGCCAgg < 1:1492424/70‑1 (MQ=255)
cacaTCCAGGAAGGTGGAGGTACGACCGAAGGACATTGCAGCACCGTTCTGAGACTTAACAGCAGCCAgg > 1:2873634/1‑70 (MQ=255)
cacaTCCAGGAAGGTGGAGGTACGACCGAAGGACATTGCAGCACCGTTCTGAGACTTAACAGCAGCCAGGt < 1:2214406/71‑1 (MQ=255)
acaTCCAGGAAGGTGGAGGTACGACCGAAGGACATTGCAGCACCGTTCTGAGACTTAACAGCAGCCAGGTa < 1:2979568/71‑1 (MQ=255)
caTCCAGGAAGGTGGAGGTACGACCGAAGGACATTGCAGCACCGTTCTGAGACTTAACAGCAGCCAGGTa < 1:3740201/70‑1 (MQ=255)
aTCCAGGAAGGTGGAGGTACGACCGAAGGACATTgc < 1:1467217/36‑1 (MQ=255)
cAGGAAGGTGGAGGTACGACCGAAGGACATTGCAGCACCGTTCTGAGACTTAACAGCAGCCAGGTAGCCg > 1:2012931/1‑70 (MQ=255)
aGGAAGGTGGAGGTACGACCGAAGGACATTGCAGCACCTTTCTGAGACTTAACAGCAGCCAGGTAGCCg > 1:2017392/1‑69 (MQ=255)
ggAAGGTGGAGCTACGACCGAAGGACATTGCAGCACCGTTCTgaca < 1:143804/46‑3 (MQ=255)
gAAGGTGGAGGTCCGACCGAAGGACATTGCAGCACCGTTCTGAGACTTAACAGCAGCCAGGTAGCCGaag > 1:2532820/1‑70 (MQ=255)
gAAGGTGGAGGTACGACCGAAGGACATTGCAGCACCGTTCTGAGACt > 1:2647719/1‑47 (MQ=255)
gAAGGTGGAGGTACGACCGAAGGACATTGCAGCACCGTTCTGAGACt > 1:4457040/1‑47 (MQ=255)
aaGGTGGAGGTCCGACCGAAGGACATTGCAGCACCGTTCTGAGACTTAACAGCAGCCAGGTAGCCGaagt < 1:4639287/70‑1 (MQ=255)
aaGGTGGAGGTACGACCGAAGGACATTGCAGCACCGTTCTGAGACTTAACAGCAGCCAGGTAGCCGaagt < 1:4604153/70‑1 (MQ=255)
aGGTGGAGGTACGACCGAAGGACATTGCAGCACCGTTCTGAGACTTAACAGCAGCCAGGTa > 1:2469191/1‑61 (MQ=255)
tGGAGGTACGACCGAAGGACATTGCAGCACCGTTCTGAGACTTAACagcagc < 1:1797633/52‑1 (MQ=255)
tGGAGGTACGACCGAAGGACATTGCAGCACCGTTCTGAGACTTAACAGCAGCCAGGTAGCCGAAGTAAGTc < 1:4419476/71‑1 (MQ=255)
gAGGTACGACCGAAGGACATTGCAGCACCGTTCTGAGACTTAACAGCAGCCAGGTAGCCGAAGTAAGTCCa > 1:3467331/1‑71 (MQ=255)
gTACGACCGAAGGACATTGCAGCACCGTTCTGAGACTTAACAGCAGCCAGGTAGCCGAAGTAAGTCCACTg < 1:509914/71‑1 (MQ=255)
aCGACCGAAGGACATTGCAGCACCGTTCTGAGACTTAACAGCAGCCAGGTAGCCGAAGTAAGTCCACTGGa > 1:2706323/1‑71 (MQ=255)
|
GCTTCTTGTTCGGTGATCTTGCCAGCTTTCAGGTCACGTTCGATGTACACATCCAGGAAGGTGGAGGTACGACCGAAGGACATTGCAGCACCGTTCTGAGACTTAACAGCAGCCAGGTAGCCGAAGTAAGTCCACTGGA > W3110S.gb/953072‑953210
|
| 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
