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 F17 I0 R2
|
276 |
45.3 |
3729697 |
93.0% |
3468618 |
60.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,232,470 |
A→G |
11.8% |
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 | 11.8%
| 133.7
/ 10.2
| 51 | L111L (TTG→CTG) | ygjM | predicted DNA‑binding transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base A (19/26); new base G (2/4); total (21/30) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.79e-01 |
AGAAATGCCGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCGGAAAGGGTTAAACCATATTG > W3110S.gb/3232405‑3232533
|
agaAATGCCGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCaa > 1:2187867/1‑66 (MQ=255)
agaAATGCCGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCaa > 1:3057224/1‑66 (MQ=255)
agaAATGCCGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAAc > 1:2241266/1‑69 (MQ=255)
agaAATGCCGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAAc > 1:3248534/1‑69 (MQ=255)
agaAATGCCGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAAc > 1:177869/1‑69 (MQ=255)
agaAATGCCGAATCGCGTTGCCAATTTTTAAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAAc > 1:2363230/1‑69 (MQ=255)
aTGCCGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGt > 1:2902515/1‑69 (MQ=255)
gCCGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAGAACGCGTGa > 1:1850850/1‑69 (MQ=255)
gCCGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGa > 1:3442809/1‑69 (MQ=255)
ccGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAGAACGCGt < 1:3119701/66‑1 (MQ=255)
ccGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAGAACGCGt < 1:1994978/66‑1 (MQ=255)
ccGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAGAACGCGt < 1:394589/66‑1 (MQ=255)
aTCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCa < 1:3125608/69‑1 (MQ=255)
aTCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCa < 1:1487871/69‑1 (MQ=255)
aTCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCa < 1:899556/69‑1 (MQ=255)
gTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGaca > 1:1134435/1‑61 (MQ=255)
gTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGaca > 1:2329651/1‑61 (MQ=255)
ttGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGAtt < 1:632607/69‑1 (MQ=255)
ttGCCAA‑TTTTTATCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGAttt < 1:3232920/69‑1 (MQ=255)
tGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGAttt < 1:2881971/69‑1 (MQ=255)
tGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGAtt < 1:2504050/68‑1 (MQ=255)
gCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGAttt < 1:2757215/68‑1 (MQ=255)
gCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTa > 1:2478315/1‑69 (MQ=255)
gCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTa > 1:3305910/1‑69 (MQ=255)
gCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTa > 1:1807233/1‑69 (MQ=255)
gCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTa > 1:1829205/1‑69 (MQ=255)
aTTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGacac > 1:1913341/1‑55 (MQ=255)
ttttttAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCaa < 1:2976099/42‑1 (MQ=255)
tttttAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCa > 1:2721091/1‑69 (MQ=255)
tttttAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCa < 1:1816134/69‑1 (MQ=255)
tttttAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCa < 1:1562651/69‑1 (MQ=255)
ttCCAGCGTTAATTTCCTCTTCCCGCTCAGAACGCGTGACACCATAGATTTACTGCCAATTTcc > 1:812059/1‑64 (MQ=255)
cGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATATAtt < 1:63542/44‑1 (MQ=255)
gTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGAtt < 1:1491385/43‑1 (MQ=255)
gTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGAtt < 1:3640598/43‑1 (MQ=255)
gTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGAtt < 1:3626453/43‑1 (MQ=255)
gTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGAtt < 1:639339/43‑1 (MQ=255)
aaTTTCCTCTTCCCTCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCGGAAAgg > 1:983660/1‑69 (MQ=255)
tCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCa > 1:355347/1‑44 (MQ=255)
tCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCa > 1:2661297/1‑44 (MQ=255)
tCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCGGAAAg > 1:3043348/1‑64 (MQ=255)
tCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCGGAAAGGGTTa < 1:3006109/69‑1 (MQ=255)
ccTCTTCCCGCTCAAAACGCGTGACACCATAGAtt < 1:497798/35‑1 (MQ=255)
ccTCTTCCCGCTCAAAACGCGTGACACCATAGAtt < 1:278175/35‑1 (MQ=255)
ctTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCGGAAAGGGTTAAAcc < 1:1064111/69‑1 (MQ=255)
ctTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCGGAAAGGGTTAAAc < 1:3203378/68‑1 (MQ=255)
cccGCTCAGAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCGGAAAGGGTTAAACCa < 1:2148771/67‑1 (MQ=255)
cccGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCGGAAAGGGTTAAACCata > 1:3116042/1‑69 (MQ=255)
cccGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCGGAAAGGGTTAAACCa < 1:1559658/67‑1 (MQ=255)
cccGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCGGAAAGGGTTAAACCa < 1:1884865/67‑1 (MQ=255)
cccGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCGGAAAGGGTTAAACCa < 1:2497426/67‑1 (MQ=255)
gCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCGGAAAGGGTTAAACCATATTg < 1:420917/69‑1 (MQ=255)
gCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCGGAAAGGGTTAAACCATATTg < 1:945513/69‑1 (MQ=255)
cAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCGGAAAGGGTTAAACCat < 1:3614459/62‑1 (MQ=255)
|
AGAAATGCCGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCGGAAAGGGTTAAACCATATTG > W3110S.gb/3232405‑3232533
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
