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 |
2,811,594 |
G→A |
43.6% |
R384R (CGC→CGT) |
uvrA ← |
ATPase and DNA damage recognition protein of nucleotide excision repair excinuclease UvrABC |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,811,594 | 0 | G | A | 43.6%
| 13.8
/ 39.8
| 55 | R384R (CGC→CGT) | uvrA | ATPase and DNA damage recognition protein of nucleotide excision repair excinuclease UvrABC |
| Reads supporting (aligned to +/- strand): ref base G (16/15); new base A (14/10); total (30/25) |
| Fisher's exact test for biased strand distribution p-value = 7.85e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.76e-01 |
GATTACTGATAAACTTGGCTAATTCTTCGCGTACCGCGCTGGATTCCGTCTCTTTATAGCGGCGCTCCATATTATGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTATCGCCACGATCGTT > minE/2811536‑2811662
|
gATTACTGATAAACTTGGCTAATTCTTCGCGTACCGCGCTGGATTCCGTCTCTTTATAGCGGCGCTCCa < 1:2191493/69‑1 (MQ=255)
tACTGATAAACTTGGCTAATTCTTCGCGTACCGCGCTGGATTCCGTCTCTTTATAGCGGCGCTCCatat < 1:1456921/69‑1 (MQ=255)
tACTGATAAACTTGGCTAATTCTTCGCGTACCGCGCTGGATTCCGTCTCTTTATAGCGGCGCTCCatat < 1:2517117/69‑1 (MQ=255)
tGATAAACTTGGCTAATTCTTCGCGTACCGCGCTGGATTCCGTCTCTTTATAGCGGCGCTCCAtatta > 1:1120772/1‑68 (MQ=255)
tGATAAACTTGGCTAATTCTTCGCGTACCGCGCTGGATTCCGTCTCTTTATAGCGGCGCTCCAtatta < 1:766151/68‑1 (MQ=255)
tAAACTTGGCTAATTCTTCGCGTACCGCGCTGGATTCCGTCTCTTTATAGCGGCGCTCCATATTATgc > 1:2775006/1‑68 (MQ=255)
tAAACTTGGCTAATTCTTCGCGTACCGCGCTGGATTCCGTCTCTTTATAGCGGCGCTCCATATTATgc > 1:1757157/1‑68 (MQ=255)
cTAATTCTTCGCGTACCGCGCTGGATTCCGTCTCTTTATAGCGGCGCTCCATATTATGCAGCACGCCt < 1:1041072/68‑1 (MQ=255)
cTAATTCTTCGCGTACCGCGCTGGATTCCGTCTCTTTATAGCGGCGCTCCATATTATGCAGCACGCCt < 1:115925/68‑1 (MQ=255)
cTAATTCTTCGCGTACCGCGCTGGATTCCGTCTCTTTATAGCGGCGCTCCATATTATGCAGCACGCCt < 1:1326607/68‑1 (MQ=255)
cTAATTCTTCGCGTACCGCGCTGGATTCCGTCTCTTTATAGCGGCGCTCCATATTATGCAGCACGCCt < 1:320834/68‑1 (MQ=255)
cTAATTCTTCGCGTACCGCGCTGGATTCCGTCTCTTTATAGCGGCGCTCCATATTATGCAGCACGCCt < 1:3047428/68‑1 (MQ=255)
cTAATTCTTCGCGTACCGCGCTGGATTCCGTCTCTTTATAGCGGCGCTCCATATTATGCAGCACGCCt < 1:2928990/68‑1 (MQ=255)
cTAATTCTTCGCGTACCGCGCTGGATTCCGTCTCTTTATAGCGGCGCTCCATATTATGCAGCACGCCt < 1:2502816/68‑1 (MQ=255)
aaTTCTTCGCGTACCGCGCTGGATTCCGTCTCTTTATAGCGGCGCTCCa > 1:982113/1‑49 (MQ=255)
aaTTCTTCGCGTACCGCGCTGGATTCCGTCTCTTTATAGCGGCGCTCCa > 1:1039935/1‑49 (MQ=255)
gcgcTGGATTCCGTCTCTTTATAGCGGCGCTCCATATTATGCAGCACGCCTTCGAACGGATGacgacg < 1:2371332/68‑1 (MQ=255)
gcgcTGGATTCCATCTCTTTATAGCGGCGCTCCATATTATGCAGCACGCCTTCGAACGGATGacgacg < 1:2767532/68‑1 (MQ=255)
gATTCCGTCTCTTTATAGCGGCGCTCCATATTATGCAGCACGCCt < 1:2498738/45‑1 (MQ=255)
ttCCGTCTCTTTATAGCGGCGCTCCATATTATGCAGCACGCCTTCGAACGGATGACGACGAATGGAgg > 1:1776710/1‑68 (MQ=255)
ttCCGTCTCTTTATAGCGGCGCTCCATATTATGCAGCACGCCTTCGAACGGATGACGACGAATGGAgg < 1:778445/68‑1 (MQ=255)
ttCCGTCTCTTTATAGCGGCGCTCCATATTATGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGt > 1:423855/1‑69 (MQ=255)
ttCCGTCTCTTTATAGCGGCGCTCCATATTATGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGt > 1:554396/1‑69 (MQ=255)
ccGTCTCTTTATAACGGCGCTCCATATTGTGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTAt < 1:2785796/69‑1 (MQ=255)
ccGTCTCTTTATAACGGCGCTCCATATTGTGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTAt < 1:3189333/69‑1 (MQ=255)
ccGTCTCTTTATAACGGCGCTCCATATTGTGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTAt < 1:498283/69‑1 (MQ=255)
ccGTCTCTTTATAACGGCGCTCCATATTGTGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTAt < 1:2764151/69‑1 (MQ=255)
ccGTCTCTTTATAACGGCGCTCCATATTGTGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTAt < 1:2739021/69‑1 (MQ=255)
ccGTCTCTTTATAACGGCGCTCCATATTGTGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTAt < 1:2606777/69‑1 (MQ=255)
ccGTCTCTTTATAACGGCGCTCCATATTGTGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTAt < 1:2567996/69‑1 (MQ=255)
ccGTCTCTTTATAACGGCGCTCCATATTGTGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTAt < 1:3330843/69‑1 (MQ=255)
ccGTCTCTTTATAACGGCGCTCCATATTGTGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTAt < 1:2418045/69‑1 (MQ=255)
ccGTCTCTTTATAACGGCGCTCCATATTGTGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTAt < 1:87461/69‑1 (MQ=255)
cGTCTCTTTATAACGGCGCTCCATATTGTGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTAt > 1:3237771/1‑68 (MQ=255)
cGTCTCTTTATAACGGCGCTCCATATTGTGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTATc > 1:2768214/1‑69 (MQ=255)
cGTCTCTTTATAACGGCGCTCCATATTGTGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTATc > 1:610443/1‑69 (MQ=255)
cGTCTCTTTATAACGGCGCTCCATATTGTGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTATc > 1:1481900/1‑69 (MQ=255)
cGTCTCTTTATAACGGCGCTCCATATTGTGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTATc > 1:487589/1‑69 (MQ=255)
cGTCTCTTTATAACGGCGCTCCATATTGTGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTATc > 1:454597/1‑69 (MQ=255)
cGTCTCTTTATAACGGCGCTCCATATTGTGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTATc > 1:1680359/1‑69 (MQ=255)
cGTCTCTTTATAACGGCGCTCCATATTGTGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTATc > 1:2913689/1‑69 (MQ=255)
cGTCTCTTTATAACGGCGCTCCATATTGTGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTATc > 1:734767/1‑69 (MQ=255)
cGTCTCTTTATAACGGCGCTCCATATTGTGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTATc > 1:2788922/1‑69 (MQ=255)
cGTCTCTTTATAACGGCGCTCCATATTGTGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTATc > 1:842424/1‑69 (MQ=255)
cGTCTCTTTATAACGGCGCTCCATATTGTGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTATc > 1:2460450/1‑69 (MQ=255)
cGTCTCTTTATAACGGCGCTCCATATTGTGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTATc > 1:1914988/1‑69 (MQ=255)
cGTCTCTTTATAACGGCGCTCCATATTGTGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTATc > 1:210686/1‑69 (MQ=255)
gTCTCTTTATAGCGGCGCTCCATATTATGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTATc > 1:615135/1‑68 (MQ=255)
gTCTCTTTATAGCGGCGCTCCATATTATGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTATc > 1:1454459/1‑68 (MQ=255)
gTCTCTTTATAGCGGCGCTCCATATTATGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTATc > 1:1316166/1‑68 (MQ=255)
gTCTCTTTATAGCGGCGCTCCATATTATGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTATc > 1:836754/1‑68 (MQ=255)
gTCTCTTTATAGCGGCGCTCCATATTATGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTATc > 1:3341511/1‑68 (MQ=255)
gTCTCTTTATAGCGGCGCTCCATATTATGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTATc > 1:3046514/1‑68 (MQ=255)
gTCTCTTTATAGCGGCGCTCCATATTATGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTATc > 1:2519227/1‑68 (MQ=255)
gTCTCTTTATAGCGGCGCTCCATATTATGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTATc > 1:2462184/1‑68 (MQ=255)
gcggcgCTCCATATTATGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTATCGCCACGATCGtt < 1:3094997/69‑1 (MQ=255)
gcggcgCTCCATATTATGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTATCGCCACGATCGtt < 1:1619544/69‑1 (MQ=255)
gcggcgCTCCATATTATGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTATCGCCACGATCGtt > 1:2930813/1‑69 (MQ=255)
gcggcgCTCCATATTATGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTATCGCCACGATCGtt > 1:2862130/1‑69 (MQ=255)
gcggcgCTCCATATTATGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTATCGCCACGATCGtt > 1:1712104/1‑69 (MQ=255)
gcggcgCTCCATATTATGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTATCGCCACGATCGtt > 1:799291/1‑69 (MQ=255)
gcggcgCTCCATATTATGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTATCGCCACGATCGtt < 1:1784853/69‑1 (MQ=255)
gcggcgCTCCATATTATGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTATCGCCACGATCGtt > 1:2280773/1‑69 (MQ=255)
gcggcgCTCCATATTATGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTATCGCCACGATCGtt > 1:2036912/1‑69 (MQ=255)
|
GATTACTGATAAACTTGGCTAATTCTTCGCGTACCGCGCTGGATTCCGTCTCTTTATAGCGGCGCTCCATATTATGCAGCACGCCTTCGAACGGATGACGACGAATGGAGGTATCGCCACGATCGTT > minE/2811536‑2811662
|
| 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
