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 |
3,718,376 |
G→A |
36.7% |
intergenic (+9/‑42) |
atpA → / → atpG |
F1 sector of membrane‑bound ATP synthase, alpha subunit/F1 sector of membrane‑bound ATP synthase, gamma subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,718,376 | 0 | G | A | 36.7%
| 44.2
/ 49.1
| 49 | intergenic (+9/‑42) | atpA/atpG | F1 sector of membrane‑bound ATP synthase, alpha subunit/F1 sector of membrane‑bound ATP synthase, gamma subunit |
| Reads supporting (aligned to +/- strand): ref base G (18/13); new base A (11/7); total (29/20) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.77e-01 |
CGAAATCGAAGGCAAGCTGAAAGGCATCCTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTGGCGGCTTGCCTTA‑GGGCAGGCCGCAAGGCATTGAGGAGAAGCTCATGGCCGGCGCAAAAGAGATACG > W3110S.gb/3718307‑3718440
|
cgaAATCGAAGGCAAGCTGAAAGGCATCCTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTggcgg < 1:989713/71‑1 (MQ=255)
aaTCGAAGGCAAGCTGAAAGGCATCCTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTGGCGGCtt < 1:1858702/71‑1 (MQ=255)
aTCGAAGGCAAGCTGAAAGGCATCCTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTGGCGGCTTg > 1:2262880/1‑71 (MQ=255)
tCGAAGGCAAGCTGAAAGGCATCCTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTggcg < 1:815270/65‑1 (MQ=255)
tCGAAGGCAAGCTGAAAGGCATCCTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTggcg < 1:1390424/65‑1 (MQ=255)
tCGAAGGCAAGCTGAAAGGCATCCTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTggcg < 1:2103058/65‑1 (MQ=255)
gAAGGCAAGCTGAAAGGCATCCTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTGGCGGCTTGCCt < 1:3404438/71‑1 (MQ=255)
gAAGGCAAGCTGAAAGGCATCCTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTGGCGGCTTGCCt < 1:1931814/71‑1 (MQ=255)
gAAGGCAAGCTGAAAGGCATCCTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTGG‑GGCTTGCCtt < 1:2195539/71‑1 (MQ=255)
aaGGCAAGCTGAAAGGCATCCTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTGGCAGCTTGCCtt < 1:3240335/71‑1 (MQ=255)
cAAGCTGAAAGGCATCCTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTGGCGGCTTGCCTTA‑ggg > 1:2510113/1‑71 (MQ=255)
cAAGCTGAAAGGCATCCTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTGGCGGCTTGCCTTA‑ggg > 1:2218203/1‑71 (MQ=255)
aaGCTGAAAGGCATCCTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTGGCGGCTTGCCTTA‑GGGc < 1:2762175/71‑1 (MQ=255)
aaGCTGAAAGGCATCCTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTGGCGGCTTGCCTTA‑GGGc < 1:963838/71‑1 (MQ=255)
aaGCTGAAAGGCATCCTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTGGCGGCTTGCCTTA‑GGGc < 1:4045854/71‑1 (MQ=255)
aaGCTGAAAGGCATCCTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTGGCGGCTTGCCTTA‑GGGc < 1:2547990/71‑1 (MQ=255)
aGCTGAAAGGCATCCTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTggcgg < 1:3102492/57‑1 (MQ=255)
gCTGAAAGGCATCCTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTGGCAGCTTGCCtt < 1:1410764/64‑1 (MQ=255)
cTGAAAGGCATCCTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTGGCGGCTTGCCTTA‑GGGCAgg > 1:2024295/1‑71 (MQ=255)
cTGAAAGGCATCCTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTGGCGGCTTGCCTTA‑GGGCAgg > 1:1522879/1‑71 (MQ=255)
cTGAAAGGCATCCTCGATTCCTTAAAAGCAACCCAATCCTGGTAACGTCTGGCGGCTTGCCTTA‑GGGCAgg > 1:2895182/1‑71 (MQ=255)
gAAAGGCATCCTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTGGCGGCTTGCCTTA‑GGGCAGGcc > 1:3756259/1‑71 (MQ=255)
gAAAGGCATCCTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTGGCGGCTTGCCTTA‑GGGCAGGcc > 1:2801108/1‑71 (MQ=255)
aaGGCATCCTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTGGCGGCTTGCCTTA‑GGGCAGGCCGc < 1:2858675/71‑1 (MQ=255)
aGGCATCCTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTggcggc > 1:1113772/1‑51 (MQ=255)
tacTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTGGCAGCTTGCCTTa < 1:3567790/52‑1 (MQ=255)
tCCTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTGGCGGCtt < 1:1041800/48‑1 (MQ=255)
tCCTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTGGCGGCtt < 1:3952540/48‑1 (MQ=255)
tCCTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTGGCGGCTTGCCTTA‑GGGCAGGCCGCAAGGc > 1:2287391/1‑70 (MQ=255)
tCCTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTGGCAGCTTGCCTTa < 1:1873289/54‑1 (MQ=255)
cTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTggcgg > 1:1077711/1‑43 (MQ=255)
cTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTggcgg > 1:3730387/1‑43 (MQ=255)
cTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTggcagc > 1:1191007/1‑44 (MQ=255)
cTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTggcagc > 1:3914425/1‑44 (MQ=255)
cTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTGGCGGCTTGcc > 1:306870/1‑49 (MQ=255)
cTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTGGCGGCTTGcc > 1:3273883/1‑49 (MQ=255)
cTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTGGCGGCTTGcc > 1:1311090/1‑49 (MQ=255)
cTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTGGCGGCTTGCCTTAGGGGCAGGCCGCAAGGCAt > 1:148422/1‑71 (MQ=255)
cTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTGGCGGCTTGCCTTA‑GGGCAGGCCGCaa > 1:1981856/1‑65 (MQ=255)
cTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTGGCGGCTTGCCTTA‑GGGCAGGCCGCAAGGCAtt > 1:2346259/1‑71 (MQ=255)
cTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTGGCGGCTTGCCTTA‑GGGCAGGCCGCAAGGCAtt > 1:2125950/1‑71 (MQ=255)
tCCTTCTAAGCAACCCAATCCTGGTAACGTCTGGCAGCTTGCCTTA‑GGGCAGGCCGCAAGGCATTgag > 1:527593/1‑68 (MQ=255)
tCCTTCAAAGCAACCCAATCCTGGTAACGTCTGGCAGCTTGCCTTA‑GGGCAGGCCGCAAGGCATTgag > 1:1035531/1‑68 (MQ=255)
tCCTTCAAAGCAACCCAATCCTGGTAACGTCTGGCAGCTTGCCTTA‑GGGCAGGCCGCAAGGCATTgag > 1:873099/1‑68 (MQ=255)
tCCTTCAAAGCAACCCAATCCTGGTAACGTCTGGCAGCTTGCCTTA‑GGGCAGGCCGCAAGGCATTgag > 1:372424/1‑68 (MQ=255)
cAAAGCAACCCAATCCTGGTAACGTCTGGCGGCTTGCCTTA‑GGGCAGGCCGCAAGGCATTGAGGAGAAGCt > 1:765221/1‑71 (MQ=255)
aaaGCAACCCAATCCTGGTAACGTCTGGCGGCTGGCCTTA‑GGGCAGGCCGCAAGGCATTGAGGAGAAGCt < 1:527701/70‑1 (MQ=255)
aGCAACCCAATCCTGGTAACGTCTGGCAGCTTGCCTTA‑GGGCAGGCCGCAAGGCATTGAGGAGAAGCTCAt < 1:790595/71‑1 (MQ=255)
aGCAACCCAATCCTGGTAACGTCTGCCAGCTTGCCTTA‑GGGCAGGCCGCAAGGCATTGAGGAGAAGCTCAt < 1:1928609/71‑1 (MQ=255)
aaCCCAATCCTGGTAACGTCTGGCAGCTTGCCTTA‑GGGCAGGCCGCAAGGCATTGAGGAGAAGCTCATGGc > 1:2218126/1‑71 (MQ=255)
aaCCCAATCCTGGTAACGTCTGGCAGCTTGCCTTA‑GGGCAGGCCGCAAGGCATTGAGGAGAAGCTCATGGc > 1:1899185/1‑71 (MQ=255)
aaCCCAATCCTGGTAACGTCTGGCAGCTTGCCTTA‑GGGCAGGCCGCAAGGCATTGAGGAGAAGCTCATGGc > 1:304391/1‑71 (MQ=255)
cAATCCTGGTAACGTCTGGCGGCTTGCCTTA‑GGGCAGGCCGCAAGGCATTGAGGAGAAGCTCATGGCCGgc > 1:2908647/1‑71 (MQ=255)
cAATCCTGGTAACGTCTGGCAGCTTGCCTTA‑GGGCAGGCCGCAAGGCATTGAGGAGAAGCTCATGGCCgg > 1:505170/1‑70 (MQ=255)
cAATCCTGGTAACGTCTGGCAGCTTGCCTTA‑GGGCAGGCCGCAAGGCATTGAGGAGAAGCTCATGGCCgg > 1:2975387/1‑70 (MQ=255)
cAATCCTGGTAACGTCTGGCAGCTTGCCTTA‑GGGCAGGCCGCAAGGCATTGAGGAGAAGCTCATGGCCGgc > 1:3869013/1‑71 (MQ=255)
cTGGTAACGTCTGGCGGCTTGCCTTA‑GGGCAGGCCGCAAGGCATTGAGGAGAAGCTCATGGCCGGCGCaa < 1:2011770/70‑1 (MQ=255)
cTGGTAACGTCTGGCAGCTTGCCTTA‑GGGCAGGCCGCAAGGCATTGAGGAGAAGCTCATGGCCGGCGCaa < 1:2007549/70‑1 (MQ=255)
tGGCAGCTTGCCTTA‑GGGCAGGCCGCAAGGCATTGAGGAGAAGCTCATGGCCGGCGCAAAAGAGATACg > 1:808442/1‑69 (MQ=255)
|
CGAAATCGAAGGCAAGCTGAAAGGCATCCTCGATTCCTTCAAAGCAACCCAATCCTGGTAACGTCTGGCGGCTTGCCTTA‑GGGCAGGCCGCAAGGCATTGAGGAGAAGCTCATGGCCGGCGCAAAAGAGATACG > W3110S.gb/3718307‑3718440
|
| 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
