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 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,272,348 |
C→T |
24.4% |
G89S (GGT→AGT) |
garR ← |
tartronate semialdehyde reductase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,272,348 | 0 | C | T | 24.4%
| 151.7
/ 49.9
| 82 | G89S (GGT→AGT) | garR | tartronate semialdehyde reductase |
| Reads supporting (aligned to +/- strand): ref base C (28/33); new base T (11/9); total (40/42) |
| Fisher's exact test for biased strand distribution p-value = 6.07e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.34e-01 |
TCAGCGCTTCGCTGATTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACATGAGGGGAGTTTGGCAG > W3110S.gb/3272282‑3272417
|
tCAGCGCTTCGCTGATTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGc > 1:3562303/1‑71 (MQ=255)
tCAGCGCTTCGCTGATTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGc > 1:3357519/1‑71 (MQ=255)
tCGCTGATTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTCgcgc > 1:1247336/1‑70 (MQ=255)
aTTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACTTGGCTTCGCGCCTTCaat < 1:432846/71‑1 (MQ=255)
aTTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACTTGGCTTCGCGCCTTCaat < 1:2088461/71‑1 (MQ=255)
aTTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACTTGGCTTCGCGCCTTCaat < 1:376002/71‑1 (MQ=255)
aTTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCaat < 1:2890193/71‑1 (MQ=255)
aTTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCaat < 1:3303732/71‑1 (MQ=255)
aTTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCaa < 1:1964692/70‑1 (MQ=255)
aTTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCa < 1:3482035/69‑1 (MQ=255)
aTTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCa < 1:3636314/69‑1 (MQ=255)
ttCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACGTGGCTTCGCGCCTTCaataa > 1:1199109/1‑71 (MQ=255)
ttCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCaataa > 1:763866/1‑71 (MQ=255)
ttCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCaataa > 1:235336/1‑71 (MQ=255)
ttCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCaataa > 1:376716/1‑71 (MQ=255)
ttCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCaataa > 1:2930214/1‑71 (MQ=255)
ttCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCaataa > 1:2073673/1‑71 (MQ=255)
ttCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCaataa > 1:3893657/1‑71 (MQ=255)
aCGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGc < 1:561087/71‑1 (MQ=255)
ccAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATtctc < 1:1913225/70‑1 (MQ=255)
gCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCAccc < 1:474016/71‑1 (MQ=255)
gCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCAccc < 1:3827197/71‑1 (MQ=255)
gCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCAccc < 1:1122007/71‑1 (MQ=255)
tGCGATAGAACTCATATCGATCAATACCGTACTTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAgcg > 1:1002290/1‑71 (MQ=255)
tGCGATAGAACTCATATCGATCAATACCGTACTTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAgcg > 1:2443866/1‑71 (MQ=255)
cGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCaataa > 1:1118256/1‑51 (MQ=255)
cGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAgcgc < 1:577912/70‑1 (MQ=255)
aTAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATTCCATTCTCACCCAGCGCCAc < 1:720608/71‑1 (MQ=255)
aaCTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACctct < 1:73371/71‑1 (MQ=255)
aCTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCtt > 1:3982787/1‑71 (MQ=255)
aCTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCtt > 1:2303348/1‑71 (MQ=255)
cTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGc < 1:2410789/46‑1 (MQ=255)
cTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGc < 1:168038/46‑1 (MQ=255)
cTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGc < 1:1439091/46‑1 (MQ=255)
cTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGc < 1:3104704/46‑1 (MQ=255)
cATATCGATCAATACCGTACTTGGCTTCCCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTca > 1:3813997/1‑71 (MQ=255)
atatCGATCAATACCGTACTTGGCTTCGCGCCTTCaataa > 1:3631748/1‑40 (MQ=255)
atatCGATCAATACCGTACTTGGCTTCGCGCCTTCaataa > 1:661474/1‑40 (MQ=255)
atatCGATCAATACCGTACTTGGCTTCGCGCCTTCaataa > 1:3021207/1‑40 (MQ=255)
atatCGATCAATACCGTACTTGGCTTCGCGCCTTCaataa > 1:1102235/1‑40 (MQ=255)
tatCGATCAATACCGTACTTGGCTTCGCGCCTTCaat < 1:733382/37‑1 (MQ=255)
tCGATCAATACCGTACTTGGCTTCGCGCCTTCaataa > 1:1383160/1‑37 (MQ=255)
tCGATCAATACCGTACTTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCAGCTCTTTcaca > 1:805876/1‑69 (MQ=255)
tCGATCAATACCGTACTTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACAt > 1:1218200/1‑70 (MQ=255)
tCGATCAATACCGTACTTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACATg < 1:3264429/71‑1 (MQ=255)
tCGATCAATACCGTACTTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACATg < 1:1172967/71‑1 (MQ=255)
tCGATCAATACCGTACTTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACATg < 1:3941760/71‑1 (MQ=255)
tCGATCAATACCGTACTTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACATg < 1:3757067/71‑1 (MQ=255)
tCGATCAATACCGTACTTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACATg < 1:3575705/71‑1 (MQ=255)
tCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCa > 1:3684322/1‑42 (MQ=255)
tCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCa > 1:3807268/1‑42 (MQ=255)
tCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCa > 1:1315065/1‑42 (MQ=255)
tCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCa > 1:2655861/1‑42 (MQ=255)
tCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACctct < 1:3917165/63‑1 (MQ=255)
tCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACATg < 1:2599987/71‑1 (MQ=255)
tCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACATg < 1:447664/71‑1 (MQ=255)
gATCAATACCGTACTTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACATGAg > 1:3349657/1‑71 (MQ=255)
gATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATtct > 1:3088252/1‑44 (MQ=255)
tACCGTACCTGGCTTCGCGCCTTCAATAATGCCAtt < 1:2758919/36‑1 (MQ=255)
tACCGTACCTGGCTTCGCGCCTTCAATAATGCCAtt < 1:1439841/36‑1 (MQ=255)
tACCGTACCTGGCTTCGCGCCTTCAATAATGCCAtt < 1:2977367/36‑1 (MQ=255)
tACCGTACCTGGCTTCGCGCCTTCAATAATGCCATtct < 1:403137/38‑1 (MQ=255)
tACCGTACCTGGCTTCGCGCCTTCAATAATGCCATtct < 1:2013730/38‑1 (MQ=255)
tACCGTACCTGGCTTCGCGCCTTCAATAATGCCATtct < 1:404904/38‑1 (MQ=255)
tACCGTACCTGGCTTCGCGCCTTCAATAATGCCATtct < 1:2443311/38‑1 (MQ=255)
tACCGTACCTGGCTTCGCGCCTTCAATAATGCCATtct < 1:1519936/38‑1 (MQ=255)
tACCGTACCTGGCTTCGCGCCTTCAATAATGCCATtct < 1:731368/38‑1 (MQ=255)
tACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGcc < 1:259165/49‑1 (MQ=255)
tACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTcac < 1:320606/60‑1 (MQ=255)
tACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACATGAGGGGAg < 1:1220429/70‑1 (MQ=255)
aCCGTACCTGGCTTCGCGCCTTCAATAATGCCAtt < 1:629590/35‑1 (MQ=255)
ccGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTcaca > 1:1919003/1‑59 (MQ=255)
ccGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTcaca > 1:1850551/1‑59 (MQ=255)
ccGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACAt > 1:1533060/1‑60 (MQ=255)
ccGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACAt > 1:2477590/1‑60 (MQ=255)
ccGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACAt > 1:705086/1‑60 (MQ=255)
ccGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACAt > 1:3725344/1‑60 (MQ=255)
ccGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACAt > 1:3609427/1‑60 (MQ=255)
ccGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACAt > 1:3318776/1‑60 (MQ=255)
ccGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACATGAGGGGAGttt > 1:204868/1‑71 (MQ=255)
ccGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACATGAGGGGAGttt > 1:2075679/1‑71 (MQ=255)
ccGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACATGAGGGGAGttt > 1:3666818/1‑71 (MQ=255)
ccTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACATGAGGGGAGTTTGgcag > 1:586009/1‑71 (MQ=255)
cTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACAt < 1:1538828/54‑1 (MQ=255)
cTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACATGAGGGGAGTTTGgcag < 1:3653552/70‑1 (MQ=255)
|
TCAGCGCTTCGCTGATTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACATGAGGGGAGTTTGGCAG > W3110S.gb/3272282‑3272417
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
