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 |
1,614,455 |
A→T |
18.2% |
intergenic (‑80/+137) |
eutH ← / ← eutG |
predicted inner membrane protein/predicted alcohol dehydrogenase in ethanolamine utilization |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,614,455 | 0 | A | T | 18.2%
| 123.4
/ 22.4
| 55 | intergenic (‑80/+137) | eutH/eutG | predicted inner membrane protein/predicted alcohol dehydrogenase in ethanolamine utilization |
| Reads supporting (aligned to +/- strand): ref base A (19/26); new base T (7/3); total (26/29) |
| Fisher's exact test for biased strand distribution p-value = 1.64e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.92e-01 |
CCTGTTAGTTGTTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCACCGCGCCACTGGCGGATGCGGCGTGAAC > minE/1614387‑1614524
|
ccTGTTAGTTGTTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAgg < 1:2418148/71‑1 (MQ=255)
ccTGTTAGTTGTTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAgg < 1:1286241/71‑1 (MQ=255)
ccTGTTAGTTGTTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAgg < 1:3537392/71‑1 (MQ=255)
ttAGTTGTTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTgg < 1:2373627/71‑1 (MQ=255)
tAGTTGTTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGa > 1:1885955/1‑71 (MQ=255)
gttgttATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATa < 1:3582369/71‑1 (MQ=255)
ttgttATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGAt > 1:2110406/1‑69 (MQ=255)
ttgttATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATaa < 1:3809581/71‑1 (MQ=255)
ttgttATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATaa < 1:2063967/71‑1 (MQ=255)
atttattGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGAcgc > 1:1700644/1‑71 (MQ=255)
ctGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCTCCTGTCCGGATAAAACGCGGCaa < 1:3373962/70‑1 (MQ=11)
gCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCg < 1:489257/71‑1 (MQ=39)
gCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCg < 1:3663009/71‑1 (MQ=39)
cGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGt < 1:2718424/71‑1 (MQ=39)
aTGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCTCCTGGCCGGATAAAACGCGGCAAGCGttg > 1:3091395/1‑68 (MQ=14)
tGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCTCCTGGCCGGATAAAACGCGGCAAGCGTTGCa > 1:737851/1‑71 (MQ=14)
tcggcgTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCa < 1:1101341/69‑1 (MQ=255)
gcggcgTAAACGCCTTATCCGCCCTACATGTGCAATCCTCCTGGCCGGATAAAACGCGGCAAGCGTTGCAt > 1:3368692/1‑71 (MQ=14)
aaggcgTTCACGCCGCATCCGCCCTACATGTGTGTTCCCGTAGGTCGGATAAGACGCGACAAGCGTCGCAt > 1:1572756/3‑71 (MQ=2)
cgTAAACGCCTTATCCGCCCTACATGTGCAATCCTCCTGGCCGGATAAAACGCGGCAAGCGTTGCATCCgg > 1:2173851/1‑71 (MQ=14)
gTAAACGCCTTATCCGCCCTACATGTGCAATCCTCCTGGCCGGATAAAACGCGGCAAGCGTTGCATCCgg > 1:2058987/1‑70 (MQ=14)
gTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAgg > 1:2210462/1‑39 (MQ=40)
gTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAgg > 1:2925568/1‑39 (MQ=40)
gTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGc < 1:1384635/71‑1 (MQ=39)
gTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTCGATAAGACGCGGCAAGCGTCGCATCCGGc < 1:3520332/71‑1 (MQ=255)
tAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCa < 1:807156/71‑1 (MQ=38)
aaCGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCaa < 1:2802027/70‑1 (MQ=37)
aaCGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAAt < 1:3107984/71‑1 (MQ=38)
aCGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAAtt > 1:2060079/1‑71 (MQ=39)
cTTATCCGCCCTACATGTGCAATCCTCCTGGCCGGATAAAACGCGGCAAGCGTTGCATCCGGCAACTGCAc > 1:2111889/1‑71 (MQ=14)
cTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCAc > 1:3467131/1‑71 (MQ=255)
ttATCCGCCCTACATGTGCAATTCCGTAACCTGGATAAAACGCGACAAGCGTCGc > 1:3689995/1‑55 (MQ=11)
aTCCGCCCTACATGTGTGTTCCCGTAGGTCGGATAAGACGCGACAAGCGTCGCATCCGGCATCTGCAc > 1:3483256/1‑68 (MQ=11)
tCCGCCCTACATGTGCAATCCTCCTGGCCGGATAAAACGCGGCAAGCGTTGCa > 1:2040593/1‑53 (MQ=2)
cGCCCTACATGTGCAATTCCGTAACCTGGATAAAACGCGACAAGCg < 1:2638082/46‑1 (MQ=11)
cGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGTCAAGCGTCGc > 1:3795167/1‑50 (MQ=255)
cccTACATGTGTGTTCCCGTAGGTCGGATAAGACGCGACAAGCGTCGCATCCGGCATCTGCACCGCGCCa < 1:2301621/70‑1 (MQ=14)
cccTACATGTGTGTTCCCGTAGGTCGGATAAGACGCGACAAGCGTCGCATCCGGCATCTGCACCGCGCCAc > 1:1945120/1‑71 (MQ=14)
cccTACATGTGCAATTCCGTAACCTGGATAAAACGCGACAAGCGTCGCATCCGGc < 1:2341939/55‑1 (MQ=11)
cccTACATGTGCAATCCTCCTGGCCGGATAAAACGCGGCAAGc < 1:3373022/43‑1 (MQ=9)
cTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCACCGCGCCACTg > 1:2991800/1‑71 (MQ=255)
cTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGAAAGCGTCGCATCCGGCAATTGCACCGCGCCACTg < 1:1665207/71‑1 (MQ=255)
tACATGTGCAATTCCGTAACCTGGATAAAACGCGACa < 1:600062/37‑1 (MQ=9)
aCATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCACCGCGCCACTGGc > 1:222925/1‑71 (MQ=255)
cATGTGCAATCCTCCTGGCCGGATAAAACGCGGCAAGCGTTGCATCCGGCAACTGCACCGCGCCACTgg < 1:3574051/69‑1 (MQ=14)
cAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCACCGCGCCACTGGCGGATgcg < 1:3180184/71‑1 (MQ=255)
aTCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCACCGCGCCACTg < 1:2503289/60‑1 (MQ=255)
tCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCa > 1:249682/1‑48 (MQ=255)
tCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCa > 1:1231018/1‑48 (MQ=255)
tCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCACCGCGCCACTGGCGGATgcggcg > 1:3905088/1‑71 (MQ=255)
ccGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCACCGCGCCACTGGCGGATGCGGCGTg < 1:3388477/71‑1 (MQ=255)
cGTAGGGTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCACCGCGCCACTGGCGGATGCGGCGTGa < 1:2687519/71‑1 (MQ=255)
gTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCACCGCGCCAc > 1:2109157/1‑53 (MQ=255)
gTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCACCGCGCCACTGGCGGATGCGGCGTGaa < 1:2877095/71‑1 (MQ=255)
gTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGG‑AATTGCACCGCGCCACTGGCGGATGCGGCGTGAAc > 1:3734222/1‑71 (MQ=255)
|
CCTGTTAGTTGTTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCACCGCGCCACTGGCGGATGCGGCGTGAAC > minE/1614387‑1614524
|
| 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
