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 |
1,883,667 |
T→C |
35.8% |
Q272Q (CAA→CAG) |
rumA ← |
23S rRNA (uracil‑5)‑methyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,883,667 | 0 | T | C | 35.8%
| 48.6
/ 46.1
| 78 | Q272Q (CAA→CAG) | rumA | 23S rRNA (uracil‑5)‑methyltransferase |
| Reads supporting (aligned to +/- strand): ref base T (24/26); new base C (16/12); total (40/38) |
| Fisher's exact test for biased strand distribution p-value = 4.85e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CAGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGTTCACACCCGCATTGACCTGAATAAAATCGCGCGGGCTAAAAGTTAAGCGCAACCCGTTTGAGT > minE/1883604‑1883734
|
cAGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGtt < 1:2226747/69‑1 (MQ=255)
cAGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGtt < 1:268530/69‑1 (MQ=255)
cAGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGtt < 1:1827694/69‑1 (MQ=255)
cAGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGtt < 1:3208038/69‑1 (MQ=255)
cAGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGtt < 1:2602291/69‑1 (MQ=255)
cAGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGtt < 1:328782/69‑1 (MQ=255)
aGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGtt < 1:2826666/68‑1 (MQ=255)
aGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGtt < 1:1804816/68‑1 (MQ=255)
aGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGtt < 1:2695644/68‑1 (MQ=255)
tCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGTTcaca > 1:2602469/1‑69 (MQ=255)
tCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGTTcaca > 1:1624337/1‑69 (MQ=255)
gTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGTTCACACCCg < 1:2121798/69‑1 (MQ=255)
gTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGTTCACACCCg < 1:2042004/69‑1 (MQ=255)
cgcgATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGtt < 1:300710/58‑1 (MQ=255)
cgATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCTCTACCATTTTTTGGTTCACACCCGCATTg < 1:2519852/69‑1 (MQ=255)
cgATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCTCTACCATTTTTTGGTTCACACCCGCATTg < 1:2515780/69‑1 (MQ=255)
cgATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGTTCACACCCGCATTg < 1:2263245/69‑1 (MQ=255)
cgATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGTTCACACCCGCATTg < 1:3124318/69‑1 (MQ=255)
cgATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGTTCACACCCGCATTg < 1:2072153/69‑1 (MQ=255)
cgATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGTTCACACCCGCATTg < 1:1506049/69‑1 (MQ=255)
tCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGtt < 1:1574612/53‑1 (MQ=255)
cTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGTTCACACCCGCATTGAcc > 1:2771824/1‑68 (MQ=255)
cAGGTTCCACATCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTg > 1:1031326/1‑67 (MQ=255)
cAGGTTCCACATCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTg > 1:2880100/1‑67 (MQ=255)
cAGGTTCCACATCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTg > 1:2758002/1‑67 (MQ=255)
cAGGTTCCACATCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTg > 1:3152075/1‑67 (MQ=255)
cAGGTTCCACATCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTg > 1:662308/1‑67 (MQ=255)
cAGGTTCCACATCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTGa > 1:3079580/1‑68 (MQ=255)
cAGGTTCCACATCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTGa > 1:3008571/1‑68 (MQ=255)
cAGGTTCCACATCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTGa > 1:1720517/1‑68 (MQ=255)
cAGGTTCCACATCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTGa > 1:1640269/1‑68 (MQ=255)
cAGGTTCCACATCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTGa > 1:3212404/1‑68 (MQ=255)
cAGGTTCCACATCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTGa > 1:3220960/1‑68 (MQ=255)
cAGGTTCCACATCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTGa > 1:1424200/1‑68 (MQ=255)
cAGGTTCCACATCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTGa > 1:3434285/1‑68 (MQ=255)
cAGGTTCCACATCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTGa > 1:697053/1‑68 (MQ=255)
cAGGTTCCACATCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTGa > 1:908470/1‑68 (MQ=255)
cAGGTTCCACATCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTGa > 1:2742140/1‑68 (MQ=255)
gCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGtt < 1:3378823/43‑1 (MQ=255)
aTCCAGCCATTCCAACGCGCGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTGAATAAAATcgcg < 1:1105614/69‑1 (MQ=255)
aTCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTGAATAAAATcgcg < 1:687342/69‑1 (MQ=255)
aTCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTGAATAAAATcgcg < 1:3154999/69‑1 (MQ=255)
aTCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTGAATAAAATcgcg < 1:459159/69‑1 (MQ=255)
aTCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTGAATAAAATcgcg < 1:2977331/69‑1 (MQ=255)
aTCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTGAATAAAATcgcg < 1:2490703/69‑1 (MQ=255)
aTCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTGAATAAAATcgcg < 1:1576171/69‑1 (MQ=255)
aTCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTGAATAAAATcgcg < 1:2495664/69‑1 (MQ=255)
aTCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTGAATAAAATcgcg < 1:2781495/69‑1 (MQ=255)
tCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGTTCACACCCGCATTGACCTGAATAAAATcgcgc > 1:2910489/1‑69 (MQ=255)
tCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGTTCACACCCGCATTGACCTGAATAAAATcgcgc > 1:779165/1‑69 (MQ=255)
tCCAGCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTGAATAAAATcgcg < 1:1479676/68‑1 (MQ=255)
cAGCCATTCCAACGCACGCGCTACCATTTTTTGGTTCACACCCGCATTGACCTGAATAAAATCGCGCgg > 1:277281/1‑69 (MQ=255)
gCCATTCCAACGCACGCGCTACCATTTTCTGGTTCACACCCGCATTGACCTGAATAAAATcgcg < 1:284817/64‑1 (MQ=255)
aTTCCAACGCACTCGCTACCATTTTTTGGTTCACACCCGCATTGACCTGAATAAAATCGCGCGGGCTaa < 1:1348338/69‑1 (MQ=255)
aTTCCAACGCACGCGCTACCATTTTTTGGTTCACACCCGCATTGACCTGAATAAAATCGCGCGGGCTaa < 1:735606/69‑1 (MQ=255)
aTTCCAACGCACGCGCTACCATTTTTTGGTTCACACCCGCATTGACCTGAATAAAATCGCGCGGGCTaa < 1:3377137/69‑1 (MQ=255)
aTTCCAACGCACGCGCTACCATTTTTTGGTTCACACCCGCATTGACCTGAATAAAATCGCGCGGGCTaa < 1:982148/69‑1 (MQ=255)
aTTCCAACGCACGCGCTACCATTTTTTGGTTCACACCCGCATTGACCTGAATAAAATCGCGCGGGCTaa < 1:3153783/69‑1 (MQ=255)
aTTCCAACGCACGCGCTACCATTTTTTGGTTCACACCCGCATTGACCTGAATAAAATCGCGCGGGCTaa < 1:2430343/69‑1 (MQ=255)
ccAACGCACGCGCTACCATTTTTTGGTTCACACCCGCATTGCCCTGAATAAAATCGCGCGGGCTaaaa > 1:1160502/1‑68 (MQ=255)
ccAACGCACGCGCTACCATTTTTTGGTTCACACCCGCATTGACCTGAATAAAATCGCGCGGGCTaaaa > 1:503197/1‑68 (MQ=255)
ccAACGCACGCGCTACCATTTTTTGGTTCACACCCGCATTGACCTGAATAAAATCGCGCGGGCTaaaa > 1:1334923/1‑68 (MQ=255)
ccAACGCACGCGCTACCATTTTTTGGTTCACACCCGCATTGACCTGAATAAAATCGCGCGGGCTaaaa > 1:1813628/1‑68 (MQ=255)
ccAACGCACGCGCTACCATTTTTTGGTTCACACCCGCATTGACCTGAATAAAATCGCGCGGGCTaaaa > 1:1250144/1‑68 (MQ=255)
ccAACGCACGCGCTACCATTTTTTGGTTCACACCCGCATTGACCTGAATAAAATCGCGCGGGCTaaaa > 1:3160889/1‑68 (MQ=255)
ccAACGCACGCGCTACCATTTTTTGGTTCACACCCGCATTGACCTGAATAAAATCGCGCGGGCTaaaa > 1:3090776/1‑68 (MQ=255)
ccAACGCACGCGCTACCATTTTTTGGTTCACACCCGCATTGACCTGAATAAAATCGCGCGGGCTaaaa > 1:2346183/1‑68 (MQ=255)
ccAACGCACGCGCTACCATTTTTTGGTTCACACCCGCATTGACCTGAATAAAATCGCGCGGGCTaaaa > 1:964563/1‑68 (MQ=255)
cgcacgcGCTACCATTTTCTGGTTCACACCCGCATTGACCTGAATAAAATcgcg < 1:574066/54‑1 (MQ=255)
cgcgCTACCATTTTTTGGTTCACACCCGCATTGACCTGAATaaa > 1:747163/1‑44 (MQ=255)
cgcgCTACCATTTTTTGGTTCACACCCGCATTGACCTGAATaaa > 1:2605598/1‑44 (MQ=255)
cgcgCTACCATTTTTTGGTTCACACCCGCATTGACCTGAATaaa > 1:554436/1‑44 (MQ=255)
cgcgCTACCATTTTTTGGTTCACACCCGCATTGACCTGAATaaa > 1:3333558/1‑44 (MQ=255)
cgcgCTACCATTTTTTGGTTCACACCCGCATTGACCTGAATaaa > 1:1501810/1‑44 (MQ=255)
cgcgCTACCATTTTTTGGTTCACACCCGCATTGACCTGAATaaa > 1:1903958/1‑44 (MQ=255)
cgcgCTACCATTTTTTGGTTCACACCCGCATTGACCTGAATaaa > 1:2624252/1‑44 (MQ=255)
cgcgCTACCATTTTTTGGTTCACACCCGCATTGACATGAATaaa > 1:1626627/1‑44 (MQ=255)
aCCATTTTTTGGTTCACACCCGCATTGACCTGAATAAAATc > 1:2286758/1‑41 (MQ=255)
ttGGTTCACACCCGCATTGACCTGAATAAAATCGCGCGGGCTAAAAGTTAAGCGCAACCCGTTTGAGt < 1:159504/68‑1 (MQ=255)
ttGGTTCACACCCGCATTGACCTGAATAAAATCGCGCGGGCTAAAAGTTAAGCGCAACCCGTTTGAGt < 1:2874448/68‑1 (MQ=255)
|
CAGATCCAGTACGCGATCTTCAGGTTGCACATCCAGCCATTCCAACGCACGCGCTACCATTTTTTGGTTCACACCCGCATTGACCTGAATAAAATCGCGCGGGCTAAAAGTTAAGCGCAACCCGTTTGAGT > minE/1883604‑1883734
|
| 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
