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 F1 I0 R2
|
251 |
90.0 |
5200563 |
86.9% |
4519289 |
59.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,614,452 |
C→T |
7.2% |
intergenic (‑77/+140) |
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 | 1,614,452 | 0 | C | T | 7.2%
| 217.5
/ 5.1
| 69 | intergenic (‑77/+140) | eutH/eutG | predicted inner membrane protein/predicted alcohol dehydrogenase in ethanolamine utilization |
| Reads supporting (aligned to +/- strand): ref base C (28/36); new base T (3/2); total (31/38) |
| Fisher's exact test for biased strand distribution p-value = 6.51e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.45e-01 |
CTCCCTGTTAGTTGTTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCACCGCGCCACTGGCG > minE/1614384‑1614510
|
cTCCCTGTTAGTTGTTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGt < 1:3836804/71‑1 (MQ=255)
ccTGTTAGTTGTTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAgg > 1:1153290/1‑71 (MQ=255)
ccTGTTAGTTGTTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAgg < 1:4642306/71‑1 (MQ=255)
ccTGTTAGTTGTTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAgg < 1:1750684/71‑1 (MQ=255)
ccTGTTAGTTGTTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAgg < 1:1656801/71‑1 (MQ=255)
cTGTTAGTTGTTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAgg < 1:1519650/70‑1 (MQ=255)
cTGTTAGTTGTTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGc > 1:3382255/1‑71 (MQ=255)
gTTAGTTGTTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTg > 1:188669/1‑71 (MQ=255)
gttgttATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGAt < 1:2099286/70‑1 (MQ=255)
ttatttatTGGCGGATGCGTCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGAc < 1:3870269/71‑1 (MQ=255)
tatttattGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGAc < 1:4947492/70‑1 (MQ=255)
acttattGCCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAgg > 1:1281807/3‑58 (MQ=255)
tattGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTa > 1:4052150/1‑53 (MQ=255)
tattGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTa > 1:1965081/1‑53 (MQ=255)
tattGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTa > 1:689407/1‑53 (MQ=255)
aTGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTa < 1:196303/44‑1 (MQ=38)
aTGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTa < 1:4181370/44‑1 (MQ=38)
aTGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTa < 1:5195902/44‑1 (MQ=38)
aTGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTa < 1:1438570/44‑1 (MQ=38)
aTGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTa < 1:2418364/44‑1 (MQ=38)
aTGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTa < 1:3338214/44‑1 (MQ=38)
aTGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTa < 1:262155/44‑1 (MQ=38)
tGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTa < 1:3860505/43‑1 (MQ=38)
gcggcgTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAgg > 1:84550/1‑44 (MQ=38)
gcggcgTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAgg > 1:696325/1‑44 (MQ=38)
gcggcgTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAgg > 1:2599301/1‑44 (MQ=38)
gcggcgTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAgg > 1:2478169/1‑44 (MQ=38)
gcggcgTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCAt > 1:413232/1‑71 (MQ=39)
cggcgTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATc > 1:4821866/1‑71 (MQ=39)
cggcgTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATc > 1:5023755/1‑71 (MQ=39)
cggcgTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATc > 1:1548697/1‑71 (MQ=39)
cggcgTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATc > 1:503915/1‑71 (MQ=39)
gTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGc < 1:1030584/71‑1 (MQ=39)
gTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGc < 1:495362/71‑1 (MQ=39)
aaCGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAAt > 1:270339/1‑71 (MQ=38)
aaCGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAAt > 1:3753546/1‑71 (MQ=38)
gCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGc < 1:4344863/71‑1 (MQ=255)
gCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGc < 1:400448/71‑1 (MQ=255)
gCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGc < 1:3494483/71‑1 (MQ=255)
gCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGc < 1:638910/71‑1 (MQ=255)
cTTATCCGCCCTACATGTGCAATCCTCCTGGCCGGATAAAACGCGGCAAGCGTTGCATCCGGCAACTGc < 1:645112/69‑1 (MQ=11)
cTTATCCGCCCTACATGTGCAATCCTCCTGGCCGGATAAAACGCGGCAAGCGTTGCATCCGGCAACTGc < 1:284218/69‑1 (MQ=11)
cTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCAc < 1:3337926/71‑1 (MQ=255)
cTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCAc < 1:3801480/71‑1 (MQ=255)
cTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCAc > 1:677866/1‑71 (MQ=255)
cTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCAc < 1:1768806/71‑1 (MQ=255)
tATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCa < 1:1698984/46‑1 (MQ=38)
tATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCa < 1:4874531/46‑1 (MQ=38)
tATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCa < 1:4770734/46‑1 (MQ=38)
tATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCa < 1:1305743/46‑1 (MQ=38)
tATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCa < 1:2228795/46‑1 (MQ=38)
tATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCa < 1:2256118/46‑1 (MQ=38)
tATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCa < 1:3583129/46‑1 (MQ=38)
tATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCa < 1:2677118/46‑1 (MQ=38)
tATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCa < 1:24955/46‑1 (MQ=38)
aTCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCACcgc > 1:1454422/1‑71 (MQ=255)
aTCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCACcg > 1:4521302/1‑70 (MQ=255)
tCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAg > 1:2626482/1‑46 (MQ=38)
tCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAg > 1:2332232/1‑46 (MQ=38)
tCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAg > 1:2363660/1‑46 (MQ=38)
tCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAg > 1:3216677/1‑46 (MQ=38)
tCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAg > 1:2876117/1‑46 (MQ=38)
accGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCaa > 1:5169620/2‑45 (MQ=38)
cGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCACCgcgc < 1:1875160/70‑1 (MQ=255)
aCATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCACCGCGCCACTGGc > 1:3971104/1‑71 (MQ=255)
cATGTGCAATCCTCCTGGCCGGATAAAACGCGGCAAGCGTTGCATCCGGCAACTGCACCGCGCCACTGGCg > 1:3481713/1‑71 (MQ=14)
cATGTGCAATCCTCCTGGCCGGATAAAACGCGGCAAGCGTTGCATCCGGCAACTGCACCGCGCCACTGGCg > 1:711761/1‑71 (MQ=14)
cATGTGCAATCCTCCTGGCCGGATAAAACGCGGCAAGCGTTGCATCCGGCAACTGCACCGCGCCACTGGCg > 1:2517284/1‑71 (MQ=14)
cATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCACCGCGCCACTGGc < 1:2539557/70‑1 (MQ=255)
|
CTCCCTGTTAGTTGTTATTTATTGGCGGATGCGGCGTAAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCACCGCGCCACTGGCG > minE/1614384‑1614510
|
| 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
