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 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,440,227 |
G→A |
23.9% |
Y25Y (TAC→TAT) |
ompC ← |
outer membrane porin protein C |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,440,227 | 0 | G | A | 23.9%
| 205.0
/ 49.5
| 96 | Y25Y (TAC→TAT) | ompC | outer membrane porin protein C |
| Reads supporting (aligned to +/- strand): ref base G (44/29); new base A (16/7); total (60/36) |
| Fisher's exact test for biased strand distribution p-value = 4.69e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
Only 100 of 108 total aligned reads displayed.
TGTTGTCAGAGAAATAGTGCAGGCCGTCTACTTTACCGTACAGATCTAATTTGTTGCCGTCTTTGTTGTAAACTTCAGCAGCGTTTGCTGCGCCTGCTACCAGCAGAGCTGGGACCAGGAGGGACAGTACTTTAACTT > minE/1440160‑1440297
|
tgttgtCAGAGAAATAGTGCAGGCCGTCTACTTTACCGTACAGATCTAATTTGTTGCCGTCTTTGTTGTa < 1:4519547/70‑1 (MQ=255)
tgttgtCAGAGAAATAGTGCAGGCCGTCTACTTTACCGTACAGATCTAATTTGTTGCCGTCTTTGTTGTa > 1:2978238/1‑70 (MQ=255)
gttgtCAGAGAAATAGTGCAGGCCGTCTACTTTACCGTACAGATCTAATTTGTTGCCGTCTTTGTTGTaa < 1:3901941/70‑1 (MQ=255)
ttatCAGAAAAATAATGCAGGCCATCAACTTTGCCATACAGATCTAATTTGTTGCCGTCTTTATTATaa > 1:4584766/4‑69 (MQ=2)
ttatCAGAAAAATAATGCAGGCCATCAACTTTGCCATACAGATCTAATTTGTTGCCGTCTTTATTATAAAc > 1:5075339/4‑71 (MQ=9)
tCAGAGAAATAGTGCAGGCCGTCTACTTTACCGTACAGATCTAATTTGTTGCCGTCTTTGTTGTAAACtt < 1:2968300/70‑1 (MQ=255)
tCAGAGAAATAGTGCAGGCCGTCTACTTTACCGTACAGATCTAATTTGTTGCCGTCTTTGTTGTAAACtt > 1:323894/1‑70 (MQ=255)
agagAAATAGTGCAGGCCGTCTACTTTACCGTACAGATCTAATTTGTTGCCGTCTTTGTTGTAAACTTcag > 1:2106970/1‑71 (MQ=255)
agagAAATAGTGCAGGCCGTCTACTTTACCGTACAGATCTAATTTGTTGCCGTCTTTGTTGTAAACTTcag > 1:4428153/1‑71 (MQ=255)
gaAATAGTGCAGGCCGTCTACTTTACCGTACAGATCTAATTTGTTGCCGTCTTTGTTGTAAACTTcagcag > 1:1661661/1‑71 (MQ=255)
aaaaTAATGCAGGCCATCAACTTTGCCATACAGATCTAATTTGTTGCCGTCTTTATTATAAACTTcggctg > 1:1430497/2‑69 (MQ=9)
aaaTAGTGCAGGCCGTCTACTTTACCGTACAGATCTAATTTGTTGCCGTCTTTGTTGTAAACTTc > 1:3737092/1‑65 (MQ=255)
aGTGCAGGCCGTCTACTTTTCCGTACAGATCTAATTTGTTGCCGTCTTTGTTGTAAACTTCAGCAGCGttt > 1:1521748/1‑71 (MQ=255)
cAGGCCGTCTACTTTACCGTACAGATCTAATTTGTTGCCGTCTTTGTTGTAAACTTca < 1:4235278/58‑1 (MQ=255)
aGGCCGTCTACTTTACCGTACAGATCTAATTTGTTGCCGTCTTTGTTGTAAACTTCAGCAGCGTTtgctgc < 1:482148/71‑1 (MQ=255)
ggCCGTCTACTTTACCGTACAGATCTAATTTGTTGCCGTCTTTGTTGTAAACTTCAGCAGCGTTTGCTgcg < 1:767531/71‑1 (MQ=255)
ggCCATCAACTTTGCCATACAGATCTAATTTGTTGCCGTCTTTATTATAAACTTCGGCTGCATGtgcagca < 1:2463377/71‑2 (MQ=12)
tCTACTTTACCGTACAGATCTAATTTGTTGCCGTCTTTGTTGTAAACTTCAGCAGCGTTTGCTGCGCCTg < 1:3581500/70‑1 (MQ=255)
tACTTTTCCGTACAAATCCAGTTTATTACCATCTTTATTATAGACTTCAGCCGCATTTGCTGCGCCAGc < 1:3016962/69‑1 (MQ=2)
tACTTTACCGTACAGATCTAATTTGTTGCCGTCTTTGTTGTAAACTTc > 1:2609717/1‑48 (MQ=255)
tACTTTACCGTACAGATCTAATTTGTTGCCGTCTTTGTTGTAAACTTCAGCAGCGttt < 1:3279653/58‑1 (MQ=255)
tACTTTACCGTACAGATCTAATTTGTTGCCGTCTTTGTTGTAAACTTCAGCAGCGTTTGCTGCGCCTGCTa > 1:1528568/1‑71 (MQ=255)
aaCTTTGCCATACAGATCTAATTTGTTGCCGTCTTTATTATAAAc > 1:5362326/2‑45 (MQ=17)
aaCTTTGCCATACAGATCTAATTTGTTGCCGTCTTTATTATAAAc > 1:1861550/2‑45 (MQ=17)
aaCTTTGCCATACAGATCTAATTTGTTGCCGTCTTTATTATAAAc > 1:4446776/2‑45 (MQ=17)
aaCTTTGCCATACAGATCTAATTTGTTGCCGTCTTTATTATAAAc > 1:1064332/2‑45 (MQ=17)
aCTTTTCCGTACAAATCCAGTTTATTACCATCTTTATTATAGACTTCAGCCGCATTTGCTGCGcc > 1:165270/1‑65 (MQ=2)
aCTTTTCCGTACAAATCCAGTTTATTACCATCTTTATTATAGACTTCAGCCGCATTTGCTGCGcc > 1:1285980/1‑65 (MQ=2)
aCTTTTCCGTACAAATCCAGTTTATTACCATCTTTATTATAGACTTCAGCCGCATTTGCTGCGcc > 1:2294653/1‑65 (MQ=2)
cTTTACCGTACAGATCTAATTTGTTGCCGTCTTTGTTGTAAACTTCAGCAGCGTTTGCTGCGCCTGCTa < 1:4598928/69‑1 (MQ=255)
tttACCGTACAGATCTAATTTGTTGCCGTCTTTGTTGTAAACTTCAGCAGCGTTTGCTgcgc < 1:934179/62‑1 (MQ=255)
tttACCGTACAGATCTAATTTGTTGCCGTCTTTGTTGTAAACTTCAGCAGCGTTTGCTgcgc < 1:4836368/62‑1 (MQ=255)
tttACCGTACAGATCTAATTTGTTGCCGTCTTTGTTGTAAACTTCAGCAGCGTTTGCTGCGCCTGCTAc > 1:4481721/1‑69 (MQ=255)
tACCGTACAGATCTAATTTGTTGCCGTCTTTGTTGTAAACTTCAGCAGCGTTTGCTGCGCCTGCTACcag > 1:1937160/1‑70 (MQ=255)
tACCGTACAGATCTAATTTGTTGCCGTCTTTGTTGTAAACTTCAGCAGCGTTTGCTGCGCCTGCTACcag > 1:1621446/1‑70 (MQ=255)
tACCGTACAGATCTAATTTGTTGCCGTCTTTGTTGTAAACTTCAGCAGCGTTTGCTGCGCCTGCTACcag > 1:520484/1‑70 (MQ=255)
tACCGTACAGATCTAATTTGTTGCCGTCTTTGTTGTAAACTTCAGCAGCGTTTGCTGCGCCTGCTACcag > 1:4389517/1‑70 (MQ=255)
tACCGTACAGATCTAATTTGTTGCCGTCTTTGTTGTAAACTTCAGCAGCGTTTGCTGCGCCTGCTACcag > 1:496206/1‑70 (MQ=255)
ccatACAGATCTAATTTGTTGCCGTCTTTATTATAAACTTCGGCTGCATGTGCAGCACCTGCGGCgagcag < 1:3618084/68‑1 (MQ=255)
tACAGATCTAATTTGTTGCCGTCTTTGTTGTAAACTTcagca < 1:5490912/42‑1 (MQ=255)
tACAGATCTAATTTGTTGCCGTCTTTGTTGTAAACTTcagca < 1:1616235/42‑1 (MQ=255)
tACAGATCTAATTTGTTGCCGTCTTTGTTGTAAACTTCAGCAGCGt > 1:4747511/1‑46 (MQ=255)
tACAGATCTAATTTGTTGCCGTCTTTGTTGTAAACTTCAGCAGCGTTtgct < 1:4509361/51‑1 (MQ=255)
tACAGATCTAATTTGTT‑CCGTCTTTGTTGTAAACTTcagca < 1:4550452/41‑1 (MQ=39)
aCAGATCTAATTTGTTGCCGTCTTTGTTGTAAACTTCAGCAGCGTTTGCTGCGCCTGCTACcag > 1:2338551/1‑64 (MQ=255)
aCAGATCTAATTTGTTGCCGTCTTTATTATAAACTTCGGCTGCATGTGCAGCACCTGcggc < 1:1619161/61‑4 (MQ=255)
aCAGATCTAATTTGTTGCCGTCTTTATTATAAACTTCGGCTGCATGTGCAGCACCTGCGGCgagcag < 1:235588/67‑1 (MQ=255)
cAGATCTAATTTGTTGCCGTCTTTGTTGTAAACtt > 1:3135967/1‑35 (MQ=255)
cAGATCTAATTTGTTGCCGTCTTTGTTGTAAACtt > 1:4638165/1‑35 (MQ=255)
cAGATCTAATTTGTTGCCGTCTTTGTTGTAAACTTc > 1:4225050/1‑36 (MQ=255)
cAGATCTAATTTGTTGCCGTCTTTGTTGTAAACTTc > 1:172728/1‑36 (MQ=255)
cAGATCTAATTTGTTGCCGTCTTTGTTGTAAACTTc > 1:5527792/1‑36 (MQ=255)
cAGATCTAATTTGTTGCCGTCTTTGTTGTAAACTTCAGCAGCGTTTGCTGCGCCTGCTACCAGCAGAGCTg < 1:1884941/71‑1 (MQ=255)
aGATCTAATTTGTTGCCGTCTTTGTTGTAAACTTCAGCAGCGttt < 1:3575862/45‑1 (MQ=255)
aGATCTAATTTGTTGCCGTCTTTGTTGTAAACTTCAGCAGCGTTTGCTGCGCCTGCTACCAGCAGAGCTgg > 1:1228954/1‑71 (MQ=255)
aGATCTAATTTGTTGCCGTCTTTGTTGTAAACTTCAGCAGCGTTTGCTGCGCCTGCTACCAGCAGAGCTgg > 1:4972598/1‑71 (MQ=255)
gATCTAATTTGTTGCCGTCTTTATTATAAACTTCGGCTGCATGtgcagc < 1:5338854/49‑1 (MQ=16)
aTCTAATTTGTTGCCGTCTTTGTTGTAAACTTCAGCAGCTTTtgc > 1:4884715/1‑45 (MQ=255)
aTCTAATTTGTTGCCGTCTTTGTTGTAAACTTCAGCAGCGTTtgc > 1:1788181/1‑45 (MQ=255)
tCTAATTTGTTGCCGTCTTTGTTGTAAACTTCAGCAGCGtt > 1:4738667/1‑41 (MQ=255)
cTAATTTGTTGCCGTCTTTATTATAAACTTCGGCTGCATGTGCAGCACCTGCGGCGAgcagggcaggaat > 1:2648995/1‑67 (MQ=255)
cTAATTTGTTGCCGTCTTTATTATAAACTTCGGCTGCATGTGCAGCACCTGCGGCGAgcagggcaggaat > 1:4935129/1‑67 (MQ=255)
tAATTTGTTGCCGTCTTTGTTGTAAACTTCAGCAGCGt > 1:439235/1‑38 (MQ=255)
tAATTTGTTGCCGTCTTTGTTGTAAACTTCAGCAGCGt > 1:1495279/1‑38 (MQ=255)
tAATTTGTTGCCGTCTTTATTATAAACTTCGGCTGCATGTGCAGCACCt < 1:1763009/49‑1 (MQ=12)
aaTTTGTTGCCGTCTTTGTTGTAAACTTCAGCAGCGTTtg > 1:5116743/1‑40 (MQ=255)
aaTTTGTTGCCGTCTTTGTTGTAAACTTCAGCAGCGTTTGCTGCGCCTGCTACCAGCAGAGCTGGGACCag > 1:2153372/1‑71 (MQ=255)
aTTTGTTGCCGTCTTTGTTGTAAACTTCAGCAGCGTTTGCTGCGCCTGCTACCAGCAGAGCTGGGAc < 1:788333/67‑1 (MQ=255)
aTTTGTTGCCGTCTTTATTATAAACTTCGGCTGCATGtgcagcac > 1:1627459/1‑43 (MQ=9)
aTTTGTTGCCGTCTTTATTATAAACTTCGGCTGCATGtgcagca > 1:2573411/1‑43 (MQ=9)
tttGTTGCCGTCTTTGTTGTAAACTTCAGCAGCGTTTGCTGCGCCTGCTACCAGCAGAGCTGGGAcc < 1:5335710/67‑1 (MQ=255)
tttGTTGCCGTCTTTGTTGTAAACTTCAGCAGCGTTTGCTGCGCCTGCTACCAGCAGAGCTGGGACCagga < 1:3937048/71‑1 (MQ=255)
tttGTTGCCGTCTTTGTTGTAAACTTCAGCAGCGTTTGCTGCGCCTGCTACCAGCAGAGCTGGGACCagga < 1:204270/71‑1 (MQ=255)
tttGTTGCCGTCTTTGTTGTAAACTTCAGCAGCGTTTGCTGCGCCTGCTACCAGCAGAGCTGGGACCag > 1:2103598/1‑69 (MQ=255)
tgttgCCGTCTTTGTTGTAAACTTCAGCAGCGTTtg > 1:2438350/1‑36 (MQ=255)
tgttgCCGTCTTTGTTGTAAACTTCAGCAGCGTTTGCTGCGCCTGCTACCAGCAGAGCTGGGACCaggagg > 1:1721441/1‑71 (MQ=255)
gttgCCGTCTTTGTTGTAAACTTCAGCAGCGTTTGCTGCGCCTGCTACCAGCAGAGCTGGGACCaggagg < 1:3760441/70‑1 (MQ=255)
ccGTCTTTGTTGTAAACTTCAGCAGCGTTTGCTGCGCCTGCTACCAGCAGAGCTGGGACCAGGAGGGACAg < 1:75376/71‑1 (MQ=255)
gTCTTTGTTGTAAACTTCAGCAGCGTTTGCTGCGCCTGCTACCAGCAGAGCTGGGACCAGGAGGGACAGTa > 1:3093427/1‑71 (MQ=255)
tCTTTGTTGTAAACTTCAGCAGCGTTTGCTGCGCCTGCTACCAGCAGCGCTGGGACCAGGAGGGACAGTAc > 1:2184546/1‑71 (MQ=255)
tCTTTGTTGTAAACTTCAGCAGCGTTTGCTGCGCCTGCTACCAGCAGAGCTGGGa < 1:2971903/55‑1 (MQ=255)
tCTTTGTTGTAAACTTCAGCAGCGTTTGCTGCGCCTGCTACCAGCAGAGCTGGGAcc < 1:3814144/57‑1 (MQ=255)
cTTTGTTGTAAACTTCAGCAGCGTTTGCTGCGCCTGCTa < 1:4306071/39‑1 (MQ=255)
tttGTTGTAAACTTCAGCAGCGTTTGCTGCGCCTGCTACCAGCAGAGCTGGGACCag < 1:4770638/57‑1 (MQ=255)
tttGTTGTAAACTTCAGCAGCGTTTGCTGCGCCTGCTACCAGCAGAGCTGGGACCAGGAGGGACAGTACtt > 1:4708676/1‑71 (MQ=255)
tttGTTGTAAACTTCAGCAGCGTTTGCTGCGCCTGCTACCAGCAGAGCTGGGACCAGGAGGGACAGTACtt > 1:2461263/1‑71 (MQ=255)
tttGTTGTAAACTTCAGCAGCGTTTGCTGCGCCTGCTACCAGCAGAGCTGGGACCAGGAGGGACAGTACtt > 1:5492746/1‑71 (MQ=255)
tttGTTGTAAACTTCAGCAGCGTTTGCTGCGCCTGCTACCAGCAGAGCTGGGACCAGGAGGGACAGTACtt > 1:3535897/1‑71 (MQ=255)
tgttgtAAACTTCAGCAGCGTTTGCTGCGCCTGCTACCAGCAGATCTGGGACCAGGAGGGACAGTACttt < 1:1410667/70‑1 (MQ=255)
tgttgtAAACTTCAGCAGCGTTTGCTGCGCCTGCTACCAGCAGAGCTGGGACCAGGAGGGACAGTACttt > 1:3792894/1‑70 (MQ=255)
tgttgtAAACTTCAGCAGCGTTTGCTGCGCCTGCTACCAGCAGAGCTGGGACCAGGAGGGACAGTACttt < 1:169379/70‑1 (MQ=255)
tgttgtAAACTTCAGCAGCGTTTGCTGCGCCTGCTACCAGCAGAGCTGGGACCAGGAGGGACAGTACttt > 1:4949594/1‑70 (MQ=255)
tgttgtAAACTTCAGCAGCGTTTGCTGCGCCTGCTACCAGCAGAGCTGGGACCAGGAGGGACAGTACttt > 1:3094092/1‑70 (MQ=255)
tgttgtAAACTTCAGCAGCGTTTGCTGCGCCTGCTACCAGCAGAGCTGGGACCAGGAGGGACAGTACtt < 1:3888863/69‑1 (MQ=255)
tgtAAACTTCAGCAGCGTTTGCTGCGCCTGCTACca > 1:4931922/1‑36 (MQ=255)
tgtAAACTTCAGCAGCGTTTGCTGCGCCTGCTACca > 1:3527272/1‑36 (MQ=255)
tgtAAACTTCAGCAGCGTTTGCTGCGCCTGCTACca > 1:1156736/1‑36 (MQ=255)
gtAAACTTCAGCAGCGTTTGCTGCGCCTGCTACCAGCAGAGCTGGGACCAGGAGGGACAGTAc > 1:3194175/1‑63 (MQ=255)
gtAAACTTCAGCAGCGTTTGCTGCGCCTGCTACCAGCAGAGCTGGGACCAGGAGGGACAGTAc > 1:4123593/1‑63 (MQ=255)
gtAAACTTCAGCAGCGTTTGCTGCGCCTGCTACCAGCAGAGCTGGGACCAGGAGGGACAGTACTTTAACtt > 1:1963810/1‑71 (MQ=255)
|
TGTTGTCAGAGAAATAGTGCAGGCCGTCTACTTTACCGTACAGATCTAATTTGTTGCCGTCTTTGTTGTAAACTTCAGCAGCGTTTGCTGCGCCTGCTACCAGCAGAGCTGGGACCAGGAGGGACAGTACTTTAACTT > minE/1440160‑1440297
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
