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 F8 I0 R2
|
422 |
46.8 |
3726540 |
94.7% |
3529033 |
61.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,688,036 |
T→C |
71.8% |
I43V (ATT→GTT) |
yfhG ← |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,688,036 | 0 | T | C | 71.8%
| 74.0
/ 30.2
| 46 | I43V (ATT→GTT) | yfhG | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (7/6); new base C (16/17); total (23/23) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CAGCGCCCAGATGTCGCTACATTCAGTAGAAAGATAGTCAGCCAGTTGATAAACCGGAATTTTTTCTTCTGCTGGCGTATCAATGGCTGGCTTATTGTGATTCTGCACGCAACCCAGCAATGCCAGA > W3110S.gb/2687977‑2688103
|
cAGCGCCCAGATGTCGCTACATTCAGTAGAAAGATAGTCAGCCAGTTGATAAACCGGAACTTTTTCTTctg < 1:2135852/71‑1 (MQ=255)
gATGTCGCTACATTCAGTAGAAAGATAGTCAGCCAGTTGATAAACCGGAActtttt > 1:2969164/1‑56 (MQ=255)
gATGTCGCTACATTCAGTAGAAAGATAGTCAGCCAGTTGATAAACCGGAActtttt > 1:2597143/1‑56 (MQ=255)
gATGTCGCTACATTCAGTAGAAAGATAGTCAGCCAGTTGATAAACCGGAActtttt > 1:2453538/1‑56 (MQ=255)
gATGTCGCTACATTCAGTAGAAAGATAGTCAGCCAGTTGATAAACCGGAActtttt > 1:1943055/1‑56 (MQ=255)
gATGTCGCTACATTCAGTAGAAAGATAGTCAGCCAGTTGATAAACCGGAActtttt > 1:1822019/1‑56 (MQ=255)
gATGTCGCTACATTCAGTAGAAAGATAGTCAGCCAGTTGATAAACCGGAACTTTTTCTTCTGCTGGCGTAt < 1:3045875/71‑1 (MQ=255)
gATGTCGCTACATTCAGTAGAAAGATAGTCAGCCAGTTGATAAACCGGAACTTTTTCTTCTGCTGGCGTAt < 1:2357200/71‑1 (MQ=255)
gATGTCGCTACATTCAGTAGAAAGATAGTCAGCCAGTTGATAAACCGGAACTTTTTCTTCTGCTGGCGTAt < 1:2244010/71‑1 (MQ=255)
gATGTCGCTACATTCAGTAGAAAGATAGTCAGCCAGTTGATAAACCGGAACTTTTTCTTCTGCTGGCGTAt < 1:2006952/71‑1 (MQ=255)
gATGTCGCTACATTCAGTAGAAAGATAGTCAGCCAGTTGATAAACCGGAACTTTTTCTTCTGCTGGCGTAt < 1:616276/71‑1 (MQ=255)
aTGTCGCTACATTCAGTAGAAAGATAGTCAGCCAGTTGATAAACCGGAACTTTTTCTTCTGCTGGCGTAt > 1:410653/1‑70 (MQ=255)
aTGTCGCTACATTCAGTAGAAAGATAGTCAGCCAGTTGATAAACCGGAACTTTTTCTTCTGCTGGCGTATc < 1:353243/71‑1 (MQ=255)
aTGTCGCTACATTCAGTAGAAAGATAGTCAGCCAGTTGATAAACCGGAACTTTTTCTTCTGCTGGCGTATc < 1:2098183/71‑1 (MQ=255)
aTGTCGCTACATTCAGTAGAAAGATAGTCAGCCAGTTGATAAACCGGAACTTTTTCTTCTGCTGGCGTATc < 1:930363/71‑1 (MQ=255)
gTCGCTACATTCAGTAGAAAGATAGTCAGCCAGTTGATAAACCGGAATTTTTTCTTCTGCTGGCGTATCaa > 1:2100574/1‑71 (MQ=255)
gTCGCTACATTCAGTAGAAAGATAGTCAGCCAGTTGATAAACCGGAACTTTTTCTTCTGCTGGCGTATCaa > 1:569077/1‑71 (MQ=255)
gTCGCTACATTCAGTAGAAAGATAGTCAGCCAGTTGATAAACCGGAACTTTTTCTTCTGCTGGCGTATCaa > 1:3022696/1‑71 (MQ=255)
gCTACATTCAGTAGAAAGATAGTCAGCCAGTTGATAAACCGGAATTTTTTCTTCTGCTGGCGTATCAAtg < 1:3227831/70‑1 (MQ=255)
cATTCAGTTGAAAGATAGTCAGCCAGTTGATAAACCGGAATTTTTTCTTCTGCTGGCGTATCAAtggctg > 1:2878707/1‑70 (MQ=255)
cATTCAGTAGAAAGATAGTCAGCCAGTTGATAAACCGGAATTTTTTCTTctg > 1:1104467/1‑52 (MQ=255)
cATTCAGTAGAAAGATAGTCAGCCAGTTGATAAACCGGAATTTTTTCTTCTGCTGGCGTATCAAtggctgg > 1:93326/1‑71 (MQ=255)
cATTCAGTAGAAAGATAGTCAGCCAGTTGATAAACCGGAATTTTTTCTTCTGCTGGCGTATCAAtggctgg > 1:2876018/1‑71 (MQ=255)
cATTCAGTAGAAAGATAGTCAGCCAGTTGATAAACCGGAATTTTTTCTTCTGCTGGCGTATCAAtggctgg > 1:2620401/1‑71 (MQ=255)
cATTCAGTAGAAAGATAGTCAGCCAGTTGATAAACCGGAATTTTTTCTTCTGCTGGCGTATCAAtggctg > 1:1053986/1‑70 (MQ=255)
ttCAGTAGAAAGATAGTCAGCCAGTTGATAAACCGGAACTTTTTCTTCTGCTGGCGTATCAATggctggct > 1:371018/1‑71 (MQ=255)
ttCAGTAGAAAGATAGTCAGCCAGTTGATAAACCGGAACTTTTTCTTCTGCTGGCGTATCAATggctggct > 1:3381444/1‑71 (MQ=255)
tAGAAAGATAGTCAGCCAGTTGATAAACCGGAACTTTTTCTTCTGCTGGCGTATCAATGGCTGGCTTATtg > 1:3237909/1‑71 (MQ=255)
gAAAGATAGTCAGCCAGTTGATAAACCGGAATTTTTTCTTCTGCTGGCGTATCAATGGCTGGCTTATtgt < 1:501489/70‑1 (MQ=255)
gAAAGATAGTCAGCCAGTTGATAAACCGGAACTTTttctt > 1:3051270/1‑40 (MQ=255)
gAAAGATAGTCAGCCAGTTGATAAACCGGAACTTTttctt > 1:3359309/1‑40 (MQ=255)
gAAAGATAGTCAGCCAGTTGATAAACCGGAACTTTttctt > 1:2489316/1‑40 (MQ=255)
aGATAGTCAGCCAGTTGATAAACCGGAACTTTTTCTTCTGCTGGCGTATCAATGGCTGGCTTATTGTGAtt > 1:969008/1‑71 (MQ=255)
aGTTGATAAACCGGAACTTTTTCTTCTGCTGGCGTATCAATGGCTGGCTTATTGTGa > 1:2630752/1‑57 (MQ=255)
tGATAAACCGGAACTTTTTCTTCTGCTGGCGTATCAATGGCTGGCTTATTGTGATTCTGCACGCAACCCAg > 1:1131576/1‑71 (MQ=255)
gATAAACCGGAACTTTTTCTTCTGCTGGCGTATCAATGGCTGGCTTATTGTGATTCTGCACGCAACCCAg > 1:2974332/1‑70 (MQ=255)
gATAAACCGGAACTTTTTCTTCTGCTGGCGTATCAATGGCTGGCTTATTGTGATTCTGCACGCAACCCAg > 1:548565/1‑70 (MQ=255)
aTAAACCGGAATTTTTTCTTCTGCTGGCGTATCAATGGCTGGCTTATTGTGATTCTGCACGCAACCCAGc < 1:1810123/70‑1 (MQ=255)
aTAAACCGGAATTTTTTCTTCTGCTGGCGTATCAATGGCTGGCTTATTGTGATTCTGCACGCAACCCAGc < 1:1154260/70‑1 (MQ=255)
aTAAACCGGAATTTTTTCTTCTGCTGGCGTATCAATGGCTGGCTTATTGTGATTCTGCACGCAACCCAGc < 1:1726717/70‑1 (MQ=255)
aTAAACCGGAACTTTTTCTTCTGCTGGCGTATCAATGGCTGGCTTATTGTGATTCTGCACGCAACCCAGc < 1:2850532/70‑1 (MQ=255)
aaaCCGGAACTTTTTCTTCTGCTGGCGTATCAATGGCTGGCTTATTGTGATTCTGCACGCAACCCAGCaa > 1:2536137/1‑70 (MQ=255)
aaCCGGAACTTTTTCTTCTGCTGGCGTATCAATGGCTGGCTTATTGTGATTCTGCACGCAACCCAGCAATg > 1:1989967/1‑71 (MQ=255)
aCCGGAATTTTTTCTTCTGCTGGCGTATCAATGGCTGGCTTATTGTGATTCTGCACGCAACCCAGCAATGc < 1:1884875/71‑1 (MQ=255)
gAACTTTTTCTTCTGCTGGCGTATCAATGGCTGGCTTATTGTGATTCTGCACGCAACCCAGCAATGCCAGa < 1:1077421/71‑1 (MQ=255)
gAACTTTTTCTTCTGCTGGCGTATCAATGGCTGGCTTATTGTGATTCTGCACGCAACCCAGCAATGCCAGa < 1:860998/71‑1 (MQ=255)
gAACTTTTTCTTCTGCTGGCGTATCAATGGCTGGCTTATTGTGATTCTGCACGCAACCCAGCAATGCCAGa < 1:1359535/71‑1 (MQ=255)
gAACTTTTTCTTCTGCTGGCGTATCAATGGCTGGCTTATTGTGATTCTGCACGCAACCCAGCAATGCCAGa < 1:1722547/71‑1 (MQ=255)
gAACTTTTTCTTCTGCTGGCGTATCAATGGCTGGCTTATTGTGATTCTGCACGCAACCCAGCAATGCCAGa < 1:434903/71‑1 (MQ=255)
gAACTTTTTCTTCTGCTGGCGTATCAATGGCTGGCTTATTGTGATTCTGCACGCAACCCAGCAATGCCAGa < 1:3542677/71‑1 (MQ=255)
gAACTTTTTCTTCTGCTGGCGTATCAATGGCTGGCTTATTGTGATTCTGCACGCAACCCAGCAATGCCAGa < 1:2262270/71‑1 (MQ=255)
|
CAGCGCCCAGATGTCGCTACATTCAGTAGAAAGATAGTCAGCCAGTTGATAAACCGGAATTTTTTCTTCTGCTGGCGTATCAATGGCTGGCTTATTGTGATTCTGCACGCAACCCAGCAATGCCAGA > W3110S.gb/2687977‑2688103
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
