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 |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,191,074 |
A→C |
55.8% |
intergenic (+415/+485) |
yeaJ → / ← rnd |
predicted diguanylate cyclase/ribonuclease D |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,191,074 | 0 | A | C | 55.8%
| 40.8
/ 50.9
| 52 | intergenic (+415/+485) | yeaJ/rnd | predicted diguanylate cyclase/ribonuclease D |
| Reads supporting (aligned to +/- strand): ref base A (9/14); new base C (24/5); total (33/19) |
| Fisher's exact test for biased strand distribution p-value = 1.62e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.66e-01 |
TGTCCATCAGGTTAAGCATCGGCTGCGGTAAGGCATCTTCCGGCAATGTCTGCGCTTTTTCCACAAGCGCTAGCAGCGTTTTACCGTGAAAGCGGATTTCGCTACCGGATAAACCCAGGCTGTCCAGTTCG > minE/1191010‑1191140
|
tGTCCATCAGGTTAAGCATCGGCTGCGGTAAGGCATCTTCCGGCAATGTCTGCGCTTTTTCCACCAgcgc > 1:1002260/1‑70 (MQ=255)
gTCCATCAGGTTAAGCATCGGCTGCGGTAAGGCATCTTCCGGCAATGTCTGCGCTTTTTCCCCAAgcg > 1:2719077/1‑68 (MQ=255)
tCCATCAGGTTAAGCATCGGCTGCGGTAAGGCATCTTCCGGCAATGTCTGCGCTTTTTCCACCAGCGCTag < 1:2939628/71‑1 (MQ=255)
ccATCAGGTTAAGCATCGGCTGCGGTAAGGCATCTTCCGGCAATGTCTGCGCTTTTTCCACAAGCGCTag > 1:2830873/1‑70 (MQ=255)
aTCAGGTTAAGCATCGGCTGCGGTAAGGCATCTTCCGGCAATGTCTGCGCTTTTTCCACCAGCGCTagcag > 1:2606585/1‑71 (MQ=255)
aGGTTAAGCATCGGCTGCGGTAAGGCATCTTCCGGCAATGTCTGCGCTTTTTCCACCAGCGCTAGCAGCGt < 1:229493/71‑1 (MQ=255)
aGGTTAAGCATCGGCTGCGGTAAGGCATCTTCCGGCAATGTCTGCGCTTTTTCCACAAGCGCTAGCAGCg < 1:58912/70‑1 (MQ=255)
gTTAAGCATCGGCTGCGGTAAGGCATCTTCCGGCAATGTCTGCGCTTTTTCCACCAgc > 1:2351800/1‑58 (MQ=255)
gTTAAGCATCGGCTGCGGTAAGGCATCTTCCGGCAATGTCTGCGCTTTTTCCACAAgc < 1:1707042/58‑1 (MQ=255)
gTTAAGCATCGGCTGCGGTAAGGCATCTTCCGGCAATGTCTGCGCTTTTTCCACAAgc < 1:1702516/58‑1 (MQ=255)
gTTAAGCATCGGATGCGGTAAGGCATCTTCCGGCAATGTCTGCGCTTTTTCCACAAGCGCTAGCAGCGttt < 1:3093434/71‑1 (MQ=255)
tAAGCATCGGCTGCGGTAAGGCATCTTCCGGCAATGTCTGCGCTTTTTCCACCAGCGCTAGCAGCGTTTTa > 1:335517/1‑71 (MQ=255)
tAAGCATCGGCTGCGGTAAGGCATCTTCCGGCAATGTCTGCGCTTTTTCCACCAGCGCTAGCAGCGTTTTa > 1:3210262/1‑71 (MQ=255)
tAAGCATCGGCTGCGGTAAGGCATCTTCCGGCAATGTCTGCGCTTTTTCCACCAGCGCTAGCAGCGTTTTa > 1:2894871/1‑71 (MQ=255)
tAAGCATCGGCTGCGGTAAGGCATCTTCCGGCAATGTCTGCGCTTTTTCCACCAGCGCTAGCAGCGTTTTa > 1:76937/1‑71 (MQ=255)
tAAGCATCGGCTGCGGTAAGGCATCTTCCGGCAATGTCTGCGCTTTTTCCACCAGCGCTAGCAGCGTTTTa > 1:2505196/1‑71 (MQ=255)
aaGCATCGGCTGCGGTAAGGCATCTTCCGGCAATGTCTGCGCTTTTTCCACAAGCGCTAGCAGCGTTTTAc > 1:376754/1‑71 (MQ=255)
aGCATCGGCTGCGGTAAGGCATCTTCCGGCAATGTCTGCGCTTTTTCCACCAGCGCTAGCAGCGTTTTAc < 1:136199/70‑1 (MQ=255)
cATCGGCTGCGGTAAGCCATCTTCCGGCAATGTCTGCGCTTTTTCCACAAGCGCTAGCAGCGTTTTACCGt < 1:3406513/71‑1 (MQ=255)
aTCGGCTGCGGTAAGGCATCTTCCGGCAATGTCTGCGCTTTTTCCACCAGCGCTAGCAGCGTTTTACCGt > 1:1568542/1‑70 (MQ=255)
ggCTGCGGTAAGGCATCTTCCGGCAATGTCTGCGCTTTTTCCACCAGCGCTAGCAGCGTTTTACCGTGa > 1:1608846/1‑69 (MQ=255)
ggCTGCGGTAAGGCATCTTCCGGCAATGTCTGCGCTTTTTCCACAAGCGCTAGCAGCGTTTTACCGTGaaa < 1:776269/71‑1 (MQ=255)
cTGCGGTAAGGCATCTTCCGGCAATGTCTGCGCTTTTTCCACAAGCGCTAGCAGCGTTTTACCGTGAAAg > 1:3541574/1‑70 (MQ=255)
gTAAGGCATCTTCCGGCAATGTCTGCGCTTTTTCCACCAGCGCTAGCAGCGTTTTACCGTGAAAGCGGAtt < 1:1012947/71‑1 (MQ=255)
aaGGCATCTTCCGGCAATGTCTGCGCTTTTTCCACCAGCGCTAGCAGCGTTTTACCGTGAAAGCGGATTTc > 1:628412/1‑71 (MQ=255)
aGGCATCTTCCGGCAATGTCTGCGCTTTTTCCACCAGCGCTAGCAGCGTTTTACCGTGAAAGCGGATTTc > 1:1089398/1‑70 (MQ=255)
cATCTTCCGGCAATGTCTGCGCTTTTTCCACCAGCGCTAGCAGCGTTTTACCGTGAAAGCGGATTTCGCTa > 1:2649160/1‑71 (MQ=255)
aTCTTCCGGCAATGTCTGCGCTTTTTCCACCAGCGCTAGCAGCGTTTTACCGTGAAAGCGGATTTCGCTAc > 1:395485/1‑71 (MQ=255)
aTCTTCCGGCAATGTCTGCGCTTTTTCCACAAGCGCTAGCAGCGTTTTACCGTGAAAGCGGATTTCGCTAc > 1:1133451/1‑71 (MQ=255)
cTTCCGGCAATGTCTGCGCTTTTTCCACCAGCGCTAGCAGCGTTTTACCGTGAAAGCGGATTTCGCTAcc > 1:262735/1‑70 (MQ=255)
ccGGCAATGTCTGCGCTTTTTCCACAAGCGCTAGCAGCGTTTTACCGTGAAAGCGGATTTCGCTACCgg < 1:2454615/69‑1 (MQ=255)
cAATGTCTGCGCTTTTTCCACCAGCGCTAGCAGCGTTTTACCGTGAAAGCGGATTTCGCTACCGGATAAAc > 1:1203028/1‑71 (MQ=255)
aaTGTCTGCGCTTTTTCCACCAGCGCTAGGAGCGTTTTACCGTGAAAGCGGATTTCGc > 1:2451093/1‑58 (MQ=255)
aTGTCTGCGCTTTTTCCACCAGCGCTAGCAGCGTTTTACCGTGAAAGCGGATTTCGCTACCGGATAAAcc > 1:1198065/1‑70 (MQ=255)
aTGTCTGCGCTTTTTCCACCAGCGCTAGCAGCGTTTTACCGTGAAAGCGGATTTCGCTACCGGATAAAcc > 1:1443649/1‑70 (MQ=255)
aTGTCTGCGCTTTTTCCACAAGCGCTAGCAGCGTTTTACCGTGAAAGCGGAt < 1:653230/52‑1 (MQ=255)
gTCTGCGCTTTTTCCACCAGCGCTAGCAGCGTTTTACCGTGAAAGCg > 1:1042581/1‑47 (MQ=255)
gTCTGCGCTTTTTCCACAAGCGCTAGCAGCGTTTTACCGTGAAAGCGGATTTCGCTACCGGATAAACACAg > 1:10988/1‑71 (MQ=255)
tCTGCGCTTTTTCCACCAGCGCTAGCAGCGTTTTACCGTGAAAGCGGATTTCGCTAc > 1:1857481/1‑57 (MQ=255)
cgcTTTTTCCACCAGCGCTAGCAGCGTTTTACCGTGAAAGCGGATTTCGCTACCGGATAAACCCAGGc < 1:3134546/68‑1 (MQ=255)
cgcTTTTTCCACAAGCGCTAGCAGCGTTTTACCGTGAAAGCGGATTTCGCTACCGGATAAACCCAGGc < 1:989355/68‑1 (MQ=255)
cgcTTTTTCCACAAGCGCTAGCAGCGTTTTACCGTGAAAGCGGATTTCGCTACCGGATAAACCCAGGc < 1:3279188/68‑1 (MQ=255)
gcTTTTTCCACCAGCGCTAGCAGCGTTTTACCGTGAAAGCGGATTTCGCTACCGGATAAACCAAGGCTGTc > 1:3083148/1‑71 (MQ=255)
gcTTTTTCCACAAGCGCTAGCAGCGTTTTACCGTGAAAGCGGATTTCGCTACCGGATAAACCCAGGCTGTc > 1:2622607/1‑71 (MQ=255)
tttttCCACAAGCGCTAGCAGCGTTTTACCGTGAAAGCGGATTTCGCTAc < 1:793299/50‑1 (MQ=255)
tttCCACCAGCGCTAGCAGCGTTTTACCGTGaaat > 1:3849953/1‑34 (MQ=37)
tttCCACCAGCGCTAGCAGCGTTTTACCGTGAAAGCGGATTTCGCTAc > 1:2770867/1‑48 (MQ=255)
tttCCACAAGCGCTAGCAGCGTTTTACCGTGAAAGCGGATTTCGCTACCGGATAAACCCAGGCTGTCCAg > 1:81108/1‑70 (MQ=255)
tttCCACAAGCGCTAGCAGCGTTTTACCGTGAAAGCGGATTTCGCTACCGGATAAACCCAGGCTGTCCAGt > 1:118816/1‑71 (MQ=255)
ttCCACAAGCGCTAGCAGCGTTTTACCGTGAAAGCGGATTTCGCt < 1:93106/45‑1 (MQ=255)
ttCCACAAGCGCTAGCAGCGTTTTACCGTGAAAGCGGATTTCGCTACCGGATAAACCCAGGCTGTCCAGt < 1:1991591/70‑1 (MQ=255)
ccACAAGCGCTAGCAGCGTTTTACCGTGAAAGCGGATTTCGCTACCGGATAAACCCAGGCTGTCCAGTTc < 1:2026585/70‑1 (MQ=255)
cacaAGCGCTAGCAGCGTTTTACCGTGAAAGCGGATTTCGCTACCGGATAAACCCAGGCTGTCCAGTTCg < 1:1524034/70‑1 (MQ=255)
|
TGTCCATCAGGTTAAGCATCGGCTGCGGTAAGGCATCTTCCGGCAATGTCTGCGCTTTTTCCACAAGCGCTAGCAGCGTTTTACCGTGAAAGCGGATTTCGCTACCGGATAAACCCAGGCTGTCCAGTTCG > minE/1191010‑1191140
|
| 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
