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 F21 I0 R1
|
476 |
35.3 |
2812105 |
96.7% |
2719305 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,431,950 |
A→G |
76.9% |
V52A (GTT→GCT) |
yjfZ ← |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,431,950 | 0 | A | G | 76.9%
| 103.5
/ 27.8
| 52 | V52A (GTT→GCT) | yjfZ | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (5/7); new base G (15/25); total (20/32) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.60e-01 |
AGCATTACACCTCGTCGCTAACTTATTGAATGCTTGCCAGTCTGAGAGATCTAGTTTGTGGATCTCAACAGTACGTCTGCCATCGCAATTATGATCTCTTCCACGATTTGAAAGTAATGTAGCGCGTGCG > W3110S.gb/4431883‑4432012
|
aGCATTACACCTCGTCGCTAACTTATTGAATGCTTGCCAGTCTGAGAGATCTAGTTTGTGGATCTcagcag < 1:357964/71‑1 (MQ=255)
aGCATTACACCTCGTCGCTAACTTATTGAATGCTTGCCAGTCTGAGAGATCTAGTTTGTGGATCTcagcag < 1:2359543/71‑1 (MQ=255)
aGCATTACACCTCGTCGCTAACTTATTGAATGCTTGCCAGTCTGAGAGATCTAGTTTGTGGATCTcagcag > 1:1670515/1‑71 (MQ=255)
gCATTACACCTCGTCGCTAACTTATTGAATGCTTGCCAGTCTGAGAGATCTAGTTTGTGGATCTCAGCAGt < 1:114301/71‑1 (MQ=255)
gCATTACACCTCGTCGCTAACTTATTGAATGCTTGCCAGTCTGAGAGATCTAGTTTGTGGATCTCAGCAGt < 1:829767/71‑1 (MQ=255)
aTTACACCTCGTCGCTAACTTATTGAATGCTTGCCAGTCTGAGAGATCTAGTTTGTGGATCTCAGCAGTAc < 1:2229754/71‑1 (MQ=255)
ttACACCTCGTCGCTAACTTATTGAATGCTTGCCAGTCTGAGAGATCTAGTTTGTGGATCTCAGCAGTACg < 1:1483917/71‑1 (MQ=255)
tACACCTCGTCGCTAACTTATTGAATGCTTGCCAGTCTGAGAGATCTAGTTTGTGGATCTCAGCAGTACg < 1:1644111/70‑1 (MQ=255)
acacCTCGTCGCTAACTTATTGAATGCTTGCCAGTCTGAGAGATCTAGTTTGTGGATCTcagcag > 1:118145/1‑65 (MQ=255)
acacCTCGTCGCTAACTTATTGAATGCTTGCCAGTCTGAGAGATCTAGTTTGTGGATCTcagcag > 1:991867/1‑65 (MQ=255)
acacCTCGTCGCTAACTTATTGAATGCTTGCCAGTCTGAGAGATCTAGTTTGTGGATCTcagcag > 1:1476687/1‑65 (MQ=255)
acacCTCGTCGCTAACTTATTGAATGCTTGCCAGTCTGAGAGATCTAGTTTGTGGATCTCAGCa > 1:127349/1‑64 (MQ=255)
acacCTCGTCGCTAACTTATTGAATGCTTGCCAGTCTGAGAGATCTAGTTTGTGGATCTCAGCa > 1:1047676/1‑64 (MQ=255)
acacCTCGTCGCTAACTTATTGAATGCTTGCCAGTCTGAGAGATCTAGTTTGTGGATCTCAGCAGTACGTc > 1:1600908/1‑71 (MQ=255)
acacCTCGTCGCTAACTTATTGAATGCTTGCCAGTCTGAGAGATCTAGTTTGTGGATCTCAGCAGTACGTc > 1:2125744/1‑71 (MQ=255)
acacCTCGTCGCTAACTTATTGAATGCTTGCCAGTCTGAGAGATCTAGTTTGTGGATCTCAACAGTACGTc > 1:998308/1‑71 (MQ=255)
tcgCTAACTTATTGAATGCTTGCCAGTCTGAGAGATCTAGTTTGTGGATCTCAGCAGTACg < 1:2189933/61‑1 (MQ=255)
gCTAACTTATTGAATGCTTGCCAGTCTGAGAGATCTAGTTTGTGGATCTCAACAGTACGTCTGCCATCGc < 1:1656478/70‑1 (MQ=255)
gCTAACTTATTGAATGCTTGCCAGTCTGAGAGATCTAGTTTGTGGATCTCAACAGTACGTCTGCCATCGc < 1:753742/70‑1 (MQ=255)
aCTTATTGAATGCTTGCCAGTCTGAGAGATCTAGTTTGTGGATCTCAACAGTACGTCTGCCATCGCAAt < 1:2536522/69‑1 (MQ=255)
cTTATTGAATGCTTGCCAGTCTGAGAGATCTAGTTTGTGGATCTCAGCAGTACg > 1:1508152/1‑54 (MQ=255)
cTTATTGAATGCTTGCCAGTCTGAGAGATCTAGTTTGTGGATCTCAACAGTACGTCTGCCAt > 1:1544555/1‑62 (MQ=255)
cTTATTGAATGCTTGCCAGTCTGAGAGATCTAGTTTGTGGATCTCAACAGTACGTCTGCCAt > 1:596072/1‑62 (MQ=255)
cTTATTGAATGCTTGCCAGTCTGAGAGATCTAGTTTGTGGATCTCAACAGTACGTCTGCCAt > 1:2585342/1‑62 (MQ=255)
cTTATTGAATGCTTGCCAGTCTGAGAGATCTAGTTTGTGGATCTCAACAGTACGTCTGCCAt > 1:1772942/1‑62 (MQ=255)
tATTGAATGCTTGCCAGTCTGAGAGATCTAGTTTGTGGATCTCAGCAGTACGTCTGCCATCGCAAtt < 1:1116/67‑1 (MQ=255)
tATTGAATGCTTGCCAGTCTGAGAGATCTAGTTTGTGGATCTCAGCAGTACGTCTGCCATCGCAATTATGa > 1:1514994/1‑71 (MQ=255)
tATTGAATGCTTGCCAGTCTGAGAGATCTAGTTTGTGGATCTCAGCAGTACGTCTGCCATCGCAATTATGa > 1:31712/1‑71 (MQ=255)
tATTGAATGCTTGCCAGTCTGAGAGATCAAGTTTGTGGATCTCAGCAGTACGTCTGCCATCGCAAtt < 1:139264/67‑1 (MQ=255)
aTTGAATGCTTGCCAGTCTGAGAGATCTAGTTTGTGGATCTCAGCAGTACGTCTGCCATCGCAATTATg < 1:2350364/69‑1 (MQ=255)
ttGAATGCTTGCCAGTCTGAGAGATCTAGTTTGTGGATCTCAGCAGt < 1:567479/47‑1 (MQ=255)
tGAATGCTTGCCAGTCTGAGAGATCTAGTTTGTGGATCTCAGCAGTa > 1:464271/1‑47 (MQ=255)
aaTGCTTGCCAGTCTGAGAGATCTAGTTTGTGGATCTCAGCAGTACGTCTGCCATCGCAATTATGATctct < 1:205245/71‑1 (MQ=255)
tGCTTGCCAGTCTGAGAGATCTAGTTTGTGGATCTCAGCAGTACg < 1:2126794/45‑1 (MQ=255)
cTTGCCAGTCTGAGAGATCTAGTTTGTGGATCTCAGCAGTACGTCTGCCATCGCAAt > 1:47272/1‑57 (MQ=255)
ccAGTCTGAGAGATCTAGTTTGTGGATCTCAACAGTACGTCTGCCATCGCAATTATGATCTCTTCCACGAt < 1:1188328/71‑1 (MQ=255)
tCTGAGAGATCTAGTTTGTGGATCTCAGCAGTACGTCTGCCATCGCAATTATGAtct < 1:1666432/57‑1 (MQ=255)
tCTGAGAGATCTAGTTTGTGGATCTCAGCAGTACGTCTGCCATCGCAATTATGATCTCTTCCACGATTTGa < 1:2086760/71‑1 (MQ=255)
cTGAGAGATCTAGTTTGTGGATCTCAGCAGTACGTCTGCCATCGCAATTATGAt < 1:1592644/54‑1 (MQ=255)
tGAGAGATCTAGTTTGTGGATCTCAGCAGTACGTCTGCCATCGCAATTa > 1:2783168/1‑49 (MQ=255)
tGAGAGATCTAGTTTGTGGATCTCAGCAGTACGTCTGCCATCGCAATTATGAt > 1:2381571/1‑53 (MQ=255)
tGAGAGATCTAGTTTGTGGATCTCAGCAGTACGTCTGCCATCGCAATTATGATCTCTTCCACGATTTGa < 1:2017536/69‑1 (MQ=255)
tGAGAGATCTAGTTTGTGGATCTCAGCAGTACGTCTGCCATCGCAATTATGATCTCTTCCACGATTTGa > 1:2425610/1‑69 (MQ=255)
gagaTCTAGTTTGTGGATCTCAGCAGTACGTCTGCCATCGCAATTATGATCTCTTCCACGATTTGAAAGTa < 1:875933/71‑1 (MQ=255)
agaTCTAGTTTGTGGATCTCAACAGTACGTCTGCCATCGCAATTATGATCTCTTCCACGATTTGAAAGTaa < 1:38244/71‑1 (MQ=255)
agaTCTAGTTTGTGGATCTCAACAGTACGTCTGCCATCGCAATTATGATCTCTTCCACGATTTGAAAGTaa < 1:2545321/71‑1 (MQ=255)
gTTTGTGGATCTCAGCAGTACGTCTGCCATCGCAATTATGATCTCTTCCACGATTTGAAAGTAATg < 1:753997/66‑1 (MQ=255)
gTTTGTGGATCTCAGCAGTACGTCTGCCATCGCAATTATGATCTCTTCCACGATTTGAAAGTAATg < 1:2394540/66‑1 (MQ=255)
gTTTGTGGATCTCAGCAGTACGTCTGCCATCGCAATTATGATCTCTTCCACGATTTGAAAGTAATGTAgc > 1:1985231/1‑70 (MQ=255)
gTTTGTGGATCTCAGAAGTACGTCTGCCATCGCAATTATGATCTCTTCCACGATTTGAAAGTAATGTAgc > 1:1321871/1‑70 (MQ=255)
gATCTCAGCAGTACGTCTGTCATCGCAATTATGATCTCTTCCACGATTTGAAAGTAATGTAGCgcgtgcg < 1:1373684/70‑1 (MQ=255)
gATCTCAGCAGTACGTCTGCCATCGCAATTATGAt > 1:500236/1‑35 (MQ=255)
gATCTCAGCAGTACGTCTGCCATCGCAATTATGATCTCTTCCACGATTTGAAAGTAATGTAGCgcgtgcg < 1:1383388/70‑1 (MQ=255)
gATCTCAGCAGTACGTCTGCCATCGCAATTATGATCTCTTCCACGATTTGAAAGTAATGTAGCgagtgcg < 1:2255001/70‑1 (MQ=255)
gATCTCAACAGTACGTCTGCCATCGCAATTATGATCTCTTCCACGATTTGAAAGTAATGTAGCgcgtgcg < 1:801411/70‑1 (MQ=255)
aTCTCAGCAGTACGTCTGCCATCGCAATTATGATCTCTTCCACGATTTGAAAGTAATg < 1:291141/58‑1 (MQ=255)
aTCTCAGCAGTACGTCTGCCATCGCAATTATGATCTCTTCCACGATTTGAAAGTAATg < 1:1661762/58‑1 (MQ=255)
aTCTCAGCAGTACGTCTGCCATCGCAATTATGATCTCTTCCACGATTTGAAAGTAATGTAGCgcgtgcg < 1:389086/69‑1 (MQ=255)
|
AGCATTACACCTCGTCGCTAACTTATTGAATGCTTGCCAGTCTGAGAGATCTAGTTTGTGGATCTCAACAGTACGTCTGCCATCGCAATTATGATCTCTTCCACGATTTGAAAGTAATGTAGCGCGTGCG > W3110S.gb/4431883‑4432012
|
| 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
