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 |
1,222,865 |
G→A |
42.0% |
G480G (GGG→GGA) |
yebT → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,222,865 | 0 | G | A | 42.0%
| 24.5
/ 48.8
| 69 | G480G (GGG→GGA) | yebT | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (13/27); new base A (14/15); total (27/42) |
| Fisher's exact test for biased strand distribution p-value = 2.18e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.59e-01 |
GTGAAGGTGGGGCTGGATGGCGTTGAGTTTCTCGGTGCCAGCGCCTCAGAATGGATCAATGGCGGGATACGTATTCTGCCGGGCGATAAAGGTGAGATGAAAGCCAGCTATCCACTGTAT > minE/1222800‑1222919
|
gtgAAGGTGGGGCTGGATGGCGTTGAGTTTCTCGGTGCCAGCGCCTCAGAATGGATCAATGGCGGGATa > 1:3053920/1‑69 (MQ=255)
gtgAAGGTGGGGCTGGATGGCGTTGAGTTTCTCGGTGCCAGCGCCTCAGAATGGATCAATGGCGGGATa > 1:127789/1‑69 (MQ=255)
gtgAAGGTGGGGCTGGATGGCGTTGAGTTTCTCGGTGCCAGCGCCTCAGAATGGATCAATGGCGGGATa > 1:2898727/1‑69 (MQ=255)
aaGGTGGGGCTGGATGGCGTTGAGTTTCTCGGTGCCAGCGCCTCAGAATGGATCAATGGCGGGATACg < 1:2310408/68‑1 (MQ=255)
gTGGGGCTGGATGGCGTTGAGTTTCTCGGTGCCAGCGCCTCAGAATGGATCAATGGCGGGATACGTAtt > 1:1623469/1‑69 (MQ=255)
gTTGAGTTTCTCGGTGCCAGCGCCTCAGAATGGATCAATGGCGGGATACGTATTCTGCCGGGCGATaaa < 1:3374479/69‑1 (MQ=255)
gTTGAGTTTCTCGGTGCCAGCGCCTCAGAATGGATCAATGGCGGGATACGTATTCTGCCGGGCGATaaa < 1:2264613/69‑1 (MQ=255)
gTTGAGTTTCTCGGTGCCAGCGCCTCAGAATGGATCAATGGCGGGATACGTATTCTGCCGGGCGATaaa < 1:625599/69‑1 (MQ=255)
gTTGAGTTTCTCGGTGCCAGCGCCTCAGAATGGATCAATGGCGGGATACGTATTCTGCCGGGCGATaaa < 1:704830/69‑1 (MQ=255)
gTTGAGTTTCTCGGTGCCAGCGCCTCAGAATGGATCAATGGCGGGATACGTATTCTGCCGGGCGATaaa < 1:813976/69‑1 (MQ=255)
tttCTCGGTGCCAGCGCCTCAGAATGGATCAATGGCGGGATACGTATTCTGCCGGGCGATAAAGGTgag > 1:2124943/1‑69 (MQ=255)
tttCTCGGTGCCAGCGCCTCAGAATGGATCAATGGCGGGATACGTATTCTGCCGGGCGATAAAGGTgag > 1:1692588/1‑69 (MQ=255)
tttCTCGGTGCCAGCGCCTCAGAATGGATCAATGGCGGGATACGTATTCTGCCGGGCGATAAAGGTga > 1:2008975/1‑68 (MQ=255)
gTGCCAGCGCCTCAGAATGGATCAATGGCGGAATACGTATTCTGCCGGGCGATAAAGGCGAGATGaaa > 1:1441117/1‑68 (MQ=255)
gTGCCAGCGCCTCAGAATGGATCAATGGCGGAATACGTATTCTGCCGGGCGATAAAGGCGAGATGaaa > 1:1075892/1‑68 (MQ=255)
gTGCCAGCGCCTCAGAATGGATCAATGGCGGAATACGTATTCTGCCGGGCGATAAAGGCGAGATGaaa > 1:1170015/1‑68 (MQ=255)
gTGCCAGCGCCTCAGAATGGATCAATGGCGGAATACGTATTCTGCCGGGCGATAAAGGCGAGATGaaa > 1:1905203/1‑68 (MQ=255)
gTGCCAGCGCCTCAGAATGGATCAATGGCGGAATACGTATTCTGCCGGGCGATAAAGGCGAGATGaaa > 1:2393636/1‑68 (MQ=255)
gTGCCAGCGCCTCAGAATGGATCAATGGCGGAATACGTATTCTGCCGGGCGATAAAGGCGAGATGaaa > 1:2988393/1‑68 (MQ=255)
gTGCCAGCGCCTCAGAATGGATCAATGGCGGAATACGTATTCTGCCGGGCGATAAAGGCGAGATGaaa > 1:2619194/1‑68 (MQ=255)
gTGCCAGCGCCTCAGAATGGATCAATGGCGGAATACGTATTCTGCCGGGCGATAAAGGCGAGATGaaa > 1:732136/1‑68 (MQ=255)
gTGCCAGCGCCTCAGAATGGATCAATGGCGGAATACGTATTCTGCCGGGCGATAAAGGCGAGATGaaa > 1:2927065/1‑68 (MQ=255)
gTGCCAGCGCCTCAGAATGGATCAATGGCGGAATACGTATTCTGCCGGGCGATAAAGGCGAGATGaaa > 1:804513/1‑68 (MQ=255)
gTGCCAGCGCCTCAGAATGGATCAATGGCGGAATACGTATTCTGCCGGGCGATAAAGGCGAGATGaaa > 1:157121/1‑68 (MQ=255)
gTGCCAGCGCCTCAGAATGGATCAATGGCGGAATACGTATTCTGCCGGGCGATAAAGGCGAGATGaaa > 1:3327919/1‑68 (MQ=255)
gTGCCAGCGCCTCAGAATGGATCAATGGCGGAATACGTATTCTGCCGGGCGATAAAGGCGAGATGaaa > 1:2912283/1‑68 (MQ=255)
gTGCCAGCGCCTCAGAATGGATCAATGGCGGAATACGTATTCTGCCGGGCGATAAAGGCGAGATGaaa > 1:144889/1‑68 (MQ=255)
aGCGCCTCAGAATGGATCAATGGCGGGATACGTAt > 1:1938027/1‑35 (MQ=255)
aGCGCCTCAGAATGGATCAATGGCGGGATACGTATTCTGCCGGGCGATAAAGGTGAGATGAAAGCCAGc > 1:1289915/1‑69 (MQ=255)
aGCGCCTCAGAATGGATCAATGGCGGGATACGTATTCTGCCGGGCGATAAAGGTGAGATGAAAGCCAGc > 1:388387/1‑69 (MQ=255)
aGCGCCTCAGAATGGATCAATGGCGGGATACGTATTCTGCCGGGCGATAAAGGTGAGATGAAAGCCAGc > 1:2502480/1‑69 (MQ=255)
cataaTGGATCAATGGCGGAATACGTATTCTGCCGGGCGATAAAGGCGAGATGAAAGCCa < 1:1060533/57‑1 (MQ=255)
cAGAATGGATCAATGGCGGAATACGTATTCTGCCGGTCGATAAAGGCGAGATGAAAGCCa < 1:1990151/60‑1 (MQ=255)
cAGAATGGATCAATGGCGGAATACGTATTCTGCCGGGCGATAAAGGCGAGATGAAAGCCa < 1:2014779/60‑1 (MQ=255)
cAGAATGGATCAATGGCGGAATACGTATTCTGCCGGGCGATAAAGGCGAGATGAAAGCCa < 1:2992223/60‑1 (MQ=255)
cAGAATGGATCAATGGCGGAATACGTATTCTGCCGGGCGATAAAGGCGAGATGAAAGCCa < 1:1553681/60‑1 (MQ=255)
cAGAATGGATCAATGGCGGAATACGTATTCTGCCGGGCGATAAAGGCGAGATGAAAGCCa < 1:2418095/60‑1 (MQ=255)
cAGAATGGATCAATGGCGGAATACGTATTCTGCCGGGCGATAAAGGCGAGATGAAAGCCa < 1:1442937/60‑1 (MQ=255)
cAGAATGGATCAATGGCGGAATACGTATTCTGCCGGGCGATAAAGGCGAGATGAAAGCCa < 1:3319001/60‑1 (MQ=255)
cAGAATGGATCAATGGCGGAATACGTATTCTGCCGGGCGATAAAGGCGAGATGAAAGCCa < 1:3182979/60‑1 (MQ=255)
cAGAATGGATCAATGGCGGAATACGTATTCTGCCGGGCGATAAAGGCGAGATGAAAGCCa < 1:2971013/60‑1 (MQ=255)
cAGAATGGATCAATGGCGGAATACGTATTCTGCCGGGCGATAAAGGCGAGATGAAAGCCa < 1:1340909/60‑1 (MQ=255)
cAGAATGGATCAATGGCGGAATACGTATTCTGCCGGGCGATAAAGGCGAGATGAAAGCCa < 1:1307341/60‑1 (MQ=255)
cAGAATGGATCAATGGCGGAATACGTATTCTGCCGGGCGATAAACGCGAGATGAAAGCCa < 1:122040/60‑1 (MQ=255)
cAGAATGGATCAATGGCGGAATACGTATTCTGCCGGGCCATAAAGGCGAGATGAAAGCCa < 1:2620653/60‑1 (MQ=255)
aaTGGATCAATGGCGGGATACGTATTCTGCCGGGCGATAAAGGTGAGATGAAGGCCAGCTATCCACTg < 1:1398691/68‑1 (MQ=255)
aaTGGATCAATGGCGGGATACGTATTCTGCCGGGCGATAAAGGTGAGATGAAAGCCAGCTATCCACTg < 1:992538/68‑1 (MQ=255)
aaTGGATCAATGGCGGGATACGTATTCTGCCGGGCGATAAAGGTGAGATGAAAGCCAGCTATCCACTg < 1:3390389/68‑1 (MQ=255)
aaTGGATCAATGGCGGGATACGTATTCTGCCGGGCGATAAAGGTGAGATGAAAGCCAGCTATCCACTg < 1:308074/68‑1 (MQ=255)
aaTGGATCAATGGCGGGATACGTATTCTGCCGGGCGATAAAGGTGAGATGAAAGCCAGCTATCCACTg < 1:844736/68‑1 (MQ=255)
aaTGGATCAATGGCGGGATACGTATTCTGCCGGGCGATAAAGGTGAGATGAAAGCCAGCTATCCACTg < 1:587139/68‑1 (MQ=255)
aaTGGATCAATGGCGGGATACGTATTCTGCCGGGCGATAAAGGTGAGATGAAAGCCAGCTATCCACTg < 1:2257479/68‑1 (MQ=255)
aaTGGATCAATGGCGGGATACGTATTCTGCCGGGCGATAAAGGTGAGATGAAAGCCAGCTATCCACTg < 1:556369/68‑1 (MQ=255)
aaTGGATCAATGGCGGGATACGTATTCTGCCGGGCGATAAAGGTGAGATGAAAGCCAGCTATCCACTg < 1:2954673/68‑1 (MQ=255)
aaTGGATCAATGGCGGGATACGTATTCTGCCGGGCGATAAAGGTGAGATGAAAGCCAGCTATCCACTg < 1:2821099/68‑1 (MQ=255)
aaTGGATCAATGGCGGGATACGTATTCTGCCGGGCGATAAAGGTGAGATGAAAGCCAGCTATCCACTg < 1:2621188/68‑1 (MQ=255)
aaTGGATCAATGGCGGGATACGTATTCTGCCGGGCGATAAAGGTGAGATGAAAGCCAGCTATCCACTg < 1:2129709/68‑1 (MQ=255)
aaTGGATCAATGGCGGGATACGTATTCTGCCGGGCGATAAAGGTGAGATGAAAGCCAGCTATCCACTg < 1:2100379/68‑1 (MQ=255)
aaTGGATCAATGGCGGGATACGTATTCTGCCGGGCGATAAAGGTGAGATGAAAGCCAGCTATCCACTg < 1:2053302/68‑1 (MQ=255)
aaTGGATCAATGGCGGGATACGTATTCTGCCGGGCGATAAAGGTGAGATGAAAGCCAGCTATCCACTg < 1:1897147/68‑1 (MQ=255)
aaTGGATCAATGGCGGGATACGTATTCTGCCGGGCGATAAAGGTGAGATGAAAGCCAGCTATCCACTg < 1:1685291/68‑1 (MQ=255)
aaTGGATCAATGGCGGGATACGTATTCTGCCGGGCGATAAAGGTGAGATGAAAGCCAGCTATCCACTg < 1:1574888/68‑1 (MQ=255)
aaTGGATCAATGGCGGGATACGTATTCTGCCGGGCGATAAAGGTGAGATGAAAGCCAGCTATCCACTg < 1:1547393/68‑1 (MQ=255)
aaTGGATCAATGGCGGGATACGTATTCTGCCGGGCGATAAAGGTGAGATGAAAGCCAGCTATCCACTg < 1:1396870/68‑1 (MQ=255)
aaTGGATCAATGGCGGGATACGTATTCTGCCGGGCGATAAAGGTGAGATGAAAGCCAGCTATCCACTg < 1:1075718/68‑1 (MQ=255)
tGGATCAATGGCGGGATACGTATTCTGCCGGGCGATaaa < 1:2400822/39‑1 (MQ=255)
ggATCAATGGCGGGATACGTATTCTGCCGGGCGATAAAGGTGAGATGAAAGCCAGCTATCCACTGTAt > 1:1759572/1‑68 (MQ=255)
cAATGGCGGAATACGTATTCTGCCGGGCGATAAAGGCGAGATGAAAGCCa < 1:2158091/50‑1 (MQ=39)
tGGCGGGATACGTATTCTGCCGGGCGATAAAGGTGAGATGAAAGCAAGCTATCCACTGTAt > 1:1865580/1‑61 (MQ=255)
|
GTGAAGGTGGGGCTGGATGGCGTTGAGTTTCTCGGTGCCAGCGCCTCAGAATGGATCAATGGCGGGATACGTATTCTGCCGGGCGATAAAGGTGAGATGAAAGCCAGCTATCCACTGTAT > minE/1222800‑1222919
|
| 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
