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 |
|
A1 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,232,470 |
A→G |
16.0% |
L111L (TTG→CTG) |
ygjM ← |
predicted DNA‑binding transcriptional regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,232,470 | 0 | A | G | 16.0%
| 118.7
/ 16.3
| 50 | L111L (TTG→CTG) | ygjM | predicted DNA‑binding transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base A (29/13); new base G (4/4); total (33/17) |
| Fisher's exact test for biased strand distribution p-value = 4.19e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCGGGAGAAATGCCGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCGGAAAGGGTTAAACCATATTGATCCATA > W3110S.gb/3232400‑3232540
|
gCGGGAGAAATGCCGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCaa < 1:3628299/71‑1 (MQ=255)
gCGGGAGAAATGCCGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCaa < 1:200728/71‑1 (MQ=255)
gCGGGAGAAATGCCGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCaa < 1:2074074/71‑1 (MQ=255)
ggAGAAATGCCGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCaa < 1:3163305/68‑1 (MQ=255)
ggAGAAATGCCGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCaa < 1:289903/68‑1 (MQ=255)
ggAGAAATGCCGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCaa < 1:270749/68‑1 (MQ=255)
ggAGAAATGCCGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCaa < 1:2215239/68‑1 (MQ=255)
agaAATGCCGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAAcgc > 1:2621398/1‑71 (MQ=255)
aaaTGCCGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAGAACGCGt < 1:2797410/71‑1 (MQ=255)
aaaTGCCGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGt < 1:2379356/71‑1 (MQ=255)
aTGCCGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAGAACGCGTGa > 1:3413388/1‑71 (MQ=255)
aTGCCGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAGAACGCGTGa > 1:2832249/1‑71 (MQ=255)
aTGCCGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAGAACGCGTGa > 1:2729260/1‑71 (MQ=255)
aTGCCGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGa > 1:988304/1‑71 (MQ=255)
aTGCCGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGa > 1:721868/1‑71 (MQ=255)
tGCCGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGac < 1:2369153/71‑1 (MQ=255)
ccGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGa > 1:845499/1‑68 (MQ=255)
ccGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGa > 1:1355883/1‑68 (MQ=255)
gAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCa < 1:259109/71‑1 (MQ=255)
gcgTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGa < 1:2585470/70‑1 (MQ=255)
gCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACt > 1:1264670/1‑71 (MQ=255)
ttttttAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCaa < 1:2449962/42‑1 (MQ=255)
ttttttAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCaa < 1:1266858/42‑1 (MQ=255)
ttttAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAGAACGCGTGACACCATAGATTTACTGCCAAtt > 1:2348728/1‑71 (MQ=255)
tgtTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCgg > 1:573687/1‑68 (MQ=255)
ttCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCgg > 1:2385823/1‑66 (MQ=255)
ttCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCa < 1:3361629/68‑1 (MQ=255)
ccAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGa > 1:2965301/1‑46 (MQ=255)
ccAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGa > 1:1039700/1‑46 (MQ=255)
ccAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGa > 1:1218078/1‑46 (MQ=255)
ccAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGa > 1:555117/1‑46 (MQ=255)
ccAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCgg > 1:2269366/1‑64 (MQ=255)
ccAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCgg > 1:1398808/1‑64 (MQ=255)
ccAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCgg > 1:1578252/1‑64 (MQ=255)
ccAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCg > 1:2388467/1‑71 (MQ=255)
aGCGTTAATTTCCTCTTCCCGCTCAGAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCGGa < 1:2287024/71‑1 (MQ=255)
gCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCa < 1:3768293/53‑1 (MQ=255)
gCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCGGaa < 1:297347/71‑1 (MQ=255)
ttAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGc > 1:183346/1‑59 (MQ=255)
ttAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGc > 1:809088/1‑59 (MQ=255)
ttAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGc > 1:3339800/1‑59 (MQ=255)
tAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCGGAAAggg > 1:778534/1‑71 (MQ=255)
aaTTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCGGAAAGGGt > 1:3960535/1‑71 (MQ=255)
aTTTCCTCTTCCCGCTCAGAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCGGAAAGGGt < 1:3613891/70‑1 (MQ=255)
tttCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCGGAAAGGGTTa < 1:764164/71‑1 (MQ=255)
tCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCGGAAAGGGTTaaa > 1:2595217/1‑71 (MQ=255)
ttCCCGCTCAGAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCGGAAAGGGTTAAACCa < 1:2557027/69‑1 (MQ=255)
ttCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCGGAAAGGGTTAAACCa < 1:3756712/69‑1 (MQ=255)
cccGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGAt > 1:2927751/1‑50 (MQ=255)
cccGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCGGAAAGGGTTAAACCat < 1:372140/68‑1 (MQ=255)
cccGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCGGAAAGGGTTAAACCat < 1:2223104/68‑1 (MQ=255)
cccGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCGGAAAGGGTTAAACCATAtt > 1:649512/1‑71 (MQ=255)
cccGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCGGAAAGGGTTAAACCATAtt > 1:2110289/1‑71 (MQ=255)
cccGCTCAAAACGCGTGACACCATAGATTTACTGCCAACTTCCGGCAGATCGGAAAGGGTTAAACCat < 1:1964875/68‑1 (MQ=255)
cTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCGGAAAGGGTTAAACCATATTGATc < 1:2753943/71‑1 (MQ=255)
cAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCGGAAAGGGTTAAACCATATTg > 1:1219002/1‑66 (MQ=255)
cAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCGGAAAGGGTTAAACCATATTGa > 1:3496540/1‑67 (MQ=255)
cAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCGGAAAGGGTTAAACCATATTGa > 1:3491800/1‑67 (MQ=255)
cAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCGGAAAGGGTTAAACCATATTGa > 1:1236356/1‑67 (MQ=255)
aaaCGCGTGACACCATAGATTTACTTCCAATTTCCGGCAGATCGGAAAGGGTTAAACCATATTGATCCATa < 1:2649259/71‑1 (MQ=255)
|
GCGGGAGAAATGCCGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCGGAAAGGGTTAAACCATATTGATCCATA > W3110S.gb/3232400‑3232540
|
| 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
