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 |
964,104 |
C→G |
42.0% |
R114R (CGG→CGC) |
yddA ← |
fused predicted multidrug transporter subunits and membrane component and ATP‑binding component of ABC superfamily |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 964,104 | 0 | C | G | 42.0%
| 19.6
/ 49.4
| 50 | R114R (CGG→CGC) | yddA | fused predicted multidrug transporter subunits and membrane component and ATP‑binding component of ABC superfamily |
| Reads supporting (aligned to +/- strand): ref base C (23/6); new base G (8/13); total (31/19) |
| Fisher's exact test for biased strand distribution p-value = 7.03e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.20e-01 |
ATCTGTATTTTTATGCTCGCCGTAGATCTGCGTGAAGTAGTAGTTTTTATCTGCAAACCACCGATTAAGGTAGTAATCTGTTAACCATTCGCGCCAGCGAATAGTCAGTAGTTT > minE/964044‑964157
|
aTCTGTATTTTTATGCTCGCCGTAGATCTGCGTGAAGTAGTAGTTTTTATCTGCAAACCACCGATTaa > 1:2899690/1‑68 (MQ=255)
aTCTGTATTTTTATGCTCGCCGTAGATCTGCGTGAAGTAGTAGTTTTTATCTGCAAACCACCGATTaa > 1:752385/1‑68 (MQ=255)
tttttATGCTCGCCGTAGATCTGCGTGAAGTAGTAGTTTTTATCTGCAAACCACCGATTAAGgtagta < 1:2502140/68‑1 (MQ=255)
ttttATGCTCGACGTAGATCTGCGTGAAGTAGTAGTTTTTATCTGCAAACCACCGATTAAGgtagta < 1:1589144/67‑1 (MQ=255)
tCGCCGTAGATCTGCGTGAAGTAGTAGTTTTTATCTGCAAACCAGCGATTAAGGTAGTAATCTGtt > 1:1379770/1‑66 (MQ=255)
tCGCCGTAGATCTGCGTGAAGTAGTAGTTTTTATCTGCAAACCAGCGATTAAGGTAGTAATCTGTTaa > 1:792933/1‑68 (MQ=255)
tCGCCGTAGATCTGCGTGAAGTAGTAGTTTTTATCTGCAAACCAGCGATTAAGGTAGTAATCTGTTaa > 1:1036842/1‑68 (MQ=255)
tCGCCGTAGATCTGCGTGAAGTAGTAGTTTTTATCTGCAAACCAGCGATTAAGGTAGTAATCTGTTa > 1:1897741/1‑67 (MQ=255)
tCGCCGTAGATCTGCGTGAAGTAGTAGTTTTTATCTGCAAACCAGCGATTAAGGTAGTAATCTGTTAAc > 1:1479517/1‑69 (MQ=255)
tCGCCGTAGATCTGCGTGAAGTAGTAGTTTTTATCTGCAAACCAGCGATTAAGGTAGTAATCTGTTAAc > 1:485617/1‑69 (MQ=255)
tCGCCGTAGATCTGCGTGAAGTAGTAGTTTTTATCTGCAAACCAGCGATTAAGGTAGTAATCTGTTAAc > 1:2015701/1‑69 (MQ=255)
tCGCCGTAGATCTGCGTGAAGTAGTAGTTTTTATCTGCAAACCAGCGATTAAGGTAGTAATCTGTTAAc > 1:2093053/1‑69 (MQ=255)
cTGCGTGAAGTAGTAGTTTTTATCTGCAAACCACCGATTAAGGTAGTAATCTGTTAACCATTTGCGcc > 1:2504239/1‑68 (MQ=255)
cTGCGTGAAGTAGTAGTTTTTATCTGCAAACCACCGATTAAGGTAGTAATCTGTTAACCATTCGCGcc > 1:2725512/1‑68 (MQ=255)
cTGCGTGAAGTAGTAGTTTTTATCTGCAAACCACCGATTAAGGTAGTAATCTGTTAACCATTCGCGCCa > 1:353204/1‑69 (MQ=255)
cTGCGTGAAGTAGTAGTTTTTATCTGCAAACCACCGATTAAGGTAGTAATCTGTTAACCATTCGCGCCa > 1:3418373/1‑69 (MQ=255)
cTGCGTGAAGTAGTAGTTTTTATCTGCAAACCACCGATTAAGGTAGTAATCTGTTAACCATTCGCGCCa > 1:2609669/1‑69 (MQ=255)
cTGCGTGAAGTAGTAGTTTTTATCTGCAAACCACCGATTAAGGTAGTAATCTGTTAACCATTCGCGCCa > 1:600487/1‑69 (MQ=255)
cTGCGTGAAGTAGTAGTTTTTATCTGCAAACCACCGATTAAGGTAGTAATCTGTTAACCATTCGCGCCa > 1:849101/1‑69 (MQ=255)
cTGCGTGAAGTAGTAGTTTTTATCTGCAAACCACCGATTAAGGTAGTAATCTGTTAACCATTCGCGCCa > 1:201286/1‑69 (MQ=255)
cTGCGTGAAGTAGTAGTTTTTATCTGCAAACCACCGATTAAGGTAGTAATCTGTTAACCATTCGCGCCa > 1:1556072/1‑69 (MQ=255)
cTGCGTGAAGTAGTAGTTTTTATCTGCAAACCACCGATTAAGGTAGTAATCTGTTAACCATTCGCGCCa > 1:1775580/1‑69 (MQ=255)
cTGAGTGAAGTAGTAGTTTTTATCTGCAAACCACCGATTAAGGTAGTAATCTGTTAACCATTCGCGCCa > 1:752234/1‑69 (MQ=255)
tGAAGTAGTAGTTTTTATCTGCAAACCAGCGATTAAGGTAGTAATCTGTTAACCATTCGCGCCAGCg < 1:1024681/67‑1 (MQ=255)
tGAAGTAGTAGTTTTTATCTGCAAACCAGCGATTAAGGTAGTAATCTGTTAACCATTCGCGCCAGCg < 1:1280889/67‑1 (MQ=255)
tGAAGTAGTAGTTTTTATCTGCAAACCAGCGATTAAGGTAGTAATCTGTTAACCATTCGCGCCAGCg < 1:1304027/67‑1 (MQ=255)
tGAAGTAGTAGTTTTTATCTGCAAACCAGCGATTAAGGTAGTAATCTGTTAACCATTCGCGCCAGCg < 1:376583/67‑1 (MQ=255)
tGAAGTAGTAGTTTTTATCTGCAAACCAGCGATTAAGGTAGTAATCTGTTAACCATTCGCGCCAGCg < 1:1451864/67‑1 (MQ=255)
tGAAGTAGTAGTTTTTATCTGCAAACCAGCGATTAAGGTAGTAATCTGTTAACCATTCGCGCCAGCg < 1:3322077/67‑1 (MQ=255)
tGAAGTAGTAGTTTTTATCTGCAAACCAGCGATTAAGGTAGTAATCTGTTAACCATTCGCGCCAGCg < 1:3193474/67‑1 (MQ=255)
tGAAGTAGTAGTTTTTATCTGCAAACCAGCGATTAAGGTAGTAATCTGTTAACCATTCGCGCCAGCg < 1:3077288/67‑1 (MQ=255)
tGAAGTAGTAGTTTTTATCTGCAAACCAGCGATTAAGGTAGTAATCTGTTAACCATTCGCGCCAGCg < 1:2934111/67‑1 (MQ=255)
tGAAGTAGTAGTTTTTATCTGCAAACCAGCGATTAAGGTAGTAATCTGTTAACCATTCGCGCCAGCg < 1:2904722/67‑1 (MQ=255)
tGAAGTAGTAGTTTTTATCTGCAAACCAGCGATTAAGGTAGTAATCTGTTAACCATTCGCGCCAGCg < 1:2048841/67‑1 (MQ=255)
tGAAGTAGTAGTTTTTATCTGCAAACCAGCGATTAAGGTAGTAATCTGTTAACCATTCGCGCCAGCg < 1:2276110/67‑1 (MQ=255)
tGAAGTAGTAGTTTTTATCTGCAAACCACCGATTAAGGTAGTAATCTGTTAACCATTCGCGCCAGCg < 1:3138565/67‑1 (MQ=255)
tGAAGTAGTAGTTTTTATCTGCAAACCACCGATTAAGGTAGTAATCTGTTAACCATTCGCGCCAGCg < 1:148939/67‑1 (MQ=255)
tGAAGTAGTAGTTTTTATCTGCAAACCACCGATTAAGGTAGTAATCTGTTAACCATTCGCGCCAGCg < 1:2463427/67‑1 (MQ=255)
agtagtTTTTATCTGCAAACCACCGATTAAGGTAGTAATCTGTTAACCATTCGCGCCAGCGAATAGTc > 1:3085287/1‑68 (MQ=255)
agtagtTTTTATCTGCAAACCACCGATTAAGGTAGTAATCTGTTAACCATTCGCGCCAGCGAATAGTc > 1:870927/1‑68 (MQ=255)
gtagtTTTTATCTGCAAACCACCGATTAAGGTAGTAATCTGTTAACCATTCGCGCCAGCGAATAGTc > 1:552037/1‑67 (MQ=255)
gtagtTTTTATCTGCAAACCACCGATTAAGGTAGTAATCTGTTAACCATTCGCGCCAGCGAATAGTc > 1:556030/1‑67 (MQ=255)
agtTTTTATCTGCAAACCAGCGATTAAGGTAGTAATCTGTTAACCATTCGCGCCAGCg < 1:1864919/58‑1 (MQ=255)
ttttATCTGCAAACCACCGATTAAGGTAGTAATCTGTTAACCATTCGCGCCAGCg < 1:902660/55‑1 (MQ=255)
tttATCTGCAAACCACCGATTAAGGTAGTAATCTg > 1:290862/1‑35 (MQ=255)
tttATCTGCAAACCACCGATTAAGGTAGTAATCTGTTAAc > 1:3218908/1‑40 (MQ=255)
tttATCTGCAAACCACCGATTAAGGTAGTAATCTGTTAAc > 1:2655950/1‑40 (MQ=255)
tttATCTGCAAACCACCGATTAAGGTAGTAATCTGTTAAc > 1:885649/1‑40 (MQ=255)
tttATCTGCAAACCACCGATTAAGGTAGTAATCTGTTAAc > 1:2280813/1‑40 (MQ=255)
tttATCTGCAAACCACCGATTAAGGTAGTAATCTGTTAACCATTCGCGCCAGCGAATAGTCAGTAGttt > 1:2762836/1‑69 (MQ=255)
|
ATCTGTATTTTTATGCTCGCCGTAGATCTGCGTGAAGTAGTAGTTTTTATCTGCAAACCACCGATTAAGGTAGTAATCTGTTAACCATTCGCGCCAGCGAATAGTCAGTAGTTT > minE/964044‑964157
|
| 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
