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 |
3,018,630 |
G→A |
40.0% |
D272N (GAC→AAC) |
ssnA → |
predicted chlorohydrolase/aminohydrolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,018,630 | 0 | G | A | 40.0%
| 51.1
/ 78.6
| 70 | D272N (GAC→AAC) | ssnA | predicted chlorohydrolase/aminohydrolase |
| Reads supporting (aligned to +/- strand): ref base G (25/17); new base A (19/9); total (44/26) |
| Fisher's exact test for biased strand distribution p-value = 6.15e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.81e-01 |
ACGACTGGCGCAATTCGATCTCATCGACAGCAAAACGCTGGTCGCTCATGGGCTGTACTTGTCGAAAGATGACATCACCCTACTCAATCAGCGCGATGCGTTCCTGGTGCATAACGCCCGTTCAAACATGAACAACCAT > W3110S.gb/3018560‑3018698
|
aCGACTGGCGCAATTCGATCTCATCGACAGCAAAACGCTGGTCGCTCATGGGCTGTACTTGTCGAAAGATg < 1:501808/71‑1 (MQ=255)
aCGACTGGCGCAATTCGATCTCATCGACAGCAAAACGCTGGTCGCTCATGGGCTGTACTTGTCGAAAGATg < 1:1889429/71‑1 (MQ=255)
gACTGGCGCAATTCGATCTCATCGACAGCAAAACGCTGGTCGCTCATGGGCTGTACTTGTCGAAAGATAAc < 1:474546/71‑1 (MQ=255)
gcgcAATTCGATCTCATCGACAGCAAAACGCTGGTCGCTCATGGGCTGTACTTGTCGAAAGATGACATCAc < 1:1426451/71‑1 (MQ=255)
gcAATTCGATCTCATCGACAGCAAAACGCTGGTCGCTCATGGGCTGTACTTGTCGAAAGATAACATCAccc > 1:2234726/1‑71 (MQ=255)
gcAATTCGATCTCATCGACAGCAAAACGCTGGTCGCTCATGGGCTGTACTTGTCGAAAGATAACATCAccc > 1:405082/1‑71 (MQ=255)
cAATTCGATCTCATCGACAGCAAAACGCTGGTCGCTCATGGGCTGTACTTGTCGAAAGATGACATCAccc > 1:2036258/1‑70 (MQ=255)
cAATTCGATCTCATCGACAGCAAAACGCTGGTCGCTCATGGGCTGTACTTGTCGAAAGATGACATCAccc > 1:152318/1‑70 (MQ=255)
ttCGATCTCATCGACAGCAAAACGCTGGTCGCTCATGGGCTGTACTTGTCGAAAGATAACAt > 1:2439459/1‑62 (MQ=255)
tCGATCTCATCGACAGCAAAACGCTGGTCGCTCATGGGCTGTACTTGTCGAAAGATGACATCACCCTACt > 1:1809761/1‑70 (MQ=255)
cGATCTCTTCGACAGCAAAACGCTGGTCGCTCATGGGCTGTACTTGTCGAAAGATAACATCACCCTACTc > 1:2463032/1‑70 (MQ=255)
cGATCTCATCGACAGCAAAACGCTGGTCGCTCATGGGCTGTACTTGTCGAAAGATGa > 1:127202/1‑57 (MQ=255)
cGATCTCATCGACAGCAAAACGCTGGTCGCTCATGGGCTGTACTTGTCGAAAGATGCCATCACCCTACTc > 1:2718864/1‑70 (MQ=255)
cGATCTCATCGACAGCAAAACGCTGGTCGCTCATGGGCTGTACTTGTCGAAAGATGAc > 1:332435/1‑58 (MQ=255)
cGATCTCATCGACAGCAAAACGCTGGTCGCTCATGGGCTGTACTTGTCGAAAGATGACATCACCCTACTc > 1:106588/1‑70 (MQ=255)
gATCTCATCGACAGCAAAACGCTGGTCGCTCATGGGCTGTACTTGTCGAAAGATGACATCACCCTACTCa < 1:1894135/70‑1 (MQ=255)
ctcATCGACAGCAAAACGCTGGTCGCTCATGGGCTGTACTTGTCGAAAGATGAAATCACCCTACt > 1:2775907/1‑65 (MQ=255)
ctcATCGACAGCAAAACGCTGGTCGCTCATGGGCAGTACTTGTCGAAAGATGACATCACCCTACt > 1:208822/1‑65 (MQ=255)
aTCGACAGCAAAACGCTGGTCGCTCATGGGCTGTACTTGTCGATAGATGACATCACCCTACTCAATCAgcg > 1:1361580/1‑71 (MQ=255)
aTCGACAGCAAAACGCTGGTCGCTCATGGGCTGTACTTGTCGAAAGATGACATCACCCTACTCAATCAgcg > 1:1454138/1‑71 (MQ=255)
aTCGACAGCAAAACGCTGGTCGCTCATGGGCTGTACTTGTCGAAAGATGACATCACCCTACTCAATCAgcg > 1:1641296/1‑71 (MQ=255)
aTCGACAGCAAAACGCTGGTCGCTCATGGGCTGTACTTGTCGAAAGATAACATCa > 1:1419840/1‑55 (MQ=255)
gACAGCAAAACGCTGGTCGCTCATGGGCTGTGCTTGTCGAAAGATGACa > 1:2363489/1‑49 (MQ=255)
gACAGCAAAACGCTGGTCGCTCATGGGCTGTACTTGTCGAAAGATGACATCACCCTACTCAATCAGCGCGa > 1:1309952/1‑71 (MQ=255)
gACAGCAAAACGCTGGTCGCTCATGGGCTGTACTTGTCGAAAGATAACATCACCCTACTCAATCAGcgcg > 1:139418/1‑70 (MQ=255)
gACAGCAAAACGCTGGTCGCTCATGGGCTGTACTTGTCGAAAGATAACATCACCCTACTCAATCAGCGCGa > 1:2778625/1‑71 (MQ=255)
gACAGCAAAACGCTGGTCGCTCATGGGCTGTACTTGTCGAAAGATAACATCACCCTACTCAATCAGCGCGa > 1:2642463/1‑71 (MQ=255)
gACAGCAAAACGCTGGTCGCTCATGGGCTGTACTTGTCGAAAGATAACATCACCCTACTCAATCAGCGCGa > 1:1267907/1‑71 (MQ=255)
gACAGCAAAACGCTGGTCGCTCATGGGCTGTACTTGTCGAAAGATAACATCACCCTACTCAATCAGCGCGa > 1:52402/1‑71 (MQ=255)
cAAAACGCTGGTCGCTCATGGGCTGTACTTGTCGAAAGATAACATCACCCTACTCAATCAGCGCGATGCGt < 1:491750/71‑1 (MQ=255)
aaaaCGCTGGTCGCTCATGGGCTGTACTTGTCGAAAGATAACATCACCCTACTCAATCAGCGCGATGCGt < 1:2305361/70‑1 (MQ=255)
aaCGCTGGTCGCTCATGGGCTGTACTTGTCGAAAGATGACATCACCCTACTCAATCAGCGCGATGCGTTcc < 1:2608643/71‑1 (MQ=255)
aaCGCTGGTCGCTCATGGGCTGTACTTGTCGAAAGATGACATCACCCTACTCAATCAGCGCGATGCGTTcc < 1:679207/71‑1 (MQ=255)
aaCGCTGGTCGCTCATGGGCTGTACTTGTCGAAAGATGACATCACCCTACTCAATCAGCGCGATGCGTTcc < 1:1139662/71‑1 (MQ=255)
aCGCTGGTCGCTCATGGGCTGTACTTGTCGAAAGATGACATCACCCTACTCAATCAGCGCGATGCGTTCCt < 1:574741/71‑1 (MQ=255)
aCGCTGGTCGCTCATGGGCTGTACTTGTCGAAAGATAACATCACCCTACTCAATCAGCGCGATGCGTTCCt < 1:578424/71‑1 (MQ=255)
cGCTGGTCGCTCATGGGCTGTACTTGTCGAAAGATGACATCACCCTACTCaa > 1:2569867/1‑52 (MQ=255)
tCGCTCATGGGCTGTACTTGTCGAAAGATGACATCACCCTACTCAATCAGCGCGATGCGTTCCTGGTGCAt < 1:1820612/71‑1 (MQ=255)
tCGCTCATGGGCTGTACTTGTCGAAAGATAACATCACCCTACTCAATCAGCGCGATGCGt < 1:1270127/60‑1 (MQ=255)
cGCTCATGGGCTGTACTTGTCGAAAGATGACATCACCCTACTCAATCAGCGCGa > 1:1411216/1‑54 (MQ=255)
cATGGGCTGTACTTGTCGAAAGATGACATCACCCTACTCAATCAGCGCGATGCGTTCCTg < 1:2000926/60‑1 (MQ=255)
cATGGGCTGTACTTGTCGAAAGATAACATCACCCTACTCAATCAGCGCGATGCGTTCCTGGTGCATAACGc > 1:2566698/1‑71 (MQ=255)
gggCTGTACTTGTCGAAAGATAACATCACCCTACTCAATCAGCGCGATGCGTTCCTGGTGCATAACGCCCg > 1:912494/1‑71 (MQ=255)
gggCTGTACTTGTCGAAAGATAACATCACCCTACTCAATCAGCGCGATGCGTTCCTGGTGCATAACGCCCg > 1:2365108/1‑71 (MQ=255)
ggCTGTACTTGTCGAAAGATGACATCACCCTACTCAATCAGCGCGATGCGTTCCTGGTGCATAACGCCCGt > 1:1359684/1‑71 (MQ=255)
ggCTGTACTTGTCGAAAGATGACATCACCCAACTCAATCAGCGCGATGCGTTCCTGGT‑‑ATAACGCCCGtt > 1:892047/1‑70 (MQ=255)
ggCTGTACTTGTCGAAAGATAACATCACCCTACTCAATCAGCGCGATGCGTTCCTGGTGCATAACGCCCGt > 1:242893/1‑71 (MQ=255)
tACTTGTCGAAAGATGACATCACCCTACTCAATCAgcgc < 1:751204/39‑1 (MQ=255)
tACTTGTCGAAAGATGACATCACCCTACTCAATCAgcgc < 1:1417515/39‑1 (MQ=255)
tACTTGTCGAAAGATGACATCACCCTACTCAATCAGCGCGATGCGTTcc < 1:437403/49‑1 (MQ=255)
tACTTGTCGAAAGATGACATCACCCTACTCAATCAGCGCGATGCGTTCCt < 1:2510119/50‑1 (MQ=255)
tACTTGTCGAAAGATGACATCACCCTACTCAATCAGCGCGATGCGTTCCTGGTGCATAACGCCCGTTCaaa < 1:735423/71‑1 (MQ=255)
aCTTGTCGAAAGATAACATCACCCTACTCAATCAGCGCGATGCGt < 1:1173086/45‑1 (MQ=255)
cTTGTCGAAAGATGACATCACCCTACTCAATCAGCGCGATGCGTTCCTg > 1:1189885/1‑49 (MQ=255)
cTTGTCGAAAGATGACATCACCCTACTCAATCAGCGCGATGCGTTCCTg > 1:1697205/1‑49 (MQ=255)
cTTGTCGAAAGATGACATCACCCTACTCAATCAGCGCGATGCGTTCCTGGTGCATAACGCCCGTTCAAACa > 1:2732303/1‑71 (MQ=255)
cTTGTCGAAAGATAACATCACCCTACTCAATCAGCGCGATGCGTTCCTGGTGCATAACGCCCGTTCAAACa > 1:2249472/1‑71 (MQ=255)
ttGTCGAAAGATGACATCACCCTACTCAATCAgcgc < 1:2492296/36‑1 (MQ=255)
ttGTCGAAAGATAACATCACCCTACTCAATCAGCGCGATg > 1:798768/1‑40 (MQ=255)
ttGTCGAAAGATAACATCACCCTACTCAATCAGCGCGATGCGt < 1:1546094/43‑1 (MQ=255)
tGTCGAAAGATAACATCACCCTACTCAATCAGCGCGa > 1:2091488/1‑37 (MQ=255)
gTCGAAAGATGACATCACCCTACTCAATCAGCGCGa > 1:384343/1‑36 (MQ=255)
gTCGAAAGATGACATCACCCTACTCAATCAGCGCGa > 1:1749463/1‑36 (MQ=255)
gTCGAAAGATGACATCACCCTACTCAATCAGCGCGa > 1:529420/1‑36 (MQ=255)
gTCGAAAGATGACATCACCCTACTCAATCAGCGCGa > 1:1996877/1‑36 (MQ=255)
gTCGAAAGATAACATCACCCTACTCAATCAGCGCGATGCGTTCCTGGTGCATAACGCCCGTTCAAACATg > 1:2558525/1‑70 (MQ=255)
gAAAGATAACATCACCCTACTCAATCAGGGCGATGCGTTCCTGGTGCATAACGCCCGTTCAAACATGaac < 1:72822/70‑1 (MQ=255)
gAAAGATAACATCACCCTACTCAATCAGCGCGATGCGTTCCTGGTGCATaa > 1:1920110/1‑51 (MQ=255)
aaGATGACATCACCCTACTCAATCAGCGCGATGCGTTCCTGGTGCATAACGCCCGTTCAAACATGaacaac < 1:340353/71‑1 (MQ=255)
aaGATAACATCACCCTACTCAATCAGCGCGATGCGTTCCTGGTGCATAACGCCCGTTCAAACATGaacaac < 1:680633/71‑1 (MQ=255)
tGACATCACCCTACTCAATCAGCGCGATGCGTTCCTGGTGCATAACGCCCGTTCAAACATGAACAACCAt < 1:192620/70‑1 (MQ=255)
tGACATCACCCTACTCAATCAGCGCGATGCGTTCCTGGTGCATAACGCCCGTTCAAACATGAACAACCAt < 1:2265796/70‑1 (MQ=255)
|
ACGACTGGCGCAATTCGATCTCATCGACAGCAAAACGCTGGTCGCTCATGGGCTGTACTTGTCGAAAGATGACATCACCCTACTCAATCAGCGCGATGCGTTCCTGGTGCATAACGCCCGTTCAAACATGAACAACCAT > W3110S.gb/3018560‑3018698
|
| 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
