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 F8 I0 R2
|
296 |
77.6 |
4260404 |
88.1% |
3753415 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,834,094 |
A→G |
33.3% |
D65G (GAT→GGT) |
ygbM → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,834,094 | 0 | A | G | 33.3%
| 72.7
/ 58.3
| 63 | D65G (GAT→GGT) | ygbM | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (22/20); new base G (8/13); total (30/33) |
| Fisher's exact test for biased strand distribution p-value = 4.23e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CCTGCAAATCCAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGCACACGCAGACA > minE/1834026‑1834159
|
ccTGCAAATCCAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGgta < 1:1889291/71‑1 (MQ=255)
ccTGCAAATCCAAAAGCAACTGGAGCAAAACCATCTGACACTCGCGCTGTGCAATACCGCTCCCGGAGgta < 1:1995791/71‑1 (MQ=255)
tGCAAATCCAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGgtat > 1:1703342/1‑70 (MQ=255)
tGCAAATCCAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGatat > 1:3992672/1‑70 (MQ=255)
tGCAAATCCAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGatat > 1:2838729/1‑70 (MQ=255)
gCAAATCCAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATAtt > 1:19860/1‑70 (MQ=255)
cAAATCCAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGGTAtt < 1:1268010/69‑1 (MQ=255)
cAAATCCAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATAtt < 1:978731/69‑1 (MQ=255)
cAAATCCAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATAtt < 1:1857101/69‑1 (MQ=255)
cAAATCCAAAAGCAAATGGAGCAAAACCATCTGAGACTGGCGCTGTTCAATACCGCTCCCGGAGATAtt < 1:102885/69‑1 (MQ=255)
ccAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGgaga > 1:176224/1‑60 (MQ=255)
ccAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGGTATTAATGCgg > 1:3844107/1‑71 (MQ=255)
cAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCggg > 1:3050709/1‑71 (MQ=255)
cAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCggg > 1:3242364/1‑71 (MQ=255)
aaaGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCggggg < 1:897529/71‑1 (MQ=255)
aaGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCggggg > 1:60980/1‑70 (MQ=255)
aGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGGTATTAATGCgg > 1:1764193/1‑66 (MQ=255)
aGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGGTATTAATGCgg > 1:3502976/1‑66 (MQ=255)
aGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGTaa > 1:2696666/1‑71 (MQ=255)
cTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGGTATTaa < 1:3562751/56‑1 (MQ=255)
cTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGGTATTaa < 1:1141773/56‑1 (MQ=255)
cTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGGTATTaa < 1:699248/56‑1 (MQ=255)
cTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGGTATTaa < 1:611859/56‑1 (MQ=255)
aGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTa < 1:1911740/71‑1 (MQ=255)
aGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTa < 1:2036527/71‑1 (MQ=255)
aGCAAAACCATCTGACACTGGCGCAGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTa < 1:481653/71‑1 (MQ=255)
gCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGGTATTAATGCGGGGGAATGGGGa < 1:2027651/67‑1 (MQ=255)
gCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGGTATTAATGCGGGGGAATGGGGa < 1:1535504/67‑1 (MQ=255)
gCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGGTATTAATGCGGGGGAATGGGGa < 1:4169535/67‑1 (MQ=255)
gCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTAt < 1:694394/71‑1 (MQ=255)
aaaaCCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGGTATTAATGCGGGGGAATGGGGATTATcc < 1:3464214/71‑1 (MQ=255)
aCCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGGTATTAATGCg > 1:2365559/1‑50 (MQ=255)
aTCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATg < 1:3889604/45‑1 (MQ=255)
aTCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATg < 1:3702437/45‑1 (MQ=255)
aTCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATg < 1:1137914/45‑1 (MQ=255)
cTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGaa > 1:2398858/1‑51 (MQ=255)
tGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTccc > 1:1801727/1‑71 (MQ=255)
tGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTccc > 1:3112606/1‑71 (MQ=255)
tGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTcc > 1:3161035/1‑70 (MQ=255)
acacTGGCGCTGTTCAATACCGCTCCCGGAGGTATTAATGCGGGGGAATGGGGATTATCCGCACTTcc < 1:23513/68‑1 (MQ=255)
acacTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTcc < 1:3549487/68‑1 (MQ=255)
acacTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCg < 1:1406020/70‑1 (MQ=255)
acacTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCg < 1:1358254/70‑1 (MQ=255)
tcTGGCGCTGTTCAATACCGCTCCCGGAGGTATTAATGCGGGGGAATGGGGATTATc < 1:1877379/56‑1 (MQ=40)
gcgcTGTTCAATACCGCTCCCGGAGGTATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGt < 1:2791910/69‑1 (MQ=255)
gcgcTGTTCAATACCGCTCCCGGAGGTATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGt > 1:3223607/1‑69 (MQ=255)
gcgcTGTTCAATACCGCTCCCGGAGGTATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGt > 1:2363006/1‑69 (MQ=255)
gTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCg < 1:2637958/50‑1 (MQ=255)
gTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCAc > 1:3323195/1‑70 (MQ=255)
cAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAg > 1:401933/1‑71 (MQ=255)
tACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGcac < 1:3688205/71‑1 (MQ=255)
tACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGcac < 1:1400621/71‑1 (MQ=255)
tACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGcac < 1:537609/71‑1 (MQ=255)
aCCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGcaca > 1:1116676/1‑71 (MQ=255)
aCCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGcaca > 1:2265463/1‑71 (MQ=255)
ccGCTCCCGGAGGTATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGCacac > 1:1114847/1‑71 (MQ=255)
ccGCTCCCGGAGGTATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGCacac > 1:3790594/1‑71 (MQ=255)
ccGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGcaca > 1:4140442/1‑70 (MQ=255)
ccGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGcaca > 1:217774/1‑70 (MQ=255)
ccGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGCacac > 1:326595/1‑71 (MQ=255)
cGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGCACACg > 1:1988692/1‑71 (MQ=255)
cGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGCACACg > 1:3111596/1‑71 (MQ=255)
cTCCCGGAGGTATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGCACACGCa < 1:3831183/71‑1 (MQ=255)
cTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGCacac > 1:1538280/1‑68 (MQ=255)
cTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGCACACg > 1:58409/1‑69 (MQ=255)
cTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGCACACg > 1:17023/1‑69 (MQ=255)
cTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGCACACg > 1:3326552/1‑69 (MQ=255)
cGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGCACACGCAGACa < 1:614809/71‑1 (MQ=255)
cGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGCACACGCAGACa < 1:1464251/71‑1 (MQ=255)
|
CCTGCAAATCCAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGCACACGCAGACA > minE/1834026‑1834159
|
| 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
