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 R2
|
422 |
46.8 |
3726540 |
94.7% |
3529033 |
61.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,620,710 |
C→T |
87.3% |
intergenic (‑88/‑124) |
marC ← / → marR |
predicted transporter/DNA‑binding transcriptional repressor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,620,710 | 0 | C | T | 87.3%
| 145.5
/ 13.0
| 55 | intergenic (‑88/‑124) | marC/marR | predicted transporter/DNA‑binding transcriptional repressor |
| Reads supporting (aligned to +/- strand): ref base C (2/5); new base T (35/13); total (37/18) |
| Fisher's exact test for biased strand distribution p-value = 3.17e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.79e-01 |
TATCTGGGTTATCAGCGAAAAGTATAAGGGGTAAACAAGGATAAAGTGTCACTCTTTAGCTAGCCTTGCATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGTCAATTCATTCATTTGACT > W3110S.gb/1620642‑1620776
|
tATCTGGGTTATCAGCGAAAAGTATAAGGGGTAAACAAGGATAAAGTGTCACTCTTTAGCTAGCCTTGTAt > 1:2809321/1‑71 (MQ=255)
tATCTGGGTTATCAGCGAAAAGTATAAGGGGTAAACAAGGATAAAGTGTCACTCTTTAGCTAGCCTTGTAt > 1:1860592/1‑71 (MQ=255)
tATCTGGGTTATCAGCGAAAAGTATAAGGGGTAAACAAGGATAAAGTGTCACTCTTTAGCTAGCCTTGTAt > 1:1398310/1‑71 (MQ=255)
tATCTGGGTTATCAGCGAAAAGTATAAGGGGTAAACAAGGATAAAGTGTCACTCTTTAGCTAGCCTTGTAt > 1:873481/1‑71 (MQ=255)
tATCTGGGTTATCAGCGAAAAGTATAAGGGGTAAACAAGGATAAAGTGTCACTCTTTAGCTAGCCTTGCAt > 1:111018/1‑71 (MQ=255)
tCTGGGTTATCAGCGAAAAGTATAAGGGGTAAACAAGGATAAAGTGTCACTCTTTAGCTAGCCTTGTATct > 1:1841489/1‑70 (MQ=255)
tCTGGGTTATCAGCGAAAAGTATAAGGGGTAAACAAGGATAAAGTGTCACTCTTTAGCTAGCCTTGTATCg > 1:2687191/1‑71 (MQ=255)
tCTGGGTTATCAGCGAAAAGTATAAGGGGTAAACAAGGATAAAGTGTCACTCTTTAGCTAGCCTTGTATCg > 1:927426/1‑71 (MQ=255)
ttATCAGCGAAAAGTATAAGGGGTAAACAATGATAAAGTGTCACTCTTTAGCTAGCCTTGTATCGCATTg < 1:2304413/70‑1 (MQ=255)
ttATCAGCGAAAAGTATAAGGGGTAAAAAATGATAAAGTGTCACTCTTTAGCTAGCCTTGTATc > 1:1064207/1‑64 (MQ=255)
tataAGGGGTAAACAAGGATAAAGTGTCACTCTTTAGCTAGCCTTGCATCGCATTGAACAAAACTTGAAcc < 1:609724/71‑1 (MQ=255)
tataAGGGGTAAACAAGGATAAAGTGTCACTCTTTAGCTAGCCTTGCATCGCATTGAACAAAACTTGAAcc < 1:1411893/71‑1 (MQ=255)
tataAGGGGTAAACAAGGATAAAGTGTCACTCTTTAGCTAGCCTTGCATCGCATTGAACAAAACTTGAAcc < 1:2047310/71‑1 (MQ=255)
aGGGGTAAACAAGGATAAAGTGTCACTCTTTAGCTAGCCTTGCATCGCATTGAACAAAACTTGAACCGAtt > 1:2162513/1‑71 (MQ=255)
gggTAAACAAGGATAAAGTGTCACTCTTTAGCTAGCCTTGTATCGCATTGAACAAAACTTg < 1:125918/61‑1 (MQ=255)
tAAACAAGGATAAAGTGTCACTCTTTAGCTAGCCTTGTATCGCATTGAACAAAACTTGAACCGAtt < 1:2980475/66‑1 (MQ=255)
tAAACAAGGATAAAGTGTCACTCTTTAGCTAGCCTTGTATCGCATTGAACAAAACTTGAACCGAtt < 1:2609094/66‑1 (MQ=255)
tAAACAAGGATAAAGTGTCACTCTTTAGCTAGCCTTGTATCGCATTGAACAAAACTTGAACCGAtt < 1:3436617/66‑1 (MQ=255)
tAAACAAGGATAAAGTGTCACTCTTTAGCTAGCCTTGTATCGCATTGAACAAAACTTGAACCGAtt < 1:788686/66‑1 (MQ=255)
tAAACAAGGATAAAGTGTCACTCTTTAGCTAGCCTTGTATCGCATTGAACAAAACTTGAACCGAtt < 1:1541791/66‑1 (MQ=255)
aaCAAGGATAAAGTGTCACTCTTTAGCTAGCCTTGTATCGCATTGAACaa < 1:2227196/50‑1 (MQ=255)
aaCAAGGATAAAGTGTCACTCTTTAGCTAGCCTTGTATCGCATTGAACaa < 1:3332574/50‑1 (MQ=255)
tgtCACTCTTTAGCTAGCCTTGTATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGt > 1:2001613/1‑71 (MQ=255)
tgtCACTCTTTAGCTAGCCTTGTATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGt > 1:969064/1‑71 (MQ=255)
tgtCACTCTTTAGCTAGCCTTGTATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGt > 1:1128618/1‑71 (MQ=255)
gtCACTCTTTAGCTAGCCTTGTATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGt > 1:3249205/1‑70 (MQ=255)
gtCACTCTTTAGCTAGCCTTGTATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGt > 1:1526698/1‑70 (MQ=255)
tCACTCTTTAGCTAGCCTTGCATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGTc < 1:2894340/70‑1 (MQ=255)
aCTCTTTAGCTAGCCTTGTATCGCATTGAACAAAAc > 1:3514254/1‑36 (MQ=255)
aCTCTTTAGCTAGCCTTGTATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGTCAat > 1:397491/1‑71 (MQ=255)
aCTCTTTAGCTAGCCTTGTATAGCATTGAACAAAAc > 1:1074532/1‑36 (MQ=38)
tctTTAGCTAGCCTTGTATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGTCAatt > 1:813872/1‑70 (MQ=255)
tctTTAGCTAGCCTTGTATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGTCAatt > 1:1549193/1‑70 (MQ=255)
tctTTAGCTAGCCTTGTATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGTCAatt > 1:1952347/1‑70 (MQ=255)
ctTTAGCTAGCCTTGTATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGTCAattca > 1:857210/1‑71 (MQ=255)
ctTTAGCTAGCCTTGTATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGTCAattca > 1:834587/1‑71 (MQ=255)
ctTTAGCTAGCCTTGTATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGTCAattca > 1:2016086/1‑71 (MQ=255)
ctTTAGCTAGCCTTGTATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGTCAattca > 1:367010/1‑71 (MQ=255)
ctTTAGCTAGCCTTGTATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGTCAattca > 1:54897/1‑71 (MQ=255)
ctTTAGCTAGCCTTGTATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGTCAattc > 1:3357126/1‑70 (MQ=255)
tttAGCTAGCCTTGTATCGCATTGAACAAAACTTGAACCGAtt > 1:3148608/1‑43 (MQ=255)
tttAGCTAGCCTTGTATCGCATTGAACAAAACTTGAACCGAtt > 1:9502/1‑43 (MQ=255)
tttAGCTAGCCTTGTATCGCATTGAACAAAACTTGAACCGAtt > 1:606875/1‑43 (MQ=255)
tttAGCTAGCCTTGTATCGCATTGAACAAAACTTGAACCGAtt > 1:2458060/1‑43 (MQ=255)
tttAGCTAGCCTTGTATCGCATTGAACAAAACTTGAACCGAtt > 1:320381/1‑43 (MQ=255)
tagctagcCTTGTATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGTCAattcatt > 1:2749698/1‑70 (MQ=255)
tagctagcCTTGTATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGTCAattcatt > 1:1467577/1‑70 (MQ=255)
agctagcCTTGTATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGTCAattcattc < 1:3070376/70‑1 (MQ=255)
gctagcCTTGCATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGTCAAttcattca < 1:1306009/70‑1 (MQ=255)
cTTGTATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTgg > 1:1869965/1‑46 (MQ=255)
cTTGTATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTgg > 1:1747536/1‑46 (MQ=255)
cTTGTATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTgg > 1:865037/1‑46 (MQ=255)
cTTGTATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGTCAATTCATTCATTTGACt < 1:3667635/71‑1 (MQ=255)
cTTGTATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGTCAATTCATTCATTTGACt < 1:3211833/71‑1 (MQ=255)
cTTGTATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGTCAATTCATTCATTTGACt < 1:1287370/71‑1 (MQ=255)
|
TATCTGGGTTATCAGCGAAAAGTATAAGGGGTAAACAAGGATAAAGTGTCACTCTTTAGCTAGCCTTGCATCGCATTGAACAAAACTTGAACCGATTTAGCAAAACGTGGCATCGGTCAATTCATTCATTTGACT > W3110S.gb/1620642‑1620776
|
| 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
