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 F28 I2 R2
|
356 |
55.1 |
4139924 |
95.4% |
3949487 |
63.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
742,687 |
T→A |
I98F (ATC→TTC) |
ybgH ← |
predicted transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 742,687 | 0 | T | A | 98.3%
| 164.9
/ ‑5.7
| 60 | I98F (ATC→TTC) | ybgH | predicted transporter |
| Reads supporting (aligned to +/- strand): ref base T (1/0); new base A (52/7); total (53/7) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AACAGGCCATAGCCGCAGACGATAATCGCCAGGGACAGATAGAGGAATGACGGATGGATCTCACTGGCACCCAGCACCACATGACCGATCGCCATCAACAACGCCCCCAGCATCACCGCCAT > W3110S.gb/742629‑742750
|
aaCAGGCCATAGCCGCAGACGATAATCGCCAGGGACAGATAGAGGAATGACGGATGGAACTCACTGGCAc < 1:3086309/70‑1 (MQ=255)
gCCGCAGACGATAATCGCCAGGGACAGATAGAGGAATGACGGATGGAACTCACTGGCAcc > 1:2967772/1‑60 (MQ=255)
gCCGCAGACGATAATCGCCAGGGACAGATAGAGGAATGACGGATGGAACTCACTGGCAcc > 1:703372/1‑60 (MQ=255)
gCCGCAGACGATAATCGCCAGGGACAGATAGAGGAATGACGGATGGAACTCACTGGCAcc > 1:2444265/1‑60 (MQ=255)
gCCGCAGACGATAATCGCCAGGGACAGATAGAGGAATGACGGATGGAACTCACTGGCAcc > 1:1278513/1‑60 (MQ=255)
gCCGCAGACGATAATCGCCAGGGACAGATAGAGGAATGACGGATGGAACTCACTGGCAcc > 1:1343022/1‑60 (MQ=255)
gCCGCAGACGATAATCGCCAGGGACAGATAGAGGAATGACGGATGGAACTCACTGGCAcc > 1:3225024/1‑60 (MQ=255)
gCCGCAGACGATAATCGCCAGGGACAGATAGAGGAATGACGGATGGAACTCACTGGCAcc > 1:3633112/1‑60 (MQ=255)
gCCGCAGACGATAATCGCCAGGGACAGATAGAGGAATGACGGATGGAACTCACTGGCAcc > 1:4042423/1‑60 (MQ=255)
gCCGCAGACGATAATCGCCAGGGACAGATAGAGGAATGACGGATGGAACTCACTGGCAcc > 1:4069588/1‑60 (MQ=255)
gCCGCAGACGATAATCGCCAGGGACAGATAGAGGAATGACGGATGGAACTCACTGGCAc > 1:293999/1‑59 (MQ=255)
cGCAGACGATAATCGCCAGGGACAGATAGATGAATGACGGATGGAACTCACTGGCACCCAGCACCACATGa > 1:2820753/1‑71 (MQ=255)
cGCAGACGATAATCGCCAGGGACAGATAGAGGAATGACGGATGGAACTCACTGGCACCCAGCACCACATGa > 1:4082277/1‑71 (MQ=255)
cGCAGACGATAATCGCCAGGGACAGATAGAGGAATGACGGATGGAACTCACTGGCACCCAGCACCACATGa > 1:2254127/1‑71 (MQ=255)
cGCAGACGATAATCGCCAGGGACAGATAGAGGAATGACGGATGGAACTCACTGGCACCCAGCACCACATGa > 1:2013336/1‑71 (MQ=255)
cGCAGACGATAATCGCCAGGGACAGATAGAGGAATGACGGATGGAACTCACTGGCACCCAGCACCACATGa > 1:2645578/1‑71 (MQ=255)
cGCAGACGATAATCGCCAGGGACAGATAGAGGAATGACGGATGGAACTCACTGGCACCCAGCACCACATGa > 1:3503828/1‑71 (MQ=255)
cGCAGACGATAATCGCCAGGGACAGATAGAGGAATGACGGATGGAACTCACTGGCACCCAGCACCACATGa > 1:1381034/1‑71 (MQ=255)
cGCAGACGATAATCGCCAGGGACAGATAGAGGAATGACGGATGGAACTCACTGGCACCCAGCACCACATGa > 1:3672515/1‑71 (MQ=255)
cGCAGACGATAATCGCCAGGGACAGATAGAGGAATGACGGATGGAACTCACTGGCACCCAGCACCACATGa > 1:41425/1‑71 (MQ=255)
cGCAGACGATAATCGCCAGGGACAGATAGAGGAATGACGGATGGAACTCACTGGCACCCAGCACCACATGa > 1:1457699/1‑71 (MQ=255)
cGATAATCGCCAGGGACAGATAGAGGAATGACGGATGGAACTCACTGGCACCCAGCACCACATGACCGATc < 1:1668413/71‑1 (MQ=255)
gATAATCGCCAGGGACAGATAGAGGAATGACGGATGGAACTCACTGGCACCCAGCACCACATGACCGATc < 1:458870/70‑1 (MQ=255)
aTAATCGCCAGGGACAGATAGAGGAATGACGGATGGAACTCACTGGCACCCAGCACCACATGACCGATCGc < 1:1173857/71‑1 (MQ=255)
cGCCAGGGACAGATAGAGGAATGACGGATGGATCTCACTGGCACCCAGCACCACATGAc > 1:210631/1‑59 (MQ=255)
cGCCAGGGACAGATAGAGGAATGACGGATGGAACTCACTGGGACCCAGCACCACATGACCGATCGCCAt > 1:3519542/1‑69 (MQ=255)
cGCCAGGGACAGATAGAGGAATGACGGATGGAACTCACTGGCACCCAGCACCACATGACCGATCGc > 1:1381567/1‑66 (MQ=255)
cGCCAGGGACAGATAGAGGAATGACGGATGGAACTCACTGGCACCCAGCACCACATGACCGATCGCCAt > 1:1087231/1‑69 (MQ=255)
cGCCAGGGACAGATAGAGGAATGACGGATGGAACTCACTGGCACCCAGCACCACATGACCGATCGCCAt > 1:2638054/1‑69 (MQ=255)
cGCCAGGGACAGATAGAGGAATGACGGATGGAACTCACTGGCACCCAGCACCACATGACCGATCGCCAt > 1:421632/1‑69 (MQ=255)
cGCCAGGGACAGATAGAGGAATGACGGATGGAACTCACTGGCACCCAGCACCACATGACCGATCGCCAt > 1:515087/1‑69 (MQ=255)
cGCCAGGGACAGATAGAGGAATGACGGATGGAACTCACTGGCACCCAGCACCACATGACCGATCGCCAt > 1:970673/1‑69 (MQ=255)
cGCCAGGGACAGATAGAGGAATGACGGATGGAACTCACTGGCACCCAGCACCACATGACCGATCGCCAt > 1:1515287/1‑69 (MQ=255)
cGCCAGGGACAGATAGAGGAATGACGGATGGAACTCACTGGCACCCAGCACCACATGACCGATCGCCAt > 1:1366049/1‑69 (MQ=255)
cGCCAGGGACAGATAGAGGAATGACGGATGGAACTCACTGGCACCCAGCACCACATGACCGATCGCCAt > 1:1279130/1‑69 (MQ=255)
cGCCAGGGACAGATAGAGGAATGACGGATGGAACTCACTGGCACCCAGCACCACATGACCGATCGCCAt > 1:160080/1‑69 (MQ=255)
cGCCAGGGACAGATAGAGGAATGACGGATGGAACTCACTGGCACCCAGCACCACATGACCGATCGCCAt > 1:165944/1‑69 (MQ=255)
cGCCAGGGACAGATAGAGGAATGACGGATGGAACTCACTGGCACCCAGCACAACATGACCGATCGCCAt > 1:1206915/1‑69 (MQ=255)
gagGAATGACGGATGGAACTCACTGGCACCCAGCACCACATGACCGATCGcc > 1:2972628/1‑52 (MQ=255)
gagGAATGACGGATGGAACTCACTGGCACCCAGCACCACATGACCGATCGCCATCAACAACGCCCCCAGc > 1:1506502/1‑70 (MQ=255)
gagGAATGACGGATGGAACTCACTGGCACCCAGCACCACATGACCGATCGCCATCAACAACGCCCCCAGCa > 1:2743051/1‑71 (MQ=255)
gagGAATGACGGATGGAACTCACTGGCACCCAGCACCACATGACCGATCGCCATCAACAACGCCCCCAGCa > 1:845775/1‑71 (MQ=255)
gagGAATGACGGATGGAACTCACTGGCACCCAGCACCACATGACCGATCGCCATCAACAACGCCCCCAGCa > 1:1192474/1‑71 (MQ=255)
gagGAATGACGGATGGAACTCACTGGCACCCAGCACCACATGACCGATCGCCATCAACAACGCCCCCAGCa > 1:4026188/1‑71 (MQ=255)
gagGAATGACGGATGGAACTCACTGGCACCCAGCACCACATGACCGATCGCCATCAACAACGCCCCCAGCa > 1:1988230/1‑71 (MQ=255)
ggAATGACGGATGGAACTCACTGGCACCCAGCACCACATGACCGATCGCCATCAACAACGCCCCCAGCAt > 1:1727664/1‑70 (MQ=255)
ggAATGACGGATGGAACTCACTGGCACCCAGCACCACATGACCGATCGCCATCAACAACGCCCCCAGCAt > 1:1455464/1‑70 (MQ=255)
ggAATGACGGATGGAACTCACTGGCACCCAGCACCACATGACCGATCGCCATCAACAACGCCCCCAGCAt > 1:3813260/1‑70 (MQ=255)
ggAATGACGGATGGAACTCACTGGCACCCAGCACCACATGACCGATCGCCATCAACAACGCCCCCAGCAt > 1:1647216/1‑70 (MQ=255)
ggAATGACGGATGGAACTCACTGGCACCCAGCACCACATGACCGATCGCCATCAACAACGCCCCCAGCAt > 1:3517179/1‑70 (MQ=255)
ggAATGACGGATGGAACTCACTGGCACCCAGCACCACATGACCGATCGCCATCAACAACGCCCCCAGCAt > 1:3335710/1‑70 (MQ=255)
ggAATGACGGATGGAACTCACTGGCACCCAGCACCACATGACCGATCGCCATCAACAACGCCCCCAGCAt > 1:551650/1‑70 (MQ=255)
ggAATGACGGATGGAACTCACTGGCACCCAGCACCACATGACCGATCGCCATCAACAACGCCCCCAGCAt > 1:1944085/1‑70 (MQ=255)
ggAATGACGGATGGAACTCACTGGCACCCAGCACCACATGACCGATCGCCATCAACAACGCCCCCAGCAt > 1:559523/1‑70 (MQ=255)
ggAATGACGGATGGAACTCACTGGCACCCAGCACCACATGACCGATCGCCATCAACAACGCCCCCAGCAt > 1:660076/1‑70 (MQ=255)
ggAATGACGGATGGAACTCACTGGCACCCAGCACCACATGACCGATCGCCATCAACAACGCCCCCAGCAt > 1:2335241/1‑70 (MQ=255)
ggAATGACGGATGGAACTCACTGGCACCCAGCACCACATGACCGATCGCCATCAACAACGCCCCCAGCAt > 1:2580344/1‑70 (MQ=255)
aaTGACGTATGGAACTCACTGGCACCCAGCACCACATGACCGATCGCCATCAACAACGCCCCCAGCATCAc < 1:1033708/71‑1 (MQ=255)
aaTGACGGATGGAACTCACTGGCACCCAGCACCACATGACCGATCGCCATCAACAACGCCCCCAGCATCAc < 1:3707789/71‑1 (MQ=255)
aaTGACGGATGGAACTCACTGGCACCCAGCACCACATGACCGATCGCCATCAACAACGCCCCCAGCATCAc < 1:596944/71‑1 (MQ=255)
ggatggaaCTCACTGGCACCCAGCACCACATGACCGATCg > 1:3850599/1‑40 (MQ=255)
ggatggaaCTCACTGGCACCCAGCACCACATGACCGATCGCCATcaacaa > 1:364824/1‑50 (MQ=255)
ggatggaaCTCACTGGCACCCAGCACCACATGACCGATCGCCATcaacaa > 1:2042179/1‑50 (MQ=255)
ggatggaaCTCACTGGCACCCAGCACCACATGACCGATCGCCATcaacaa > 1:2248288/1‑50 (MQ=255)
ggatggaaCTCACTGGCACCCAGCACCACATGACCGATCGCCATcaacaa > 1:2936824/1‑50 (MQ=255)
ggatggaaCTCACTGGCACCCAGCACCACATGACCGATCGCCATcaacaa > 1:900064/1‑50 (MQ=255)
ggatggaaCTCACTGGCACCCAGCACCACATGACCGATCGCCATcaacaa > 1:2628018/1‑50 (MQ=255)
ggatggaaCTCACTGGCACCCAGCACCACATGACCGATCGCCATCAACAACGCCCCCAGCATCACCGCCAt < 1:1496395/71‑1 (MQ=255)
ggatggaaCTCACTGGCACCCAGCACCACATGACCGATCGCCATCAACAACGCCCCCAGCATCACCGCCAt < 1:3681887/71‑1 (MQ=255)
ggatggaaCTCACTGGCACCCAGCACCACATGACCGATCGCCATCAACAACGCCCCCAGCATCACCGCCAt < 1:3285143/71‑1 (MQ=255)
ggatggaaCTCACTGGCACCCAGCACCACATGACCGATCGCCATCAACAACGCCCCCAGCATCACCGCCAt < 1:2317497/71‑1 (MQ=255)
|
AACAGGCCATAGCCGCAGACGATAATCGCCAGGGACAGATAGAGGAATGACGGATGGATCTCACTGGCACCCAGCACCACATGACCGATCGCCATCAACAACGCCCCCAGCATCACCGCCAT > W3110S.gb/742629‑742750
|
| 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
