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 |
435,666 |
T→C |
55.0% |
A146A (GCA→GCG) |
ybfF ← |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 435,666 | 0 | T | C | 55.0%
| 10.9
/ 46.1
| 60 | A146A (GCA→GCG) | ybfF | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (22/5); new base C (23/10); total (45/15) |
| Fisher's exact test for biased strand distribution p-value = 3.75e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.73e-01 |
AACAAAAGATTTCAGCAGAAACTGAATCACCCCTTCTTCATTAAGATGCTGGCGCATTATTGCTGCTGCTTGCTGGCGAGTTTGTGCGTCCGATTCACTGACCGCGTTGATAGCCGCAAAAATCTC > minE/435603‑435728
|
aacaaAAGATTTCAGCAGAAACTGAATCACCCCTTCTTCATTAAGGTGCTGGCGCATTATtgctgctgc > 1:1821053/1‑69 (MQ=255)
aacaaAAGATTTCAGCAGAAACTGAATCACCCCTTCTTCATTAAGATGCTGGCGCATTATtgctgctgc > 1:263422/1‑69 (MQ=255)
aacaaAAGATTTCAGCAGAAACTGAATCACCCCTTCTTCATTAAGATGCTGGCGCATTATtgctgctgc > 1:990399/1‑69 (MQ=255)
aacaaAAGATTTCAGCAGAAACTGAATCACCCCTTCTTCATTAAGATGCTGGCGCATTATtgctgctgc > 1:411683/1‑69 (MQ=255)
aacaaAAGATTTCAGCAGAAACTGAATCACCCCTTCTTCATTAAGATGCTGGCGCATTATtgctgctgc > 1:3352355/1‑69 (MQ=255)
aacaaAAGATTTCAGCAGAAACTGAATCACCCCTTCTTCATTAAGATGCTGGCGCATTATtgctgctgc > 1:3198036/1‑69 (MQ=255)
aacaaAAGATTTCAGCAGAAACTGAATCACCCCTTCTTCATTAAGATGCTGGCGCATTATtgctgctgc > 1:2290082/1‑69 (MQ=255)
aacaaAAGATTTCAGCAGAAACTGAATCACCCCTTCTTCATTAAGATGCTGGCGCATTATtgctgc > 1:1410178/1‑66 (MQ=255)
aaGATTTCAGCAGAAACTGAATCACCCCTTCTTCATTAAGATGCTGGCGCATTATtgctgct > 1:1831667/1‑62 (MQ=255)
aaGATTTCAGCAGAAACTGAATCACCCCTTCTTCATTAAGATGCTGGCGCATTATTGCTGCtgcttgct > 1:2180823/1‑69 (MQ=255)
aaGATTTCAGCAGAAACTGAATCACCCCTTCTTCATTAAGATGCTGGCGCATTATTGCTGCtgcttgct > 1:300334/1‑69 (MQ=255)
aaGATTTCAGCAGAAACTGAATCACCCCTTCTTCATTAAGATGCTGGCGCATTATTGCTGCtgcttgct > 1:2781371/1‑69 (MQ=255)
aaGATTTCAGCAGAAACTGAATCACCCCTTCTTCATTAAGATGCTGGCGCATTATTGCTGCtgcttgct > 1:637932/1‑69 (MQ=255)
aaGATTTCAGCAGAAACTGAATCACCCCTTCTTCATTAAGATGCTGGCGCATTATTGCTGCtgcttgc > 1:2543251/1‑68 (MQ=255)
aaGATTTCAGCAGAAACTGAATCACCCCTTCTTCATTAAGATGCTGGCGCATTATTGCTGCtgcttgc > 1:1835780/1‑68 (MQ=255)
gcagAAACTGAATCACCCCTTCTTCATTAAGATGCTGGCGCATTATTGCTGCTGCTTGCTGGCGAGtt < 1:555535/68‑1 (MQ=255)
aaCTGAATCACCCCTTCTTCATTAAGATGCTGGCGCATTATTGCTGCTGCTTGCTGGCGAGttt > 1:2506266/1‑64 (MQ=255)
aaCTGAATCACCCCTTCTTCATTAAGATGCTGGCGCATTATTGCTGCTGCTTGCTGGCGAGTTTGTGCg > 1:343916/1‑69 (MQ=255)
aaCTGAATCACCCCTTCTTCATTAAGATGCTGGCGCATTATTGCTGCTGCTTGCTGGCGAGTTTGTGCg > 1:2697338/1‑69 (MQ=255)
cttcATTAAGATGCTGGCGCATTATTGCCGCtgcttgct > 1:2676515/1‑39 (MQ=255)
cttcATTAAGATGCTGGCGCATTATTGCCGCTGCTTGCTGGCGTGtt > 1:869965/1‑47 (MQ=39)
cttcATTAAGATGCTGGCGCATTATTGCCGCTGCTTGCTGGCGTGTTTGTGCGTctg > 1:1775197/1‑55 (MQ=255)
cttcATTAAGATGCTGGCGCATTATTGCCGCTGCTTGCTGGCGTGTTTGTGCGTCTGAtt > 1:814097/1‑60 (MQ=255)
cttcATTAAGATGCTGGCGCATTATTGCCGCTGCTTGCTGGCGTGTTTGTGCGTCTGAt > 1:1840360/1‑59 (MQ=255)
cttcATTAAGATGCTGGCGCATTATTGCCGCTGCTTGCTGGCGTGTTTGTGCGTCTGATTCACTGActg > 1:1029594/1‑67 (MQ=255)
cttcATTAAGATGCTGGCGCATTATTGCCGCTGCTTGCTGGCGTGTTTGTGCGTCTGATTCACTGActg > 1:343495/1‑67 (MQ=255)
cttcATTAAGATGCTGGCGCATTATTGCCGCTGCTTGCTGGCGTGTTTGTGCGTCTGATTCACTGActg > 1:283873/1‑67 (MQ=255)
cttcATTAAGATGCTGGCGCATTATTGCCGCTGCTTGCTGGCGTGTTTGTGCGTCTGATTCACTGActg > 1:2744700/1‑67 (MQ=255)
cttcATTAAGATGCTGGCGCATTATTGCCGCTGCTTGCTGGCGTGTTTGTGCGTCTGATTCACTGActg > 1:1347215/1‑67 (MQ=255)
cttcATTAAGATGCTGGCGCATTATTGCCGCTGCTTGCTGGCGTGTTTGTGCGTCTGATTCACTGActg > 1:2226006/1‑67 (MQ=255)
cttcATTAAGATGCTGGCGCATTATTGCCGCTGCTTGCTGGCGTGTTTGTGCGTCTGATTCACTGActg > 1:337376/1‑67 (MQ=255)
cttcATTAAGATGCTGGCGCATTATTGCCGCTGCTTGCTGGCGTGTTTGTGCGTCTGATTCACTGActg > 1:539121/1‑67 (MQ=255)
cttcATTAAGATGCTGGCGCATTATTGCCGCTGCTTGCTGGCGTGTTTGTGCGTCTGATTCACTGActg > 1:181143/1‑67 (MQ=255)
cttcATTAAGATGCTGGCGCATTATTGCCGCTGCTTGCTGGCGTGTTTGTGCGTCTGATTCACTGActg > 1:687698/1‑67 (MQ=255)
cttcATTAAGATGCTGGCGCATTATTGCCGCTGCTTGCTGGCGTGTTTGTGCGTCTGATTCACTGActg > 1:1671225/1‑67 (MQ=255)
cttcATTAAGATGCTGGCGCATTATTGCCGCTGCTTGCTGGCGTGTTTGTGCGTCTGATTCACTGActg > 1:1497523/1‑67 (MQ=255)
cttcATTAAGATGCTGGCGCATTATTGCCGCTGCTTGCTGGCGTGTTTGTGCGTCTGATTCACTGActg > 1:1487041/1‑67 (MQ=255)
cttcATTAAGATGCTGGCGCATTATTGCCGCTGCTTGCTGGCGTGTTTGTGCGTCTGATTCACTGAct > 1:3321612/1‑67 (MQ=255)
cttcATTAAGATGCTGGCGCATTATTGCCGCTGCTTGCTGGCGTGTTTGTGCGTCTGATTCACTGAct > 1:1490669/1‑67 (MQ=255)
cttcATTAAGATGCTGGCGCATTATTGCCGCTGCTTGCTGGCGTGTTTGTGCGTCTGATTCACTGAct > 1:256404/1‑67 (MQ=255)
cttcATTAAGATGCTGGCGCATTATTGCCGCTGCTTGCTGGCGTGTTTGTGCGTCTGATTCACTGAct > 1:1410193/1‑67 (MQ=255)
cttcATTAAGATGCTGGCGCATTATTGCCGCTGCTTGCTGGCGTGTTTGTGCGTCTGATTAACTGAct > 1:1680903/1‑67 (MQ=255)
tcATTAAGATGCTGGCGCATTATTGCCGCTGCTTGCTGGCGTG‑TTGTGCGTCTGATTCACTGACtgcg < 1:939566/68‑1 (MQ=255)
cATTAAGATGCTGGCGCATTATTGCTGCTGCTTGCTGGCGAGTTTGTGCGTCCGATTCACTGACcgcg > 1:806109/1‑68 (MQ=255)
cATTAAGATGCTGGCGCATTATTGCTGCTGCTTGCTGGCGAGTTTGTGCGTCCGATTCACTGACcgcg > 1:2858807/1‑68 (MQ=255)
cATTAAGATGCTGGCGCATTATTGCTGCTGCTTGCTGGCGAGTTTGTGCGTCCGATTCACTGACcgcg > 1:2681675/1‑68 (MQ=255)
ttAAGATGCTGGCGCATTATTGCTGCTGCTTGCTGGCGAGTTTGTGCGTCCGATTCACTGACCGCGtt < 1:1617657/68‑1 (MQ=255)
ttAAGATGCTGGCGCATTATTGCCGCTGCTTGCTGGCGTGTTTGTGCGTCTGATTCACTGACtgcg < 1:1343416/66‑1 (MQ=255)
ttAAGATGCTGGCGCATTATTGCCGCTGCTTGCTGGCGTGTTTGTGCGTCTGATTCACTGACtgcg < 1:653625/66‑1 (MQ=255)
ttAAGATGCTGGCGCATTATTGCCGCTGCTTGCTGGCGTGTTTGTGCGTCTGATTCACTGACtgcg < 1:1716926/66‑1 (MQ=255)
ttAAGATGCTGGCGCATTATTGCCGCTGCTTGCTGGCGTGTTTGTGCGTCTGATTCACTGACtgcg < 1:560281/66‑1 (MQ=255)
ttAAGATGCTGGCGCATTATTGCCGCTGCTTGCTGGCGTGTTTGTGCGTCTGATTCACTGACtgcg < 1:466449/66‑1 (MQ=255)
ttAAGATGCTGGCGCATTATTGCCGCTGCTTGCTGGCGTGTTTGTGCGTCTGATTCACTGACtgcg < 1:462420/66‑1 (MQ=255)
ttAAGATGCTGGCGCATTATTGCCGCTGCTTGCTGGCGTGTTTGTGCGTCTGATTCACTGACtgcg < 1:1347190/66‑1 (MQ=255)
ttAAGATGCTGGCGCATTATTGCCGCTGCTTGCTGGCGTGTTTGTGCGTCTGATTCACTGACtgcg < 1:2289266/66‑1 (MQ=255)
ttAAGATGCTGGCGCATTATTGCCGCTGCTTGCTGGCGTGTTTGTGCGTCTGATTCACTGACtgcg < 1:2630284/66‑1 (MQ=255)
aaGATGCTGGCGCATTATTGCTGCTGCTTGCTGGCGAGTTTGTGCGTCCGATTCACTGACCGCGtt > 1:644266/1‑66 (MQ=255)
gATGCTGGCGCATTATTGCTGCTGCTTGCTGGCGAGTTTGTGCGTCCGATTCACTGACCGCGTTGATa < 1:838916/68‑1 (MQ=255)
gATGCTGGCGCATTATTGCTGCTGCTTGCTGGCGAGTTTGTGCGTCCGATTCACTGACCGCGTTGATa < 1:360311/68‑1 (MQ=255)
gATGCTGGCGCATTATTGCTGCTGCTTGCTGGCGAGTTTGTGCGTCCGATTCACTGACCGCGTTGATa < 1:677383/68‑1 (MQ=255)
ttattGATGCTGCTTGCTGGCGAGTTTGTGCGTCCGATTCACTGACCGCGTTGATAGCCGCAAAAAtct > 1:225877/1‑69 (MQ=255)
attGCTGCTGCTTGCTGGCGAGTTTGTGCGTCCGATTCACTGACCGCGTTGATAGCCGCAAAAAtctc > 1:1193360/1‑68 (MQ=255)
attGCTGCTGCTTGCTGGCGAGTTTGTGCGTCCGATTCACTGACCGCGTTGATAGCCGCAAAAAtctc > 1:92441/1‑68 (MQ=255)
attGCTGCTGCTTGCTGGCGAGTTTGTGCGTCCGATTCACTGACCGCGTTGATAGCCGCAAAAAtctc > 1:16481/1‑68 (MQ=255)
attGCTGCTGCTTGCTGGCGAGTTTGTGCGTCCGATTCACTGACCGCGTTGATAGCCGCAAAAAtctc > 1:1821557/1‑68 (MQ=255)
attGCTGCTGCTTGCTGGCGAGTTTGTGCGTCCGATTCACTGACCGCGTTGATAGCCGCAAAAAtctc > 1:2001632/1‑68 (MQ=255)
attGCTGCTGCTTGCTGGCGAGTTTGTGCGTCCGATTCACTGACCGCGTTGATAGCCGCAAAAAtctc > 1:209260/1‑68 (MQ=255)
attGCTGCTGCTTGCTGGCGAGTTTGTGCGTCCGATTCACTGACCGCGTTGATAGCCGCAAAAAtctc > 1:220209/1‑68 (MQ=255)
attGCTGCTGCTTGCTGGCGAGTTTGTGCGTCCGATTCACTGACCGCGTTGATAGCCGCAAAAAtctc > 1:3200257/1‑68 (MQ=255)
|
AACAAAAGATTTCAGCAGAAACTGAATCACCCCTTCTTCATTAAGATGCTGGCGCATTATTGCTGCTGCTTGCTGGCGAGTTTGTGCGTCCGATTCACTGACCGCGTTGATAGCCGCAAAAATCTC > minE/435603‑435728
|
| 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
