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 |
|
A5 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,224,919 |
G→A |
34.7% |
intergenic (‑423/‑123) |
ymgG ← / → ymgH |
hypothetical protein/hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,224,919 | 0 | G | A | 34.7%
| 87.6
/ 72.4
| 75 | intergenic (‑423/‑123) | ymgG/ymgH | hypothetical protein/hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (29/20); new base A (9/17); total (38/37) |
| Fisher's exact test for biased strand distribution p-value = 5.42e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TTCATCAGCAACGATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACTGCGTGTAAAAAAT > W3110S.gb/1224855‑1224988
|
ttCATCAGCAACGATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGa < 1:4930478/70‑1 (MQ=255)
ttCATCAGCAACGATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGa < 1:1263101/70‑1 (MQ=255)
atcaGCAACGATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAg > 1:3175784/1‑70 (MQ=255)
atcaGCAACGATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGt < 1:1715376/71‑1 (MQ=255)
caGCAACGATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTa > 1:2250454/1‑62 (MQ=255)
caGCAACGATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTa > 1:1506315/1‑62 (MQ=255)
aGCAACGATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAg > 1:1544515/1‑67 (MQ=255)
aGCAACGATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGtat < 1:218442/70‑1 (MQ=255)
aGCAACGATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGtat > 1:4568988/1‑70 (MQ=255)
aGCAACGATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGtat < 1:2638084/70‑1 (MQ=255)
aGCAACGATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGtat > 1:3176074/1‑70 (MQ=255)
aGCAACGATTACATTAGTCATTTTATTTTGCCGACAGCCTCATTGTCGAAAGATAAGCGTACGACAGtat < 1:316071/70‑1 (MQ=255)
gCAACGATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGtatta < 1:3049876/71‑1 (MQ=255)
gCAACGATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGtatta < 1:2454715/71‑1 (MQ=255)
aCGATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTa > 1:719837/1‑57 (MQ=255)
aCGATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTa > 1:3482500/1‑57 (MQ=255)
cGATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGtattat > 1:3784145/1‑68 (MQ=255)
cGATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGtattat > 1:3144627/1‑68 (MQ=255)
ttACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCATACGACAGtat < 1:4181094/62‑1 (MQ=255)
ttACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCATACGACAGTATTATCAg > 1:2196734/1‑68 (MQ=255)
ttACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCATACGACAGTATTATCAGaaa < 1:3491279/71‑1 (MQ=255)
ttACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCATACGACAGTATTATCAGaa > 1:4147203/1‑70 (MQ=255)
ttACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCATACGACAGTATTATCAGaa > 1:4284174/1‑70 (MQ=255)
tACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGaa > 1:4296597/1‑69 (MQ=255)
tACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCATACGACAGTATTATCAGaa > 1:2196/1‑69 (MQ=255)
tACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCATACGACAGTATTATCAGaa > 1:1255447/1‑69 (MQ=255)
tAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGt > 1:831736/1‑70 (MQ=255)
tCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCATACGACAGta < 1:2244317/52‑1 (MQ=255)
tCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCATACGACAGTATTATCAGAAAAGAGTGAtt < 1:523411/71‑1 (MQ=255)
attttattttGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGaaaa > 1:1101383/1‑61 (MQ=255)
attttattttGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGaaaa > 1:3265486/1‑61 (MQ=255)
attttattttGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGAtttt > 1:2331483/1‑71 (MQ=255)
attttattttGCCGACGCCCTCATTGTCGAAAGATAAGCATACGACAGTATTATCAGAAAAGAGTGAttt < 1:2154732/70‑1 (MQ=255)
ttttattttGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGaa < 1:1327830/58‑1 (MQ=255)
tttattttGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGAttttt > 1:2084839/1‑70 (MQ=255)
ttattttGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTa > 1:703546/1‑71 (MQ=255)
ttattttGCCGACGGCCTCATTGTCGAAAGATAAGCATACGACAGTATTATCAGaaaa > 1:3704006/1‑58 (MQ=255)
tattttGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTa > 1:2600716/1‑70 (MQ=255)
tattttGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTAt > 1:904910/1‑71 (MQ=255)
tattttCCCGACGGCCTCATTGTCGAAAGATAAGCATACGACAGTATTATCAGAAAAGAGTGATTTTTTAt > 1:1862/1‑71 (MQ=255)
ccGACGGCCTCATTGTCGAAAGATAAGCATACGACAGTATTATCAGAAAAGAGTTATTTTTTATcc < 1:1222095/66‑1 (MQ=38)
ccGACGGCCTCATTGTCGAAAGATAAGCATACGACAGTATTATCAGAAAAGAGTGATTTTTTATcc < 1:3157617/66‑1 (MQ=255)
gACGGCCTCATTGTCGAAAGATAAGCATACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCaa > 1:1180776/1‑66 (MQ=255)
aCGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCaa > 1:1448035/1‑65 (MQ=255)
gCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTc < 1:187100/71‑1 (MQ=255)
tCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTaca < 1:1149571/64‑1 (MQ=255)
tCATTGTCGAAAGATAAGCATACGACAGTATTATCAGaa < 1:2517534/39‑1 (MQ=255)
tCATTGTCGAAAGATAAGCATACGACAGTATTATCAGAAAAGAGTGAtt < 1:1765857/49‑1 (MQ=255)
cATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAgcg > 1:666585/1‑71 (MQ=255)
cATTGTCGAAAGATAAGCATACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACtt < 1:465344/66‑1 (MQ=255)
cATTGTCGAAAGATAAGCATACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACtt < 1:3729575/66‑1 (MQ=255)
ttGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTAt > 1:2977909/1‑52 (MQ=255)
ttGTCGAAAGATAAGCATACGACAGTATTATCAGaa < 1:869308/36‑1 (MQ=255)
ttGTCGAAAGATAAGCATACGACAGTATTATCAGaa < 1:1122086/36‑1 (MQ=255)
gTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTc > 1:4392336/1‑63 (MQ=255)
gTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACt > 1:2800913/1‑71 (MQ=255)
gTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACt > 1:4750343/1‑71 (MQ=255)
gTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACt > 1:4441965/1‑71 (MQ=255)
tCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACTg < 1:4912178/71‑1 (MQ=255)
gAAAGATAAGCATACGACAGTATTATCAGAAAAGAGTGAtt < 1:4211685/41‑1 (MQ=255)
gAAAGATAAGCATACGACAGTATTATCAGAAAAGAGTGAtt < 1:4036897/41‑1 (MQ=255)
gAAAGATAAGCATACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACTGCg < 1:2199970/71‑1 (MQ=255)
aaGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACTGCgtg > 1:1795396/1‑71 (MQ=255)
aGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACTGCgtg > 1:3227011/1‑70 (MQ=255)
aGATAAGCATACGACAGTATTATCAGAAAAGAGTGATTTTTTa > 1:914674/1‑43 (MQ=255)
aaGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACTGCGTGTaaa > 1:3151692/1‑70 (MQ=255)
aGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACTGCGTGTaaaaa < 1:4121540/71‑1 (MQ=255)
aGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACTGCGTGTaaaaa < 1:1933263/71‑1 (MQ=255)
aGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACTGCGTGTaaaa < 1:4946418/70‑1 (MQ=255)
aGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACTGCGTGTaaaa < 1:3340380/70‑1 (MQ=255)
aGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACTGCGTGTaaaa < 1:1728038/70‑1 (MQ=255)
aGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACTGCGTGTaaaa < 1:105215/70‑1 (MQ=255)
aGCATACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACTGCGTGTaaaa < 1:4772033/70‑1 (MQ=255)
cGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACTGCGTGTAAAAAAt < 1:4679632/71‑1 (MQ=255)
cGTACGACAGTATTATAAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACTGCGTGTAAAAAAt < 1:3152453/71‑1 (MQ=255)
|
TTCATCAGCAACGATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACTGCGTGTAAAAAAT > W3110S.gb/1224855‑1224988
|
| 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
