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 |
3,815,914 |
T→C |
76.7% |
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 | 76.7%
| 146.2
/ 40.2
| 73 | 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 (9/8); new base C (26/30); total (35/38) |
| Fisher's exact test for biased strand distribution p-value = 7.83e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CTGCCGCCTGGCGAGCATTTCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAATTTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGATATTCGCCAGATG > W3110S.gb/3815852‑3815980
|
cTGCCGCCTGGCGAGCATTTCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAAtctcggtttc < 1:1572512/71‑1 (MQ=255)
tGCCGCCTGGCGAGCATTTCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAAtctcggtttc < 1:1734950/70‑1 (MQ=255)
ccgccTGGCGAGCATTTCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAAtctcggtttcgg > 1:2767988/1‑70 (MQ=255)
ccgccTGGCGAGCATTTCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAAtctcggtttcgg > 1:2884700/1‑70 (MQ=255)
ccgccTGGCGAGCATTTCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCggg > 1:458459/1‑71 (MQ=255)
gccTGGCGAGCATTTCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTg < 1:2574415/71‑1 (MQ=255)
gccTGGCGAGCATTTCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTg < 1:1370031/71‑1 (MQ=255)
tGGCGAGCATTTCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACt > 1:3317009/1‑71 (MQ=255)
gCGAGCATTTCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACt < 1:2663889/69‑1 (MQ=255)
gCGAGCATTTCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACt < 1:889340/69‑1 (MQ=255)
gCGAGCATTTCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACt < 1:3306332/69‑1 (MQ=255)
cGAGCATTTCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTa < 1:1779859/71‑1 (MQ=255)
cGAGCATTTCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTa < 1:2272581/71‑1 (MQ=255)
cGAGCATTTCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTa < 1:3629738/71‑1 (MQ=255)
aTTTCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAAtctcggttt > 1:2089225/1‑54 (MQ=255)
cGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCt > 1:3616709/1‑71 (MQ=255)
cGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCt > 1:3544331/1‑71 (MQ=255)
cGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCt > 1:3548431/1‑71 (MQ=255)
cAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTgg < 1:1284014/71‑1 (MQ=255)
aTGCGTGCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCAt < 1:3350680/71‑1 (MQ=255)
aTGCGTGCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCAt < 1:37185/71‑1 (MQ=255)
tGCGTGCATAACGTGTTGGGTTCATAAAACATTAATTTCGGTTTCGGGTGACTTTAATCACGTCTGGCAt > 1:303687/1‑70 (MQ=255)
tGCGTGCATAACGTGTTGGGTTCATAAAACATTAATTTCGGTTTCGGGTGACTTTAATCACGTCTGGCAt > 1:2724300/1‑70 (MQ=255)
tGCGTGCATAACGTGTTGGGTTCATAAAACATTAATTTCGGTTTCGGGTGACTTTAATCACGTCTGGCAt > 1:220910/1‑70 (MQ=255)
tGCGTGCATAACGTGTTGGGTTCATAAAACATTAATTTCGGTTTCGGGTGACTTTAATCACGTCTGGCAt > 1:3460702/1‑70 (MQ=255)
tGCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCTGGTGACTTTa < 1:1181870/52‑1 (MQ=255)
tGCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTa < 1:1363704/52‑1 (MQ=255)
tGCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTa < 1:567273/52‑1 (MQ=255)
gCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTc > 1:3045131/1‑59 (MQ=255)
gCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTc > 1:989367/1‑59 (MQ=255)
gCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTc > 1:915509/1‑59 (MQ=255)
gCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTc > 1:142330/1‑59 (MQ=255)
gCATAACGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTc > 1:2205368/1‑59 (MQ=255)
aCGTGTTGGGTTCATAAAACATTAATTTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGAttt > 1:2921837/1‑71 (MQ=255)
cGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGAtttt > 1:2360850/1‑71 (MQ=255)
cGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGAtttt > 1:2762620/1‑71 (MQ=255)
cGTGTTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGAtttt > 1:2954821/1‑71 (MQ=255)
gtgtTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTg > 1:2916855/1‑71 (MQ=255)
gtgtTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTg > 1:2010084/1‑71 (MQ=255)
gtgtTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTg > 1:3172576/1‑71 (MQ=255)
gtgtTGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTg > 1:204509/1‑71 (MQ=255)
ttGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTgcg > 1:669584/1‑70 (MQ=255)
ttGGGTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTgcg < 1:1425887/70‑1 (MQ=255)
ggTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATg < 1:235959/71‑1 (MQ=255)
ggTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATg < 1:1021555/71‑1 (MQ=255)
ggTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATg < 1:3306625/71‑1 (MQ=255)
ggTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATg < 1:2324595/71‑1 (MQ=255)
gTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATg < 1:2039690/70‑1 (MQ=255)
gTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATg < 1:2989605/70‑1 (MQ=255)
gTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGa < 1:1642073/71‑1 (MQ=255)
gTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGa < 1:565790/71‑1 (MQ=255)
gTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGa < 1:2956671/71‑1 (MQ=255)
gTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGa < 1:3227332/71‑1 (MQ=255)
gTTCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGa < 1:3042441/71‑1 (MQ=255)
ttCATAAAACATTAATTTCGGTTTCGGGTGACttt < 1:3098254/35‑1 (MQ=255)
ttCATAAAACATTAATTTCGGTTTCGGGTGACttt < 1:1883635/35‑1 (MQ=255)
tCATAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGata > 1:1879884/1‑71 (MQ=255)
cATAAAACATTAATTTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGata < 1:1789641/70‑1 (MQ=255)
aTAAAACATTAATTTCGGTTTCGGGTGACTTTAATCACGGCTGGCATCACGCGGATTTTGCGCATGata < 1:3076742/69‑1 (MQ=255)
aTAAAACATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGata < 1:820132/69‑1 (MQ=255)
tAAAACATTAATTTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGata < 1:3006503/68‑1 (MQ=255)
tAAAACATTAATTTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGata < 1:1455925/68‑1 (MQ=255)
tAAAACATTAATCTCGGTTTCGGGTGACTTTAATc < 1:3018853/35‑1 (MQ=255)
tAAAACATTAATCTCGGTTTCGGGTGACTTTAATc < 1:3689060/35‑1 (MQ=255)
tAAAACATTAATCTCGGTTTCGGGTGACTTTAATc < 1:2118174/35‑1 (MQ=255)
aaaaCATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGATATTCg > 1:2237456/1‑71 (MQ=255)
aaaCATTAATTTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGATATTCGc > 1:314901/1‑71 (MQ=255)
aaaCATTAATCTCGGTTTCGGGTGACTTTAATCAc > 1:3352393/1‑35 (MQ=255)
aaaCATTAATCTCGGTTTCGGGTGACTTTAATCAc > 1:1309708/1‑35 (MQ=255)
aaaCATTAATCTCGGTTTCGGGTGACTTTAATCAc > 1:2307731/1‑35 (MQ=255)
aaaCATTAATCTCGGTTTCGGGTGACTTTAATCAc > 1:910156/1‑35 (MQ=255)
aaaCATTAATCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGATGTTCGc > 1:1303563/1‑71 (MQ=255)
aCATTAATTTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGATATTCGCCa < 1:1797279/71‑1 (MQ=255)
aCATTAATTTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGATATTCGCCa < 1:2275700/71‑1 (MQ=255)
ttAATTTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGATATTCGCCAGAt > 1:3607133/1‑71 (MQ=255)
ttAATTTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGATATTCGCCAGAt > 1:1433647/1‑71 (MQ=255)
ttAATTTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGATATTCGCCAGAt > 1:60260/1‑71 (MQ=255)
aaTCTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGATATTCGCCAGATg > 1:1061853/1‑70 (MQ=255)
|
CTGCCGCCTGGCGAGCATTTCGCAGATGCGTGCATAACGTGTTGGGTTCATAAAACATTAATTTCGGTTTCGGGTGACTTTAATCACGTCTGGCATCACGCGGATTTTGCGCATGATATTCGCCAGATG > W3110S.gb/3815852‑3815980
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
