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 F28 I2 R2
|
356 |
55.1 |
4139924 |
95.4% |
3949487 |
63.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,815,914 |
T→C |
N702D (AAT→GAT) |
spoT ← |
bifunctional (p)ppGpp synthetase II and guanosine‑3',5'‑bis pyrophosphate 3'‑pyrophosphohydrolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,815,914 | 0 | T | C | 91.8%
| 193.2
/ 6.0
| 61 | N702D (AAT→GAT) | spoT | bifunctional (p)ppGpp synthetase II and guanosine‑3',5'‑bis pyrophosphate 3'‑pyrophosphohydrolase |
| Reads supporting (aligned to +/- strand): ref base T (5/0); new base C (50/6); total (55/6) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.00e-01 |
CTGCCGCCTGGCGAGCATTTCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAATTTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGATATTCGCCAGATG > W3110S.gb/3815852‑3815980
|
cTGCCGCCTGTCGAGCATTTCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAAtctcggtttc < 1:4061230/71‑1 (MQ=255)
cGAGCATTTCGCAGATGCGTTCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTa < 1:3868376/71‑1 (MQ=255)
cGAGCATTTCGCAGATGCGTGCATAACTTGTTTGGTTCATAAAACATTAAtctcggtttc < 1:3820479/60‑1 (MQ=255)
gAGCATTTCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAAtctcgg > 1:372829/1‑55 (MQ=255)
gAGCATTTCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTaa > 1:3754703/1‑71 (MQ=255)
gAGCATTTCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTaa > 1:3123955/1‑71 (MQ=255)
gAGCATTTCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTaa > 1:3128660/1‑71 (MQ=255)
gAGCATTTCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTaa > 1:3003394/1‑71 (MQ=255)
gAGCATTTCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTaa > 1:3973651/1‑71 (MQ=255)
gAGCATTTCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTaa > 1:3351946/1‑71 (MQ=255)
gAGCATTTCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTaa > 1:1897866/1‑71 (MQ=255)
gAGCATTTCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTaa > 1:4124085/1‑71 (MQ=255)
gAGCATTTCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGAGACTTTaa > 1:3628491/1‑71 (MQ=255)
gAGCATTTCGCAGATGCGTGCATAACGTCTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACttt > 1:511658/1‑69 (MQ=255)
gAGCATTTCGCAGATGCCTGCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTaa > 1:2323926/1‑71 (MQ=255)
gAGCATATCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTaa > 1:532602/1‑71 (MQ=255)
tCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAATTTCGGTTTCGGGTGACTTTAAt > 1:3681182/1‑65 (MQ=255)
tCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAATTTCGGTTTCGGGTGACTTTAAt > 1:2163113/1‑65 (MQ=255)
tCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAATTTCGGTTTCGGGTGACTTTAAt > 1:2264653/1‑65 (MQ=255)
tCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAATTTCGGTTTCGGGTGACTTTAAt > 1:2443780/1‑65 (MQ=255)
tCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTc > 1:3404150/1‑71 (MQ=255)
tCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTc > 1:1106106/1‑71 (MQ=255)
tCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTc > 1:3215260/1‑71 (MQ=255)
tCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTc > 1:529011/1‑71 (MQ=255)
gCGTGCATAACGTGTTGGGTTCATAAAACATTAATTTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCa > 1:1110455/1‑71 (MQ=255)
cATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCAcgcg > 1:2575164/1‑70 (MQ=255)
cATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCAcgcg > 1:2981872/1‑70 (MQ=255)
aCGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGAttt > 1:1600211/1‑71 (MQ=255)
gggTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCAt > 1:2504341/1‑71 (MQ=255)
gggTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCAt > 1:2448585/1‑71 (MQ=255)
gggTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCAt > 1:2192926/1‑71 (MQ=255)
gggTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCAt > 1:4098697/1‑71 (MQ=255)
gggTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCAt > 1:1182438/1‑71 (MQ=255)
gggTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCAt > 1:100063/1‑71 (MQ=255)
ttCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGa > 1:3038239/1‑70 (MQ=255)
ttCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGa > 1:2525800/1‑70 (MQ=255)
cATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGatat > 1:3905850/1‑71 (MQ=255)
cATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGatat > 1:4001100/1‑71 (MQ=255)
cATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGatat > 1:966005/1‑71 (MQ=255)
cATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGatat > 1:477846/1‑71 (MQ=255)
cATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGatat > 1:3746692/1‑71 (MQ=255)
cATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGatat > 1:350449/1‑71 (MQ=255)
cATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGatat > 1:1804120/1‑71 (MQ=255)
cATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGata < 1:3013180/70‑1 (MQ=255)
aCATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGATATTCGc > 1:3733108/1‑69 (MQ=255)
aCATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGATATTCGc > 1:88317/1‑69 (MQ=255)
aCATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGATATTCGc > 1:673269/1‑69 (MQ=255)
aCATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGATATTCGc > 1:542652/1‑69 (MQ=255)
aCATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGATATTCGc > 1:1270430/1‑69 (MQ=255)
aCATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGATATTCGc > 1:1369759/1‑69 (MQ=255)
aCATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGATATTCGc > 1:497077/1‑69 (MQ=255)
aCATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGATATTCGc > 1:442843/1‑69 (MQ=255)
aCATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGATATTCGc > 1:2317355/1‑69 (MQ=255)
aCATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGATATTCGc > 1:2602562/1‑69 (MQ=255)
aCATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGATATTCGc > 1:2782988/1‑69 (MQ=255)
aCATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGAGCATGATATTCGc > 1:2070257/1‑69 (MQ=255)
ttAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGATATTCGCCAGAt > 1:426153/1‑71 (MQ=255)
ttAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGATATTCGCCAGAt > 1:645721/1‑71 (MQ=255)
ttAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGATATTCGCCAGAt > 1:1016832/1‑71 (MQ=255)
tAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGATATTCGCCAGATg > 1:1627744/1‑71 (MQ=255)
aaTCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGATATTCGCCAGATg < 1:1727826/70‑1 (MQ=255)
aaTCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGATATTCGCCAGATg < 1:510592/70‑1 (MQ=255)
aaTCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGATATTCGCCAGATg < 1:3658496/70‑1 (MQ=255)
aaTCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGATATTCGCCAGATg < 1:3789020/70‑1 (MQ=255)
|
CTGCCGCCTGGCGAGCATTTCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAATTTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGATATTCGCCAGATG > W3110S.gb/3815852‑3815980
|
| 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
