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 F17 I0 R2
|
162 |
60.6 |
4616657 |
98.5% |
4547407 |
62.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,224,919 |
G→A |
7.5% |
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 | 7.5%
| 168.0
/ 3.5
| 53 | intergenic (‑423/‑123) | ymgG/ymgH | hypothetical protein/hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (23/26); new base A (2/2); total (25/28) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.73e-01 |
GATATTCATCAGCAACGATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACTGCGTGTAAAAA > W3110S.gb/1224851‑1224986
|
gaTATTCATCAGCAACGATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTa > 1:2303994/1‑71 (MQ=255)
atTCATCAGCAACGATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGa > 1:4581760/1‑71 (MQ=255)
caGCAACGATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGta > 1:345771/1‑70 (MQ=255)
gCAACGATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGtatta < 1:2428986/71‑1 (MQ=255)
gATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAg > 1:3291733/1‑70 (MQ=255)
aTTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGaa < 1:2685975/71‑1 (MQ=255)
ttACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCATACGACa > 1:3117156/1‑58 (MQ=255)
aCATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGta > 1:1834425/1‑59 (MQ=255)
cATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTAGGACAGTATTATCAGAAAag < 1:337039/70‑1 (MQ=255)
gTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGa < 1:1250380/70‑1 (MQ=255)
gTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGa < 1:863122/70‑1 (MQ=255)
cATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGAttt > 1:3566041/1‑71 (MQ=255)
ttttattttGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGtatt < 1:3177254/51‑1 (MQ=255)
ttattttGCCGACGGCCTCATTGTCGAAAGATAAGCGTAc > 1:388365/1‑40 (MQ=255)
ttattttGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGaa < 1:2573700/56‑1 (MQ=255)
ttattttGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGAtttttt < 1:2176622/70‑1 (MQ=255)
ttattttGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTa > 1:1144001/1‑71 (MQ=255)
ttattttGCCGACGGCCTCATTGTCGAAAGATAAGCATACGACAGTATTATCAGAAAAGAGTGATTTTTTa > 1:3113394/1‑71 (MQ=255)
attttGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATc > 1:3159854/1‑71 (MQ=255)
ttttGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGAttttt < 1:644116/66‑1 (MQ=255)
tGCCGACGGCCTCATTGTCGAAAGATAAGAGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAAc > 1:3185368/1‑71 (MQ=255)
ccGACGGCCTCATTGTCGAAAGATAAGCATACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACt < 1:3407922/70‑1 (MQ=255)
cGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCaa > 1:2300986/1‑67 (MQ=255)
aCGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGaaaa < 1:1355052/47‑1 (MQ=255)
aCGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTacac > 1:367901/1‑71 (MQ=255)
aCGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTacac > 1:1376402/1‑71 (MQ=255)
cGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACt > 1:4009834/1‑71 (MQ=255)
gCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGAtttt < 1:2125909/54‑1 (MQ=255)
ccTCATTGTCGAAAGATAAGCGTACGACAGtattat < 1:2525986/36‑1 (MQ=255)
ccTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGAttttt > 1:2600325/1‑54 (MQ=255)
cTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGaa < 1:1162030/40‑1 (MQ=255)
tCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGAtttttt > 1:817655/1‑53 (MQ=255)
cATTGTCGAAAGATAAGCGTACGACAGTATTATCAGaa < 1:2792172/38‑1 (MQ=255)
cATTGTCGAAAGATAAGCGTACGACAGTATTATCAGaa < 1:220278/38‑1 (MQ=255)
cATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAgcg > 1:2414267/1‑71 (MQ=255)
aTTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAgcgc < 1:335325/71‑1 (MQ=255)
aTTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAgc < 1:1225221/69‑1 (MQ=255)
tGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCAc > 1:4176830/1‑71 (MQ=255)
gTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCaa > 1:1929358/1‑54 (MQ=255)
gTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCAc < 1:2598176/70‑1 (MQ=255)
gTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACt > 1:1181154/1‑71 (MQ=255)
gTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACt > 1:370740/1‑71 (MQ=255)
tCGAAAGATAAGCGTACGACAGTATTATCAGaaaa < 1:20477/35‑1 (MQ=255)
tCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACtt < 1:185676/61‑1 (MQ=255)
tCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACtt < 1:1644721/61‑1 (MQ=255)
cGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGAtttttt > 1:2508966/1‑46 (MQ=255)
gAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACTGCg < 1:2496130/71‑1 (MQ=255)
aaaGATAAGCATACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACtt < 1:2677999/58‑1 (MQ=255)
gATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACTGCGTGTa < 1:4397477/71‑1 (MQ=255)
aaGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACTGCGTGTaaa > 1:3588280/1‑70 (MQ=255)
aaGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACTGCGTGTaa < 1:4072723/69‑1 (MQ=255)
aGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACTGCGTGTaaaaa < 1:1574449/71‑1 (MQ=255)
aGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACTGCGTGTaaaaa < 1:2668209/71‑1 (MQ=255)
gTACGACAGTATTATCAGAAAAGAGTGATTATTTATCCAACTACACTTCAGCGCACt < 1:3236337/57‑1 (MQ=255)
|
GATATTCATCAGCAACGATTACATTAGTCATTTTATTTTGCCGACGGCCTCATTGTCGAAAGATAAGCGTACGACAGTATTATCAGAAAAGAGTGATTTTTTATCCAACTACACTTCAGCGCACTGCGTGTAAAAA > W3110S.gb/1224851‑1224986
|
| 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
