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 F17 I0 R2
|
276 |
45.3 |
3729697 |
93.0% |
3468618 |
60.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,710,918 |
A→T |
11.3% |
V168E (GTG→GAG) |
yfiC ← |
predicted methyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,710,918 | 0 | A | T | 11.3%
| 144.7
/ 10.2
| 57 | V168E (GTG→GAG) | yfiC | predicted methyltransferase |
| Reads supporting (aligned to +/- strand): ref base A (22/28); new base T (4/2); total (26/31) |
| Fisher's exact test for biased strand distribution p-value = 4.01e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.83e-01 |
CAAACGTAAATGCCAGCCCATGCTTAATGCCAGCTCCGTAAAACCATTACCAATCTGCTCTGGCAGCACTACGCAGAAAAATCCCTCTTCGGTAATGCACTCCGCCGCACAGGTCAGCAACGAT > W3110S.gb/2710851‑2710974
|
cAAACGTAAATGCCAGCCCATGCTTAATGCCAGCTCCGTAAAACCATTACCAATCTGCTCTGGCAGCAc < 1:2686299/69‑1 (MQ=255)
cAAACGTAAATGCCAGCCCATGCTTAATGCCAGCTCCGTAAAACCATTACCAATCTGCTCTGGCAGCAc < 1:1440635/69‑1 (MQ=255)
cAAACGTAAATGCCAGCCCATGCTTAATGCCAGCTCCGTAAAACCATTACCAATCTGCTCTGGCAGCAc < 1:799450/69‑1 (MQ=255)
cAAACGTAAATGCCAGCCCATGCTTAATGCCAGCTCCGTAAAACCATTACCAATCTGCTCTGGCAGCAc < 1:1482297/69‑1 (MQ=255)
cAAACGTAAATGCCAGCCCATGCTTAATGCCAGCTCCGTAAAACCATTACCAATCTGCTCTGGCAGCAc < 1:1659408/69‑1 (MQ=255)
tAAATGCCAGCCCATGCTTAATGCCAGCTCCGTAAAACCATTACCAATCTGCTCTGGCAGCACTACGc > 1:2083363/1‑68 (MQ=255)
tGCCAGCCCATGCTTAATGCCAGCTCCGTAAAACCATTACCAATCTGCTCTGGCAGCACTACGCAGaaa > 1:1855775/1‑69 (MQ=255)
tGCCAGCCCATGCTTAATGCCAGCTCCGTAAAACCATTACCAATCTGCTCTGGCAGCACTACGCAGaaa > 1:1807105/1‑69 (MQ=255)
tGCTTAATGCCAGCTCCGTAAAACCATTACCAATCTGCTCTGGCAGCACTACGCAGAAAAATCCCTCtt > 1:3676744/1‑69 (MQ=255)
tGCTTAATGCCAGCTCCGTAAAACCATTACCAATCTGCTCTGGCAGCACTACGCAGAAAAATCCCTCtt > 1:2503947/1‑69 (MQ=255)
tGCTTAATGCCAGCTCCGTAAAACCATTACCAATCTGCTCTGGCAGCACTACGCAGAAAAATCCCTCtt > 1:2956527/1‑69 (MQ=255)
tGCTTAATGCCAGCTCCGTAAAACCATTACCAATCTGCTCTGGCAGCACTACGCAGAAAAATCCCTCtt > 1:457603/1‑69 (MQ=255)
tGCTTAATGCCAGCTCCGTAAAACCATTACCAATCTGCTCTGGCAGCACTACGCAGAAAAATCCCTCtt > 1:1223684/1‑69 (MQ=255)
cTTAATGCCAGCTCCGTAAAACCATTACCAATCTGCTCTGGTAGCACTACGCAGAAAAATCCct > 1:2789230/1‑64 (MQ=255)
cTTAATGCCAGCTCCGTAAAACCATTACCAATCTGCTCTGGCAGCACTa > 1:431770/1‑49 (MQ=255)
cTTAATGCCAGCTCCGTAAAACCATTACCAATCTGCTCTGGCAGCACTACGCAGaaa < 1:496613/57‑1 (MQ=255)
cTTAATGCCAGCTCCGTAAAACCATTACCAATCTGCTCTGGCAGCACTACGCAGaaa < 1:2534696/57‑1 (MQ=255)
cTTAATGCCAGCTCCGTAAAACCATTACCAATCTGCTCTGGCAGCACTACGCAGAAAAATCCctc < 1:3475901/65‑1 (MQ=255)
cTTAATGCCAGCTCCGTAAAACCATTACCAATCTGCTCTGGCAGCACTACGCAGAAAAATCCctc < 1:195662/65‑1 (MQ=255)
cTTAATGCCAGCTCCGTAAAACCATTACCAATCTGCTCTGGCAGCACTACGCAGAAAAATCCctc < 1:2358701/65‑1 (MQ=255)
cTTAATGCCAGCTCCGTAAAACCATTACCAATCTGCTCTGGCAGCACTACGCAGAAAAATCCctc < 1:2469760/65‑1 (MQ=255)
cTTAATGCCAGCTCCGTAAAACCATTACCAATCTGCTCTGGCAGCACTACGCAGAAAAATCCCTCTTc < 1:1486978/68‑1 (MQ=255)
cTTAATGCCAGCTCCGTAAAACCATTACCAATCTGCTCTGGCAGCACTACGCAGAAAAATCCCTCTTc > 1:2185724/1‑68 (MQ=255)
cTTAATGCCAGCTCCGTAAAACCATTACCAATCTGCTCTGGCAGCACTACGCAGAAAAATCCCTCTTc > 1:3578750/1‑68 (MQ=255)
tAATGCCAGCTCCGTAAAACCATTACCAATCTGCTCTGGCAGCACTACGCAGAAAAATCCCTCTTCGGt < 1:3214179/69‑1 (MQ=255)
tAATGCCAGCTCCGTAAAACCATTACCAATCTGCTCTGGCAGCACTACGCAGAAAAATCCCTCTTCGGt < 1:1171125/69‑1 (MQ=255)
tAATGCCAGCTCCGTAAAACCATTACCAATCTGCTCTGGCAGCACTACGCAGAAAAATCCCTCTTCGGt < 1:795749/69‑1 (MQ=255)
tAATGCCAGCTCCGTAAAACCATTACCAATCTGCTCTGGCAGCACTACGCAGAAAAATCCCTCTTCGGt < 1:1471544/69‑1 (MQ=255)
tGCCAGCTCCGTAAAACCATTACCAATCTGCTCTGGCAGCACTACGCAGAAAAATCCCTCTTCGGTaa > 1:557559/1‑68 (MQ=255)
ccAGCTCCGTAAAACCATTACCAATCTGCTCTGGCAGCTCTACGCAGaaaa > 1:437251/1‑51 (MQ=255)
ccAGCTCCGTAAAACCATTACCAATCTGCTCTGGCAGCTCTACGCAGAAAAATCCCTCTTCGGTAATg > 1:2199360/1‑68 (MQ=255)
ccAGCTCCGTAAAACCATTACCAATCTGCTCTGGCAGCTCTACGCAGAAAAATCCCTCTTCGGTAATg > 1:3190279/1‑68 (MQ=255)
ccAGCTCCGTAAAACCATTACCAATCTGCTCTGGCAGCTCTACGCAGAAAAATCCCTCTTCGGTAATg > 1:2097993/1‑68 (MQ=255)
tAAAACCATTACCAATCTGCTCTGGCAGGACTACGCAGAAAAATCCCTCTTCGGTAATGCACTccgccg < 1:743351/69‑1 (MQ=255)
aaaCCATTACCAATCTGCTCTGGCAGCTCTACGCAGAAAAATCCCTCTTCGGTAATGCACTccgc < 1:2952759/65‑1 (MQ=255)
aaaCCATTACCAATCTGCTCTGGCAGCTCTACGCAGAAAAATCCCTCTTCGGTAATGCACTccgc < 1:3617603/65‑1 (MQ=255)
aaaCCATTACCAATCTGCTCTGGCAGCCCTACGCAGAAAAATCCCTCTTCGGTAATGCACTccgc < 1:885363/65‑1 (MQ=255)
aaaCCATTACCAATCTGCTCTGGCAGCACTACGCAGAAAAATCCCTCTTCGGTAATGCACTccgccg > 1:3476887/1‑67 (MQ=255)
aaaCCATTACCAATCTGCTCTGGCAGCACTACGCAGAAAAATCCCTCTACGGTAATGCACTccgccg > 1:940910/1‑67 (MQ=255)
aCCATTACCAATCTGCTCTGGCAGCACTACGCAGAAAAATCCCTCTTCg > 1:2768520/1‑49 (MQ=255)
aCCATTACCAATCTGCTCTGGCAGCACTACGCAGAAAAATCCCTCTTCGGTa > 1:87952/1‑52 (MQ=255)
aCCAATCTGCTCTGGCAGCACTACGCAGAAAAATCCCTCTTCGGTAATGCACTCCGCCGCACAGGTCa > 1:291378/1‑68 (MQ=255)
aCCAATCTGCTCTGGCAGCACTACGCAGAAAAATCCCTCTTCGGTAATGCACTCCGCCGCACAGGTCa > 1:2460764/1‑68 (MQ=255)
cAATCTGCTCTGGCAGCACTACGCAGAAAAATCCCTCTTCGGTAATGCACTCCGCCGCACAGGTCAGc < 1:1031257/68‑1 (MQ=255)
aTCTGCTCTGGCAGCACTACGCAGAAAAATCCCTCTTCGGTAATGCACTCCGCCGCACAGGTCAGCAAc < 1:3714839/69‑1 (MQ=255)
aTCTGCTCTGGCAGCACTACGCAGAAAAATCCCTCTTCGGTAATGCACTCCGCCGCACAGGTCAGCAAc < 1:295816/69‑1 (MQ=255)
aTCTGCTCTGGCAGCACTACGCAGAAAAATCCCTCTTCGGTAATGCACTCCGCCGCACAGGTCAGCAAc < 1:1727274/69‑1 (MQ=255)
aTCTGCTCTGGCAGCACTACGCAGAAAAATCCCTCTTCGGTAATGCACTCCGCCGCACAGGTCAGCAAc < 1:1254557/69‑1 (MQ=255)
tggtctGGCAGCACTACGCAGAAAAATCCCTCTTCGGTAATGCACTCCGCCGCACAGGTCAGCAACGAt > 1:3253591/4‑69 (MQ=255)
tGCTCTGGCAGCACTACGCAGAAAAATCCCTCTTCGGTAATGCACTCCGCCGCACAGGTCAgaac < 1:3403521/65‑4 (MQ=255)
tGCTCTGGCAGCACTACGCAGAAAAATCCCTCTTCGGTAATGCACTCCGCCGCACAGGTCAGCCAc < 1:1593860/66‑1 (MQ=255)
tGCTCTGGCAGCACTACGCAGAAAAATCCCTCTTCGGTAATGCACTCCGCCGCACAGGTCAGCAAc < 1:3620790/66‑1 (MQ=255)
tGCTCTGGCAGCACTACGCAGAAAAATCCCTCTTCGGTAATGCACTCCGCCGCACAGGTCAGCAAc < 1:348532/66‑1 (MQ=255)
tGCTCTGGCAGCACTACGCAGAAAAATCCCTCTTCGGTAATGCACTCCGCCGCACAGGTCAGCAAc < 1:759512/66‑1 (MQ=255)
tGCTCTGGCAGCACTACGCAGAAAAATCCCTCTTCGGTAATGCACTCCGCCGCACAGGTCAGCAAc < 1:970315/66‑1 (MQ=255)
tGCTCTGGCAGCACTACGCAGAAAAATCCCTCTTCGGTAATGCACTCCGCCGCACAGGTCAGCAACGAt > 1:2137217/1‑69 (MQ=255)
tGCTCTGGCAGCACTACGCAGAAAAATCCCTCTTCGGTAATGCACTCCGCCGCACAGGTCAGCAACGAt > 1:2132114/1‑69 (MQ=255)
|
CAAACGTAAATGCCAGCCCATGCTTAATGCCAGCTCCGTAAAACCATTACCAATCTGCTCTGGCAGCACTACGCAGAAAAATCCCTCTTCGGTAATGCACTCCGCCGCACAGGTCAGCAACGAT > W3110S.gb/2710851‑2710974
|
| 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
