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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,161,857 |
T→C |
37.5% |
C17C (TGT→TGC) |
ydjY → |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,161,857 | 0 | T | C | 37.5%
| 27.2
/ 33.6
| 56 | C17C (TGT→TGC) | ydjY | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (26/9); new base C (8/13); total (34/22) |
| Fisher's exact test for biased strand distribution p-value = 1.10e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AAATGAAGGATAGAACGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATCAACAAGAGAATGCGGCGGCAAAAGTGGAA > minE/1161790‑1161920
|
aaaTGAAGGATAGAACGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGtt < 1:1862192/69‑1 (MQ=255)
aaaTGAAGGATAGAACGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGtt < 1:1644731/69‑1 (MQ=255)
aaaTGAAGGATAGAACGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGtt < 1:3351372/69‑1 (MQ=255)
aaaTGAAGGATAGAACGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGtt < 1:36486/69‑1 (MQ=255)
aTGAAGGATAGAACGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGCTTa > 1:3193100/1‑69 (MQ=255)
aTGAAGGATAGAACGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGCTTa > 1:2098896/1‑69 (MQ=255)
aTGAAGGATAGAACGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGCTTa > 1:2591298/1‑69 (MQ=255)
aTGAAGGATAGAACGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGCTTa > 1:636546/1‑69 (MQ=255)
aTGAAGGATAGAACGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGCTTa > 1:1163787/1‑69 (MQ=255)
aTGAAGGATAGAACGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGCTTa > 1:1053667/1‑69 (MQ=255)
aTGAAGGATAGAACGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGCTTa > 1:926406/1‑69 (MQ=255)
aTGAAGGATAGAACGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGACTGCACTCTGCTTa > 1:2400387/1‑69 (MQ=255)
cGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGTCTGCACTCTGCTTACTGGCTGTTGCTg < 1:2547734/69‑1 (MQ=255)
cGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGCTTACTGGCTGTTGCTg < 1:3404512/69‑1 (MQ=255)
cGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGCTTACTGGCTGTTGCTg < 1:606314/69‑1 (MQ=255)
cGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGCTTACTGGCTGTTGCTg < 1:961968/69‑1 (MQ=255)
cGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGCTTACTGGCTGTTGCTg < 1:3123782/69‑1 (MQ=255)
cGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGCTTACTGGCTGTTGCTg < 1:2874917/69‑1 (MQ=255)
cGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGCTTACTGGCTGTTGCTg < 1:2314296/69‑1 (MQ=255)
cGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGCTTACTGGCTGTTGCTg < 1:1487053/69‑1 (MQ=255)
gATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGCTTACTGGCTGTTGCTg < 1:3400200/68‑1 (MQ=255)
gATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGCTTACTGGCTGTTGCTg < 1:2206877/68‑1 (MQ=255)
gATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGCTTACTGGCTGTTGCTg < 1:1879386/68‑1 (MQ=255)
gATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGCTTACTGGCTGTTGCTg < 1:1247305/68‑1 (MQ=255)
gATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGCTTACTGGCTGTTGCTg < 1:495335/68‑1 (MQ=255)
aCATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCgg > 1:2612133/1‑69 (MQ=255)
aCATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCgg > 1:3404462/1‑69 (MQ=255)
aCATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCgg > 1:1381981/1‑69 (MQ=255)
aCATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCgg > 1:336666/1‑69 (MQ=255)
aCATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCgg > 1:1400376/1‑69 (MQ=255)
aCATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCgg > 1:1429641/1‑69 (MQ=255)
aCATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCgg > 1:2974154/1‑69 (MQ=255)
aCATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCgg > 1:1336323/1‑69 (MQ=255)
aCATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCgg > 1:2199044/1‑69 (MQ=255)
aCATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCg > 1:1974284/1‑68 (MQ=255)
tCATGGAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATcaacaa < 1:125556/69‑1 (MQ=255)
tCATGGAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATcaacaa < 1:348080/69‑1 (MQ=255)
ggAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATCAACAagag < 1:1722345/68‑1 (MQ=255)
ggAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATCAACAagag < 1:2303480/68‑1 (MQ=255)
gAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATCAACAagag > 1:1633848/1‑67 (MQ=255)
gAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATCAACAAGAGaa > 1:565198/1‑69 (MQ=255)
gAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATCAACAAGAGaa > 1:1006512/1‑69 (MQ=255)
gAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATCAACAAGAGaa > 1:819046/1‑69 (MQ=255)
gAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATCAACAAGAGaa > 1:866454/1‑69 (MQ=255)
gAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATCAACAAGAGaa > 1:1018670/1‑69 (MQ=255)
gAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATCAACAAGAGaa > 1:1986369/1‑69 (MQ=255)
gAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATCAACAAGAGaa > 1:3379468/1‑69 (MQ=255)
gAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATCAACAAGAGaa > 1:3118158/1‑69 (MQ=255)
gAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATCAACAAGAGaa > 1:277288/1‑69 (MQ=255)
gAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATCAACAAGAGaa > 1:274472/1‑69 (MQ=255)
gAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATCAACAAGAGaa > 1:1639610/1‑69 (MQ=255)
gAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATCAACAAGAGaa > 1:2471261/1‑69 (MQ=255)
gAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATCAACAAGAGaa > 1:2279841/1‑69 (MQ=255)
gAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATCAACAAGAGaa > 1:2123376/1‑69 (MQ=255)
ctctGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATCAACAAGAGAATGCGGCGGCAAAAGTgg < 1:40601/67‑1 (MQ=255)
ctctGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATCAACAAGAGAATGCGGCGGCAAAAGTgg < 1:663067/67‑1 (MQ=255)
ctctGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATCAACAAGAGAATGCGGCGGCAAAAGTgg < 1:663731/67‑1 (MQ=255)
ctctGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATCAACAAGAGAATGCGGCGGCAAAAGTgg < 1:2400848/67‑1 (MQ=255)
ctctGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATCAACAAGAGAATGCGGCGGCAAAAGTgg < 1:2229195/67‑1 (MQ=255)
tGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATCAACAAGAGAATGCGGCGGCAAAAGTGGaa > 1:2641879/1‑66 (MQ=255)
|
AAATGAAGGATAGAACGATGTTGCAACATTATTCAGTGTCATGGAAAAAAGGACTGGCTGCACTCTGTTTACTGGCTGTTGCTGGGCTTAGCGGCTGCGATCAACAAGAGAATGCGGCGGCAAAAGTGGAA > minE/1161790‑1161920
|
| 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
