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 |
2,296,406 |
A→G |
31.9% |
G555G (GGT→GGC) |
katG ← |
catalase/hydroperoxidase HPI(I) |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,296,406 | 0 | A | G | 31.9%
| 59.3
/ 37.7
| 75 | G555G (GGT→GGC) | katG | catalase/hydroperoxidase HPI(I) |
| Reads supporting (aligned to +/- strand): ref base A (24/27); new base G (10/14); total (34/41) |
| Fisher's exact test for biased strand distribution p-value = 8.04e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.48e-01 |
CCGTCAGCAATTGGCTCCAGCAGCTCAAACATCTCAATGTCAGTCTGATCCTGACGCGCATCAACGCGACCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCTTTCTCAACACCAACCACA > minE/2296338‑2296472
|
ccGTCAGCAATTGGCTCCAGCAGCTCAAACATCTCAATGTCAGTCTGATCCTGACGCGCATCAACGCGa < 1:433191/69‑1 (MQ=255)
ccGTCAGCAATTGGCTCCAGCAGCTCAAACATCTCAATGTCAGTCTGATCCTGACGCGCATCAACGCGa < 1:2447050/69‑1 (MQ=255)
ccGTCAGCAATTGGCTCCAGCAGCTCAAACATCTCAATGTCAGTCTGATCCTGACGCGCATCAACGCGa < 1:149779/69‑1 (MQ=255)
ccGTCAGCAATTGGCTCCAGCAGCTCAAACATCTCAATGTCAGTCTGATCCTGACGCGCATCAACGCGa < 1:2728784/69‑1 (MQ=255)
cAATTGGCTCCAGCAGCTCAAACATCTCAATGTCAGTCTGATCCTGACGCGCATCAACGCGACCCGgc > 1:2158393/1‑68 (MQ=255)
cAATTGGCTCCAGCAGCTCAAACATCTCAATGTCAGTCTGATCCTGACGCGCATCAACGCGACCCGgc > 1:2369012/1‑68 (MQ=255)
cAATTGGCTCCAGCAGCTCAAACATCTCAATGTCAGTCTGATCCTGACGCGCATCAACGCGACCCGgc > 1:1872412/1‑68 (MQ=255)
cAATTGGCTCCAGCAGCTCAAACATCTCAATGTCAGTCTGATCCTGACGCGCATCAACGCGACCCGgc > 1:1822170/1‑68 (MQ=255)
cAATTGGCTCCAGCAGCTCAAACATCTCAATGTCAGTCTGATCCTGACGCGCATCAACGCGACCCGgc > 1:686972/1‑68 (MQ=255)
cAATTGGCTCCAGCAGCTCAAACATCTCAATGTCAGTCTGATCCTGACGCGCATCAACGCGACCCGgc > 1:137669/1‑68 (MQ=255)
aTTGGCTCCAGCAGCTCAAACATCTCAATGTCAGTCTGATCCTGACGCGCATCAACGCGACCCGGCGCa < 1:273754/69‑1 (MQ=255)
aTTGGCTCCAGCAGCTCAAACATCTCAATGTCAGTCTGATCCTGACGCGCATCAACGCGACCCGGCGCa < 1:762956/69‑1 (MQ=255)
aTTGGCTCCAGCAGCTCAAACATCTCAATGTCAGTCTGATCCTGACGCGCATCAACGCGACCCGGCGCa < 1:803238/69‑1 (MQ=255)
aTTGGCTCCAGCAGCTCAAACATCTCAATGTCAGCCTGATCCTGACGCGCATCAACGCGACCCGGCGCa < 1:2314606/69‑1 (MQ=255)
ttGGCTCCAGCAGCTCAAACATCTCAATGTCAGTCTGATCCTGACGCGCATCAACGCGACCTGGCGCa < 1:441465/68‑1 (MQ=255)
ttGGCTCCAGCAGCTCAAACATCTCAATGTCAGTCTGATCCTGACGCGCATCAACGCGACCCGGCGCa < 1:1193638/68‑1 (MQ=255)
gcTCAAACATCTCAATGTCAGTCTGATCCTGACGCGCATCAACGCGACCCGGCGCAAACGGTACATGaa < 1:1489996/69‑1 (MQ=255)
tcAATGTCTGTCTGATCCTGACGCGCATCAACGCGACCCGGCGCAAACGGTACATg < 1:680742/56‑1 (MQ=255)
aaTGTCAGTCTGATCCTGACGCGCATCAACGCGACCCGGCGCa > 1:2830020/1‑43 (MQ=255)
aaTGTCAGTCTGATCCTGACGCGCATCAACGCGACCCGGCGCa > 1:1074864/1‑43 (MQ=255)
aaTGTCAGTCTGATCCTGACGCGCATCAACGCGACCCGGCGCa > 1:385370/1‑43 (MQ=255)
aaTGTCAGTCTGATCCTGACGCGCATCAACGCGACCCGGCGCa > 1:1978040/1‑43 (MQ=255)
aaTGTCAGTCTGATCCTGACGCGCATCAACGCGACCCGGCGCa > 1:2300201/1‑43 (MQ=255)
tCAGTCTGATCCTGACGCGCATCAACGCGACCCGGCGCAAACGGTACATGAATGCTCAAACCTgcggcg > 1:894973/1‑69 (MQ=255)
tCAGTCTGATCCTGACGCGCATCAACGCGACCCGGCGCAAACGGTACATGAATGCTCAAACCTgcggcg > 1:2287279/1‑69 (MQ=255)
tcaTCCTGACGCGCATCAACGCGACCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGc > 1:1117798/3‑68 (MQ=255)
tGATCCTGACGCGCATCAACGCGACCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCg > 1:3033686/1‑69 (MQ=255)
tGATCCTGACGCGCATCAACGCGACCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCg > 1:1741586/1‑69 (MQ=255)
tCCTGACGCGCATCAACGCGGCCCGGCGCAAACGGTACATGAATGc > 1:614155/1‑46 (MQ=255)
tCCTGACGCGCATCAACGCGGCCCGGCGCAAACGGTACATGAATGc > 1:3134530/1‑46 (MQ=255)
tCCTGACGCGCATCAACGCGGCCCGGCGCAAACGGTACATGAATGc > 1:3414982/1‑46 (MQ=255)
tCCTGACGCGCATCAACGCGGCCCGGCGCAAACGGTACATGAATGc > 1:690814/1‑46 (MQ=255)
tCCTGACGCGCATCAACGCGGCCCGGCGCAAACGGTACATGAATGc > 1:2613194/1‑46 (MQ=255)
tCCTGACGCGCATCAACGCGGCCCGGCGCAAACGGTACATGAATGc > 1:310717/1‑46 (MQ=255)
tCCTGACGCGCATCAACGCGGCCCGGCGCAAACGGTACATGAATGc > 1:870127/1‑46 (MQ=255)
tCCTGACGCGCATCAACGCGGCCCGGCGCAAACGGTACATGAATGc > 1:293760/1‑46 (MQ=255)
tCCTGACGCGCATCAACGCGGCCCGGCGCAAACGGTACATGAATGc > 1:906072/1‑46 (MQ=255)
tCCTGACGCGCATCAACGCGGCCCGGCGCAAACGGTACATGAATGc > 1:1103380/1‑46 (MQ=255)
cgtGACGCGCATCAACGCGGCCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCtt < 1:2985457/67‑1 (MQ=255)
ccTGACGCGCATCAACGCGGCCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCtt < 1:2961765/69‑1 (MQ=255)
ccTGACGCGCATCAACGCGGCCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCtt < 1:3342105/69‑1 (MQ=255)
ccTGACGCGCATCAACGCGGCCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCtt < 1:3008953/69‑1 (MQ=255)
ccTGACGCGCATCAACGCGGCCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCtt < 1:516740/69‑1 (MQ=255)
ccTGACGCGCATCAACGCGGCCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCtt < 1:285820/69‑1 (MQ=255)
ccTGACGCGCATCAACGCGGCCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCtt < 1:1020425/69‑1 (MQ=255)
ccTGACGCGCATCAACGCGGCCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCtt < 1:2400823/69‑1 (MQ=255)
ccTGACGCGCATCAACGCGGCCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCtt < 1:224266/69‑1 (MQ=255)
ccTGACGCGCATCAACGCGGCCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCtt < 1:2100166/69‑1 (MQ=255)
ccTGACGCGCATCAACGCGGCCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCtt < 1:2045484/69‑1 (MQ=255)
ccTGACGCGCATCAACGCGGCCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCtt < 1:1927734/69‑1 (MQ=255)
ccTGACGCGCATCAACGCGGCCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCtt < 1:829789/69‑1 (MQ=255)
ccTGACGCGCATCAACGCGACCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCt < 1:2808613/68‑1 (MQ=255)
ccTGACGCGCATCAACGCGACCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCt < 1:994929/68‑1 (MQ=255)
ccTGACGCGCATCAACGCGACCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCt < 1:1647578/68‑1 (MQ=255)
ccTGACGCGCATCAACGCGACCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCt < 1:1696277/68‑1 (MQ=255)
cTGACGCGCATCAACGCGGCCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCtt < 1:579049/68‑1 (MQ=255)
cTGACGCGCATCAACGCGACCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCt < 1:3241502/67‑1 (MQ=255)
cTGACGCGCATCAACGCGACCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCt < 1:187665/67‑1 (MQ=255)
gcgcATCAACGCGACCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCTTtctc > 1:495223/1‑67 (MQ=255)
gcgcATCAACGCGACCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCTTTCTCaa > 1:3013705/1‑69 (MQ=255)
gcgcATCAACGCGACCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCTTTCTCaa > 1:665671/1‑69 (MQ=255)
gcgcATCAACGCGACCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCTTTCTCaa > 1:2837961/1‑69 (MQ=255)
gcgcATCAACGCGACCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCTTTCTCaa < 1:3022405/69‑1 (MQ=255)
gcgcATCAACGCGACCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCTTTCTCaa > 1:2961763/1‑69 (MQ=255)
aaCGCGACCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCttt > 1:760459/1‑57 (MQ=255)
aaCGCGACCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCTTtctc < 1:754371/60‑1 (MQ=255)
aaCGCGACCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCTTtctc < 1:1073523/60‑1 (MQ=255)
aaCGCGACCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCTTtctc < 1:1220481/60‑1 (MQ=255)
aaCGCGACCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCTTtctc < 1:1359476/60‑1 (MQ=255)
aaCGCGACCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCTTtctc < 1:2613097/60‑1 (MQ=255)
aaCGCGACCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCTTtctc < 1:1664401/60‑1 (MQ=255)
aaCGCGACCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCTTtctc < 1:2937849/60‑1 (MQ=255)
aaCGCGACCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCTTtctc < 1:2145877/60‑1 (MQ=255)
aaCGCGACCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCTTTCTCAACaccaac > 1:2111436/1‑69 (MQ=255)
aaCGCGACCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCTTTCTCAACaccaac > 1:1237167/1‑69 (MQ=255)
cgACCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCTTTCTCAACACCAACcaca < 1:3278934/69‑1 (MQ=255)
cgACCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCTTTCTCAACACCAACcaca < 1:1137828/69‑1 (MQ=255)
cgACCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCTTTCTCAACACCAACcaca < 1:112991/69‑1 (MQ=255)
cgACCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCTTTCTCAACACCAACcaca < 1:2830964/69‑1 (MQ=255)
|
CCGTCAGCAATTGGCTCCAGCAGCTCAAACATCTCAATGTCAGTCTGATCCTGACGCGCATCAACGCGACCCGGCGCAAACGGTACATGAATGCTCAAACCTGCGGCGCTTGCGGCTTTCTCAACACCAACCACA > minE/2296338‑2296472
|
| 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
