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 F21 I0 R1
|
476 |
35.3 |
2812105 |
96.7% |
2719305 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,272,348 |
C→T |
10.4% |
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 | 10.4%
| 138.1
/ 6.5
| 48 | G89S (GGT→AGT) | garR | tartronate semialdehyde reductase |
| Reads supporting (aligned to +/- strand): ref base C (24/19); new base T (2/3); total (26/22) |
| Fisher's exact test for biased strand distribution p-value = 6.49e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.33e-01 |
GCTTTCAGCGCTTCGCTGATTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACATGAGGGGAGTTTGGCAGC > W3110S.gb/3272278‑3272418
|
gCTTTCAGCGCTTCGCTGATTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTAcc > 1:33307/1‑71 (MQ=255)
ttCAGCGCTTCGCTGATTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTgg > 1:2489541/1‑71 (MQ=255)
gcTTCGCTGATTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTcgc < 1:2009433/71‑1 (MQ=255)
cGCTGATTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGcc < 1:622753/70‑1 (MQ=255)
aTTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACTTGGCTTCGCGCCTTCaat < 1:2147822/71‑1 (MQ=255)
aTTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCgat < 1:2675151/71‑1 (MQ=255)
aTTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCaat < 1:2301060/71‑1 (MQ=255)
aTTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCaat < 1:1787627/71‑1 (MQ=255)
aTTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCaa < 1:377655/70‑1 (MQ=255)
aTTTCACGGCTTGCCAGCGGCGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCaat < 1:1536756/71‑1 (MQ=255)
ttCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACTTGGCTTCGCGCCTTCaataa > 1:353903/1‑71 (MQ=255)
gCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTTGCTTCGCGCCTTCAATAATGCCATtct < 1:1499238/70‑1 (MQ=255)
ccAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATtctc < 1:1990964/70‑1 (MQ=255)
tGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAgcg > 1:1812085/1‑71 (MQ=255)
gATAGAACTCATATCGATCAATACCGTACTTGGCTTCGCGCCTTCaat < 1:2664504/48‑1 (MQ=255)
aTAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCaat < 1:2185648/47‑1 (MQ=255)
tAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCtt > 1:506940/1‑42 (MQ=255)
aGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCaataa > 1:2634520/1‑47 (MQ=255)
aGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCaataa > 1:213880/1‑47 (MQ=255)
aGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCaataa > 1:2036779/1‑47 (MQ=255)
aGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCa > 1:1063511/1‑52 (MQ=255)
aGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCa > 1:2461748/1‑52 (MQ=255)
aGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACct > 1:203532/1‑71 (MQ=255)
gAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCaat < 1:973816/44‑1 (MQ=255)
gAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCAtt > 1:1928516/1‑53 (MQ=255)
gAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACctc < 1:290809/71‑1 (MQ=255)
gAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACct < 1:27670/70‑1 (MQ=255)
cTCATATCGATCAATACCGTACTTGGCTTCGCGCCTTCaataa > 1:2470216/1‑43 (MQ=255)
cTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCa > 1:1700237/1‑64 (MQ=255)
cATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACctct > 1:1902407/1‑67 (MQ=255)
cATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACctct > 1:1649266/1‑67 (MQ=255)
atatCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTca > 1:196869/1‑70 (MQ=255)
atatCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTca < 1:1758105/70‑1 (MQ=255)
atatCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTca < 1:1078747/70‑1 (MQ=255)
tatCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCAtt < 1:1634593/46‑1 (MQ=255)
tatCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTca < 1:2184889/69‑1 (MQ=255)
tCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCa > 1:631013/1‑48 (MQ=255)
tCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACAt > 1:1616017/1‑70 (MQ=255)
tCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACAt < 1:1998025/70‑1 (MQ=255)
tCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACAt > 1:582778/1‑70 (MQ=255)
tCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACAt > 1:1041515/1‑70 (MQ=255)
tCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCCCCACct > 1:1491749/1‑61 (MQ=255)
ccGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCAc > 1:723998/1‑39 (MQ=255)
ccGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCAc > 1:2011977/1‑39 (MQ=255)
ccGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCAc > 1:1646604/1‑39 (MQ=255)
ccGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCAc > 1:236334/1‑39 (MQ=255)
cGTACTTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTca < 1:2092365/56‑1 (MQ=255)
tACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACATGAGGGGAGTTTGgc < 1:247090/71‑1 (MQ=255)
aCCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACATGAGGGGAGTTTgg > 1:1940148/1‑69 (MQ=255)
ccTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTcac < 1:1351569/53‑1 (MQ=255)
ccTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACATGAGGGGAGTTTGgcag < 1:638908/71‑1 (MQ=255)
cTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACATGAggg < 1:2607018/59‑1 (MQ=255)
cTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACATGAGGGGAGTTTGgcagc < 1:329650/71‑1 (MQ=255)
cTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACATGAGGGGAGTTTGgcagc < 1:2092505/71‑1 (MQ=255)
|
GCTTTCAGCGCTTCGCTGATTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACATGAGGGGAGTTTGGCAGC > W3110S.gb/3272278‑3272418
|
| 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
