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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,031,911 |
T→A |
42.6% |
Q30L (CAG→CTG) |
ydgJ ← |
predicted oxidoreductase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,031,911 | 0 | T | A | 42.6%
| 18.9
/ 54.1
| 54 | Q30L (CAG→CTG) | ydgJ | predicted oxidoreductase |
| Reads supporting (aligned to +/- strand): ref base T (10/21); new base A (5/18); total (15/39) |
| Fisher's exact test for biased strand distribution p-value = 5.41e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.73e-01 |
CGTTGGCCAGTCGGCTTTTACTTTTGTTTCATCACTGCTGGAGATTACCGCCAGTTCCTGCCCGGGCGTGCCCGCAATCAGGGGCGCATGGAAGGTTTTGCTCGCATAACCATACCCAATCAA > minE/1031853‑1031975
|
cgtTGGCCAGTCGGCTTTTACTTTTGTTTCATCACTGCTGGAGATTACCGCCAGTTCCTGCCCGGGCGt < 1:280095/69‑1 (MQ=255)
cgtTGGCCAGTCGGCTTTTACTTTTGTTTCATCACTGCTGGAGATTACCGCCAGTTCCTGCCCGGGCGt < 1:3094988/69‑1 (MQ=255)
ccAGTCAGCTTTTACTTTTGTTTCATCGCTGCTTGAGATTACCGCCAGCTCCAGCCCgg < 1:953173/59‑1 (MQ=37)
ccAGTCAGCTTTTACTTTTGTTTCATCGCTGCTGGAGATTACCGCCAGCTCCAGCCCgg < 1:3278426/59‑1 (MQ=255)
ccAGTCAGCTTTTACTTTTGTTTCATCGCTGCTGGAGATTACCGCCAGCTCCAGCCCgg < 1:2974085/59‑1 (MQ=255)
ccAGTCAGCTTTTACTTTTGTTTCATCGCTGCTGGAGATTACCGCCAGCTCCAGCCCgg < 1:2999643/59‑1 (MQ=255)
ccAGTCAGCTTTTACTTTTGTTTCATCGCTGCTGGAGATTACCGCCAGCTCCAGCCCgg < 1:2843469/59‑1 (MQ=255)
ccAGTCAGCTTTTACTTTTGTTTCATCGCTGCTGGAGATTACCGCCAGCTCCAGCCCgg < 1:2606262/59‑1 (MQ=255)
ccAGTCAGCTTTTACTTTTGTTTCATCGCTGCTGGAGATTACCGCCAGCTCCAGCCCgg < 1:3108993/59‑1 (MQ=255)
ccAGTCAGCTTTTACTTTTGTTTCATCGCTGCTGGAGATTACCGCCAGCTCCAGCCCgg < 1:313282/59‑1 (MQ=255)
ccAGTCAGCTTTTACTTTTGTTTCATCGCTGCTGGAGATTACCGCCAGCTCCAGCCCgg < 1:653891/59‑1 (MQ=255)
ccAGTCAGCTTTTACTTTTGTTTCATCGCTGCTGGAGATTACCGCCAGCTCCAGCCCgg < 1:175938/59‑1 (MQ=255)
ccAGTCAGCTTTTACTTTTGTTTCATCGCTGCTGGAGATTACCGCCAGCTCCAGCCCgg < 1:1756959/59‑1 (MQ=255)
ccAGTCAGCTTTTACTTTTGTTTCATCGCTGCTGGAGATTACCGCCAGCTCCAGCCCgg < 1:1728097/59‑1 (MQ=255)
ccAGTCAGCTTTTACTTTTGTTTCATCGCTGCTGGAGATTACCGCCAGCTCCAGCCCgg < 1:1632427/59‑1 (MQ=255)
ccAGTCAGCTTTTACTTTTGTTTCATCGCTGCTGGAGATTACCGCCAGCTCCAGCCCgg < 1:1593192/59‑1 (MQ=255)
ccAGTCAGCTTTTACTTTTGTTTCATCGCTGCTGGAGATTACCGCCAGCTCCAGCCCgg < 1:1535815/59‑1 (MQ=255)
ccAGTCAGCTTTTACTTTTGTTTCATCGCTGCTGGAGATTACCGCCAGCTCCAGCCCgg < 1:1504242/59‑1 (MQ=255)
ccAGTCAGCTTTTACTTTTGTTTCATCGCTGCTGGAGATTACCGCCAGCTCCAGCCCgg < 1:3277636/59‑1 (MQ=255)
ccAGTCAGCTTTTACTTTTGTTTCATCGCTGCTGGAGATTACCGCCAGCTCCAGCCCgg < 1:1341078/59‑1 (MQ=255)
tttACTTTTGTTTCATCACTGCTGGAGATTACCGCCAGTTCCTGCCCGGGCGTGCCCGCAATCAgggg > 1:1764858/1‑68 (MQ=255)
tttACTTTTGTTTCATCACTGCTGGAGATTACCGCCAGTTCCTGCCCGGGCGTGCCCGCAATCAgggg > 1:1931781/1‑68 (MQ=255)
tttACTTTTGTTTCATCACTGCTGGAGATTACCGCCAGTTCCTGCCCGGGCGTGCCCGCAATCAgggg > 1:1535448/1‑68 (MQ=255)
tttACTTTTGTTTCATCACTGCTGGAGATTACCGCCAGTTCCTGCCCGGGCGTGCCCGCAATCAgggg > 1:1492257/1‑68 (MQ=255)
tttACTTTTGTTTCATCACTGCTGGAGATTACCGCCAGTTCCTGCCCGGGCGTGCCCGCAATCAgggg > 1:2751080/1‑68 (MQ=255)
tttACTTTTGTTTCATCACTGCTGGAGATTACCGCCAGTTCCTGCCCGGGCGTGCCCGCAATCAgggg > 1:1410591/1‑68 (MQ=255)
tttACTTTTGTTTCATCACTGCTGGAGATTACCGCCAGTTCCTGCCCGGGCGTGCCCGCAATCAggg > 1:3029916/1‑67 (MQ=255)
aCTTTTGTTTCATCACTGCTGGAGATTACCGCCAGTTCCTGCCCGGGCGTGCCCGCAATCAGGGgcg < 1:1296498/67‑1 (MQ=255)
gaTTACCGCCAGTTCCTGCCCGGGCGTGCCCGCAATCAGGGGCGCATGGAAGGTTTTGCTCTCATAAc < 1:6441/68‑1 (MQ=255)
gaTTACCGCCAGTTCCTGCCCGGGCGTGCCCGCAATCAGGGGCGCATGGAAGGTTTTGCTCGCATAAc < 1:371852/68‑1 (MQ=255)
gaTTACCGCCAGTTCCTGCCCGGGCGTGCCCGCAATCAGGGGCGCATGGAAGGTTTTGCTCGCATAAc < 1:422345/68‑1 (MQ=255)
gaTTACCGCCAGTTCCTGCCCGGGCGTGCCCGCAATCAGGGGCGCATGGAAGGTTTTGCTCGCATAAc < 1:360300/68‑1 (MQ=255)
gaTTACCGCCAGTTCCTGCCCGGGCGTGCCCGCAATCAGGGGCGCATGGAAGGTTTTGCTCGCATAAc < 1:454177/68‑1 (MQ=255)
gaTTACCGCCAGTTCCTGCCCGGGCGTGCCCGCAATCAGGGGCGCATGGAAGGTTTTGCTCGCATAAc < 1:478455/68‑1 (MQ=255)
gaTTACCGCCAGTTCCTGCCCGGGCGTGCCCGCAATCAGGGGCGCATGGAAGGTTTTGCTCGCATAAc < 1:524076/68‑1 (MQ=255)
gaTTACCGCCAGTTCCTGCCCGGGCGTGCCCGCAATCAGGGGCGCATGGAAGGTTTTGCTCGCATAAc < 1:640502/68‑1 (MQ=255)
gaTTACCGCCAGTTCCTGCCCGGGCGTGCCCGCAATCAGGGGCGCATGGAAGGTTTTGCTCGCATAAc < 1:103791/68‑1 (MQ=255)
gaTTACCGCCAGTTCCTGCCCGGGCGTGCCCGCAATCAGGGGCGCATGGAAGGTTTTGCTCGCATAAc < 1:964527/68‑1 (MQ=255)
gaTTACCGCCAGTTCCTGCCCGGGCGTGCCCGCAATCAGGGGCGCATGGAAGGTTTTGCTCGCATAAc < 1:2991237/68‑1 (MQ=255)
gaTTACCGCCAGTTCCTGCCCGGGCGTGCCCGCAATCAGGGGCGCATGGAAGGTTTTGCTCGCATAAc < 1:2626409/68‑1 (MQ=255)
gaTTACCGCCAGTTCCTGCCCGGGCGTGCCCGCAATCAGGGGCGCATGGAAGGTTTTGCTCGCATAAc < 1:254090/68‑1 (MQ=255)
gaTTACCGCCAGTTCCTGCCCGGGCGTGCCCGCAATCAGGGGCGCATGGAAGGTTTTGCTCGCATAAc < 1:2429922/68‑1 (MQ=255)
gaTTACCGCCAGTTCCTGCCCGGGCGTGCCCGCAATCAGGGGCGCATGGAAGGTTTTGCTCGCATAAc < 1:2404588/68‑1 (MQ=255)
gaTTACCGCCAGTTCCTGCCCGGGCGTGCCCGCAATCAGGGGCGCATGGAAGGTTTTGCTCGCATAAc < 1:2392501/68‑1 (MQ=255)
gaTTACCGCCAGTTCCTGCCCGGGCGTGCCCGCAATCAGGGGCGCATGGAAGGTTTTGCTCGCATAAc < 1:2185010/68‑1 (MQ=255)
gaTTACCGCCAGTTCCTGCCCGGGCGTGCCCGCAATCAGGGGCGCATGGAAGGTTTTGCTCGCATAAc < 1:1345561/68‑1 (MQ=255)
aCCGCCAGTTCCTGCCCGGGCGTGCCCGCAATCAGGGGCGCATGGAAGGTTTTGCTCGCATAACCATa > 1:2929764/1‑68 (MQ=255)
gctCCAGCCCGGGCGTGCCCGCAATCAGGGGCGCATGGAAGGTTTTGCTCGCATAACCATACCCAATCa > 1:3325767/3‑69 (MQ=255)
gctCCAGCCCGGGCGTGCCCGCAATCAGGGGCGCATGGAAGGTTTTGCTCGCATAACCATACCCAATCa > 1:2900274/3‑69 (MQ=255)
gctCCAGCCCGGGCGTGCCCGCAATCAGGGGCGCATGGAAGGTTTTGCTCGCATAACCATACCCAATCa > 1:2878876/3‑69 (MQ=255)
gctCCAGCCCGGGCGTGCCCGCAATCAGGGGCGCATGGAAGGTTTTGCTCGCATAACCATACCCAATCa > 1:485922/3‑69 (MQ=255)
gctCCAGCCCGGGCGTGCCCGCAATCAGGGGCGCATGGAAGGTTTTGCTCGCATAACCATACCCAATCa > 1:678399/3‑69 (MQ=255)
ccTGCCCGGGCGTGCCCGCAATCAGGGGCGCATGGAAGGTTTTGCTCGCATAAc > 1:585247/1‑54 (MQ=255)
ccTGCCCGGGCGTGCCCGCAATCAGGGGCGCATGGAAGGTTTTGCTCGCATAACCATACCCAATCaa > 1:3433361/1‑67 (MQ=255)
|
CGTTGGCCAGTCGGCTTTTACTTTTGTTTCATCACTGCTGGAGATTACCGCCAGTTCCTGCCCGGGCGTGCCCGCAATCAGGGGCGCATGGAAGGTTTTGCTCGCATAACCATACCCAATCAA > minE/1031853‑1031975
|
| 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
