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 |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
832,313 |
G→A |
37.2% |
V257V (GTG→GTA) |
narG → |
nitrate reductase 1, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 832,313 | 0 | G | A | 37.2%
| 76.8
/ 84.2
| 86 | V257V (GTG→GTA) | narG | nitrate reductase 1, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base G (20/34); new base A (20/12); total (40/46) |
| Fisher's exact test for biased strand distribution p-value = 2.68e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.21e-01 |
GCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAGGGACCAAAACTGTTGCC > minE/832244‑832382
|
gctaaCTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTGGGGGTCAAACGTGc < 1:1355083/68‑1 (MQ=255)
gCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTGGGGGTCAAACGTGc < 1:2662689/71‑1 (MQ=255)
cAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTGGGGGTCAAACGTGcc < 1:618696/71‑1 (MQ=255)
cAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTGGGGGTCAAACGTGcc < 1:1191578/71‑1 (MQ=255)
cAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTGGGGGTCAAACGTGcc > 1:1545580/1‑71 (MQ=255)
cAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTGGGGGTCAAACGTGc > 1:1217330/1‑70 (MQ=255)
aaCTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTGGGGGTCAAACGTGCCGc < 1:3461661/71‑1 (MQ=255)
accgACGTACCGGAATCTGCCGACTGGTATAACTCCAGCTACATCATCGCCTGGGGGTCTAACGTACCg > 1:2536065/4‑69 (MQ=255)
aCTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTGGGGGTCAAACGTGCCg > 1:2502871/1‑69 (MQ=255)
aCGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTGGGGGTCAAACGTGCCGCAGa < 1:3652509/69‑1 (MQ=255)
aCGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTGGGGGTCAAACGTGCCGCAGAc < 1:3415441/70‑1 (MQ=255)
gTACCGGAATCTGCCGACTGGTATAACTCCAGCTACATCATCGCCTGGGGGTCTAACGTACCGCAGAcacg < 1:2666827/71‑1 (MQ=255)
tACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTGGGGGTCAAACGTGCCGCAGACGCGt < 1:225416/71‑1 (MQ=255)
tACCGGAATCTGCCGACTGGTATAACTCCAGCTACTTCATCGCCTGGGGGTCTAACGTACCGCAGAcac < 1:228291/69‑3 (MQ=255)
tACCGGAATCTGCCGACTGGTATAACTCCAGCTACATCATCGCCTGGGGGTCTAACGTACCGCAGAcacg < 1:1049604/70‑1 (MQ=255)
aCCGGAATCTGCCGACTGGTATAACTCCAGCTAGATCATCGCCTGGGGGTCTAACGTACCGCAGACACGt < 1:1323966/70‑1 (MQ=255)
aCCGGAATCTGCCGACTGGTATAACTCCAGCTACATCATCGCCTGGGGGTCTAACGTACCGCAGACACGTa > 1:2342308/1‑71 (MQ=255)
aCCGGAATCTGCCGACTGGTATAACTCCAGCTACATCATCGCCTGGGGGTCTAACGTACCGCAGACACGTa > 1:2193418/1‑71 (MQ=255)
ccGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTGGGGGTCAAACGTGCCGCAGa < 1:3919279/64‑1 (MQ=255)
ccGGAATCTGCCGACTGGTATAACTCCAGCTACATCATCGCCTGGGGGTCTAACGTACCGCAGAcacgaa > 1:1522485/1‑68 (MQ=255)
cGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTGGGGGTCAAACGTGCCGCAGACGCGTAcc < 1:2679312/71‑1 (MQ=255)
cGGAATCTGCCGACTGGTATAACTCCAGCTACATCATCGCCTGGGGGTCTAACGTACCGCAGAca > 1:1701875/1‑64 (MQ=255)
ggAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTGGGGGTCAAACGTGCCGCAGACGCGTAccc > 1:3743391/1‑71 (MQ=255)
gAATCTGCCGACTGGTATAACTCCAGCTACATCATCGCCTGGGGGTCTAACGTACCGCAGACACGTAcgcc < 1:390411/71‑1 (MQ=255)
aaTCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTGGGGTTCAAACGTGCCGCAGACGCGTACCCCg < 1:485721/71‑1 (MQ=255)
aaTCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTGGGGGTCAAACGTGCCGCAGACGCGTACCCCg < 1:3692813/71‑1 (MQ=255)
aaTCTGCCGACTGGTATAACTCCAGCTACATCATCGCCTGGGGGTCTAACGTACCGCAGa > 1:2412859/1‑60 (MQ=255)
aactgctgACTGGTACAACTCCAGCTACATCATCGCCTGGGGGTCAAACGTGCCGCa < 1:211184/55‑1 (MQ=255)
tgccgACTGGTATAACTCCAGCTACATCATCGCCTGGGGGTCTAACGTACCGCAGACACGTACGCCGGacg > 1:170482/1‑69 (MQ=255)
gccgACTGGTATAACTCCAGCTACATCATCGCCTGGGGGTCTAACGTACCGCAGACACGTACGCCGGACGc > 1:1510936/4‑71 (MQ=255)
tgACTGGTACAACTCCAGCTACATCATCGCCTGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATg < 1:887414/68‑1 (MQ=255)
cTGGTACAACTCCAGCTACATCATCGCCTGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCAc < 1:971018/70‑1 (MQ=255)
tGGTACAACTCCAGCTACATCATCGCCTGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCActt > 1:2942217/1‑71 (MQ=255)
gTATAACTCCAGCTACATCATCGCCTGGGGGTCTAACGTACCGCAGCCACGTACGCCGGACGCCCActtct > 1:2614210/1‑71 (MQ=255)
gTACAACTCCAGCTACATCATCGCCTGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCActtct > 1:2291785/1‑71 (MQ=255)
gTACAACTCCAGCTACATCATCGCCTGGGGGTCAAACGTGCCGCAGACACGTACCCCGGATGCTCActtct < 1:1890624/71‑1 (MQ=255)
gTACAACTCCAGCTAAATCATCGCCTGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCActtc < 1:3567884/70‑1 (MQ=255)
tACAACTCCAGCTACATCATCGCCTGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCActtctt < 1:1598700/71‑1 (MQ=255)
aCAACTCCAGCTACATCATCGCCTGGGGGTCAAACGTGCCGCAGACGCGTACCCAGGATGATCActtctt > 1:3898303/1‑70 (MQ=255)
taaCTCCAGCTACATCATCGCCTGGGGGTCTAACGTACCGCAg < 1:1068020/42‑1 (MQ=255)
taaCTCCAGCTACATCATCGCCTGGGGGTCTAACGTACCGCAGACACGTACGCCGGACGCCCACTTCttt < 1:2280594/69‑1 (MQ=255)
cAACTCCAGCTACATCATCGCCTGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCttt < 1:599472/70‑1 (MQ=255)
aaCTCCAGCTACATCATCGCCTGGGGGTCAAACGTGCCGCAGACGCGTAc > 1:1188893/1‑50 (MQ=255)
aCTCCAGCTACATCATCGCCTGGGGGTCTAACGTACCGCAGAca > 1:2186408/1‑43 (MQ=255)
aCTCCAGCTACATCATCGCCTGGGGGTCTAACGTACCGCAGAca > 1:1200998/1‑43 (MQ=255)
aCTCCAGCTACATCATCGCCTGGGGGTCTAACGTACCGCAGAc > 1:637283/1‑43 (MQ=255)
aCTCCAGCTACATCATCGCCTGGGGGTCTAACGTACCGCAGAc > 1:641960/1‑43 (MQ=255)
aCTCCAGCTACATCATCGCCTGGGGGTCTAACGTACCGCAGAc > 1:3615971/1‑43 (MQ=255)
aCTCCAGCTACATCATCGCCTGGGGGTCTAACGTACCGCAGACACGTACGCCGGACGCCCACTTCTTTAcc > 1:2859635/1‑70 (MQ=255)
aCTCCAGCTACATAATCGCCTGGGGGTCTAACGTACCGCAGACACGTACGCCGGACGCCCACTTCTTTAc > 1:1291364/1‑70 (MQ=255)
gtCCAGCTACATCATCGCCTGGGGGTCTAACGTACCGCAGACACGTACGCCGGACGCCCActtc < 1:1262830/63‑1 (MQ=255)
tCCAGCTACATCATCGCCTGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTg > 1:900394/1‑70 (MQ=255)
ccAGCTACATCATCGCCTGGGGGTCTAACGTACCg > 1:1608210/1‑35 (MQ=38)
ccAGCTACATCATCGCCTGGGGGTCAAACGTGCCGc > 1:1116364/1‑36 (MQ=255)
aGCTACATCATCGCCTGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGt > 1:459677/1‑71 (MQ=255)
cTACATCATCGCCTGGGGGTCTAACGTACCGCAGACACGTACGCCGGACGCCCAct < 1:463447/56‑1 (MQ=255)
cTACATCATCGCCTGGGGGTAAAACGTGCCGCAGACGCGTACCCCGGa > 1:3713743/1‑48 (MQ=255)
aCATCATCGCCTGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCActtctt < 1:2290592/58‑1 (MQ=255)
catcatCGCCTGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGt < 1:866089/70‑1 (MQ=255)
atcatcGCCTGGGGGTCTAACGTACCGCAGACACGTACGCCGGACGCCCAc > 1:954430/1‑51 (MQ=255)
atcatcGCCTGGGGGTCTAACGTACCGCAGACACGTACGCCGGACGCCCACTTCTTTACCGAAGTACGCTa < 1:1878824/71‑1 (MQ=255)
atcatcGCCTGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCActtctt < 1:714420/56‑1 (MQ=255)
atcatcGCCTGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTa < 1:3473666/71‑1 (MQ=255)
atcatcGCCTGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTa < 1:2476045/71‑1 (MQ=255)
catcGCCTGGGGGTCTAACGTACCGCAGACACGTACGCCGGACGCCCActt < 1:277374/51‑1 (MQ=255)
atcGCCTGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACa < 1:3042733/70‑1 (MQ=255)
cGCCTGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAg > 1:1611567/1‑71 (MQ=255)
gCCTGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAgg < 1:84732/71‑1 (MQ=255)
gCCTGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAgg < 1:531809/71‑1 (MQ=255)
gCCTGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAgg < 1:3844702/71‑1 (MQ=255)
gCCTGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAgg > 1:2569466/1‑71 (MQ=255)
ccTGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAggg < 1:2463365/71‑1 (MQ=255)
tGGGGGTCTAACGTACCGCAGACACGTACGCCGGACGCCCACTTCTTTACCGAAGTACGCTACAAAGGCAc > 1:3366837/1‑71 (MQ=255)
tGGGGGTCTAACGTACCGCAGACACGTACGCCGGACGCCCACTTCTTTACCGAAGTACGCTACAAAGGCAc > 1:3325524/1‑71 (MQ=255)
tGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAGGGAc > 1:467969/1‑71 (MQ=255)
gggggTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTA‑AAAGGGAcc > 1:3904245/1‑70 (MQ=255)
ggggTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAGGGACCa < 1:134540/71‑1 (MQ=255)
gggTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAGGGACCaa < 1:353513/71‑1 (MQ=255)
gggTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAGGGACCa > 1:317598/1‑70 (MQ=255)
gTCTAACGTACCGCAGACACGTACGCCGGACGCCCACTTCTTTACCGAAGTACGCTACAAAgg < 1:3732973/63‑1 (MQ=255)
gTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAGGGACCaaaa < 1:759853/71‑1 (MQ=255)
aaaCGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGa < 1:1595823/45‑1 (MQ=255)
aaaCGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAGGGACCAAAACTg > 1:838937/1‑71 (MQ=255)
aaaCGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAGGGACCAAAACTg > 1:3450809/1‑71 (MQ=255)
gTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTa > 1:2319136/1‑37 (MQ=255)
tGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAGGCACCAAAACTGTTGcc < 1:1592419/71‑1 (MQ=255)
|
GCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTGGGGGTCAAACGTGCCGCAGACGCGTACCCCGGATGCTCACTTCTTTACTGAAGTGCGTTACAAAGGGACCAAAACTGTTGCC > minE/832244‑832382
|
| 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
