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 |
3,222,206 |
C→T |
78.1% |
N306N (AAC→AAT) |
ebgA → |
cryptic beta‑D‑galactosidase, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,222,206 | 0 | C | T | 78.1%
| 126.0
/ 34.9
| 64 | N306N (AAC→AAT) | ebgA | cryptic beta‑D‑galactosidase, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base C (4/10); new base T (29/21); total (33/31) |
| Fisher's exact test for biased strand distribution p-value = 7.13e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.66e-01 |
AATGGTCAGCAGAATCCCCTTATCTTTACCATCTGGTCATGACGCTGAAAGACGCCAACGGCAACGTTCTGGAAGTGGTGCCACAACGCGTTGGCTTCCGTGATATCAAAGTGCGCGACGGTCTGTTCTGG > W3110S.gb/3222142‑3222272
|
aaTGGTCAGCAGAATCCCCTTATCTTTACCATCTGGTCATGACGCTGAAAGACGCCAACGGCAATGTTCTg > 1:1245572/1‑71 (MQ=255)
aaTGGTCAGCAGAATCCCCTTATCTTTACCATCTGGTCATGACGCTGAAAGACGCCAACGGCAATGTTCTg > 1:1516366/1‑71 (MQ=255)
aTGGTCAGCAGAATCCCCTTATCTTTACCATCTGGTCATGACGCTGAAAGACGCCAACGGCAATGTTCTg > 1:183686/1‑70 (MQ=255)
ggTCAGCAGAATCCCCTTATCTTTACCATCTGGTCATGACGCTGAAAGACGCCAACGGCAATGTTCTgg > 1:134553/1‑69 (MQ=255)
gTCAGCAGAATCCCCTTATCTTTACCATCTGGTCATGACGCTGAAAGACGCCAACGGCAATGTTCTGGAAg > 1:1298357/1‑71 (MQ=255)
gTCAGCAGAATCCCCTTATCTTTACCATCTGGTCATGACGCTGAAAGACGCCAACGGCAACGTTCTGGAAg > 1:2102518/1‑71 (MQ=255)
tCAGCAGAATCCCCTTATCTTTACCATCTGGTCATGACGCTGAAAGACGCCAACGGCAATGTTCTGGAAgt < 1:2371451/71‑1 (MQ=255)
tCAGCAGAATCCCCTTATCTTTACCATCTGGTCATGACGCTGAAAGACGCCAACGGCAATGTTCTGGAAgt < 1:766156/71‑1 (MQ=255)
tCAGCAGAATCCCCTTATCTTTACCATCTGGTCATGACGCTGAAAGACGCCAACGGCAATGTTCTGGAAgt < 1:2571552/71‑1 (MQ=255)
tCAGCAGAATCCCCTTATCTTTACCATCTGGTCATGACGCTGAAAGACGCCAACGGCAACGTTCTGGAAgt < 1:794661/71‑1 (MQ=255)
aTCCCCTTATCTTTACCATCTGGTCATGACGCTGAAAGACGCCAACGGCAATGTTCTGGAAGTGGTGCcac < 1:260729/71‑1 (MQ=255)
aTCCCCTTATCTTTACCATCTGGTCATGACGCTGAAAGACGCCAACGGCAATGTTCTGGAAGTGGTGCcac < 1:1918791/71‑1 (MQ=255)
cccTTATCTTTACCATCTGGTCATGACGCTGAAAGACGCCAACGGCAATGTTCTGGAAGTGGTGCCACaa > 1:2283279/1‑70 (MQ=255)
cccTTATCTTTACCATCTGGTCATGACGCTGAAAGACGCCAACGGCAATGTTCTGGAAGTGGTGCCACaa > 1:2662374/1‑70 (MQ=255)
cTTATCTTTACCATCTGGTCATGACGCTGAAAGACGCCAACGGCAACGTTCTGGAAGTGGTGCCACAAcgc < 1:1979534/71‑1 (MQ=255)
ttATCTTTACCATCTGGTCATGACGCTGAAAGACGCCAACGGCAACGTTCTGGAAGTGGTGCcac < 1:1538745/65‑1 (MQ=255)
tATCTTTACCATCTGGTCATGACGCTGAAAGACGCCAACGGCAACGTTCTGGAAGTGGTGCCACAACGCGt > 1:421427/1‑71 (MQ=255)
tATCTTTACCATCTGGTCATGACGCTGAAAGACGCAAACGGCAATGTTCTGGAAgtggt > 1:1166943/1‑59 (MQ=255)
aTCTTTACCATCTGGTCATGACGCTGAAAGACGCCAACGGCAATGTTCTGGAAGTGGTGCCACAACGCGtt > 1:1977524/1‑71 (MQ=255)
aTCTTTACCATCTGGTCATGACGCTGAAAGACGCCAACGGCAATGTTCTGGAAGTGGTGCCACAACGCGtt > 1:2099967/1‑71 (MQ=255)
aTCTTTACCATCTGGTCATGACGCTGAAAGACGCCAACGGCAATGTTCTGGAAGTGGTGCCACAACGCGtt > 1:897725/1‑71 (MQ=255)
tCTTTACCATCTGGTCATGACGCTGAAAGACGCCAACGGCAATGTTCTGGAAGTGGTGCCACAACGCGTTg > 1:851158/1‑71 (MQ=255)
tCTTTACCATCTGGTCATGACGCTGAAAGACGCCAACGGCAATGTTCTGGAAGTGGTGCCACAACGCGTTg > 1:865148/1‑71 (MQ=255)
cTTTACCATCTGGTCATGACGCTGAAAGACGCCAACGGCAATGTTCTGGAAgtggt < 1:582414/56‑1 (MQ=255)
cTTTACCATCTGGTCATGACGCTGAAAGACGCCAACGGCAATGTTCTGGAAgtgg > 1:356487/1‑55 (MQ=255)
cTTTACCATCTGGTCATGACGCTGAAAGACGCCAACGGCAATGTTCTGGAAGTGGTGCCACAACGCGTTgg > 1:2495174/1‑71 (MQ=255)
ccATCTGGTCATGACGCTGAAAGACGCCAACGGCAATGTTCTGGAAGTGGTGCCACAAcgcg < 1:164489/62‑1 (MQ=255)
aTCTGGTCATGACGCTGAAAGACGCCAACGGCAATGTTCTGGAAGTGGTGCCACAACGCGTTGGCTTCCGt < 1:699609/71‑1 (MQ=255)
aTCTGGTCATGACGCTGAAAGACGCCAACGGCAATGTTCTGGAAGTGGTGCCACAACGCGTTGGCTTCCGt < 1:2789981/71‑1 (MQ=255)
aTCTGGTCATGACGCTGAAAGACGCCAACGGCAATGTTCTGGAAGTGGTGCCACAACGCGTTGGCTTCCGt < 1:2751126/71‑1 (MQ=255)
aTCTGGTCATGACGCTGAAAGACGCCAACGGCAATGTTCTGGAAGTGGTGCCACAACGCGTTGGCTTCCGt < 1:889956/71‑1 (MQ=255)
aTCTGGTCATGACGCTGAAAGACGCCAACGGCAATGTTCTGGAAGTGGTGCCACAACGCGTTGGCTTCCGt < 1:2497897/71‑1 (MQ=255)
tCTGGTCATGACGCTGAAAGACGCCAACGGCAATGTTCTGGAAGTGGTGCCACAACGCGTTGGCTTCCGt < 1:2461778/70‑1 (MQ=255)
tCTGGTCATGACGCTGAAAGACGCCAACGGCAACGt < 1:1618834/36‑1 (MQ=255)
tCTGGTCATGACGCTGAAAGACGCCAACGGCAACGt < 1:766045/36‑1 (MQ=255)
tCTGGTCATGACGCTGAAAGACGCCAACGGCAACGTTCTGGAAGTGGTGCCACAAcgcg < 1:864375/59‑1 (MQ=255)
tCTGGTCATGACGCTGAAAGACGCCAACGGCAACGTTCTGGAAGTGGTGCCACAAcgcg < 1:2597663/59‑1 (MQ=255)
cTGGTCATGACGCTGAAAGACGCCAACGGCAATGTTCTGGAAGTGGTGc < 1:273590/49‑1 (MQ=255)
tGGTCATGACGCTGATAGACGCCAACGGCAACGTTc > 1:399004/1‑36 (MQ=255)
tGGTCATGACGCTGAAAGACGCCAACGGCAATGTTCTGGAAGTGGTGCCACAACGCGTTGGCTTCCGTGa > 1:2395619/1‑70 (MQ=255)
tGGTCATGACGCTGAAAGACGCCAACGGCAATGTTCTGGAAGTGGTGCCACAACGCGTTGGCTTCCGTGa > 1:1547657/1‑70 (MQ=255)
tGGTCATGACGCTGAAAGACGCCAACGGCAATGTTCTGGAAGTGGTGCCACAACGCGTTGGCTTCCGTGa > 1:2079899/1‑70 (MQ=255)
gTCATGACGCTGAAAGACGCCAACGGCAATGTTCTGGAAGTGGTGCCACAACGCGTTGGCTTCCGTGatat > 1:2101167/1‑71 (MQ=255)
tCATGACGCTGAAAGACGCCAACGGCAATGTTCTGGAAgt < 1:1785399/40‑1 (MQ=255)
cATGACGCTGAAAGACGCCAACGGCAACGTTCTGGAAGTGGTGCCACAACGCGt > 1:2359291/1‑54 (MQ=255)
aTGACGCTGAAAGACGCCAACGGCAATGTTCTGGAAGTGGTGCCACAACGCGTTGGCTTCCGTGATATCa > 1:418714/1‑70 (MQ=255)
aTGACGCTGAAAGACGCCAACGGCAATGTTCTGGAAGTGGTGCCACAACGCGTTGGCTTCCGTGATATCa > 1:2723452/1‑70 (MQ=255)
aTGACGCTGAAAGACGCCAACGGCAATGTTCTGGAAGTGGTGCCACAACGCGTTGGCTTCCGTGATATCa > 1:52506/1‑70 (MQ=255)
aTGACGCTGAAAGACGCCAACGGCAATGTTCTGGAAGTGGTGCCACAACGCGTTGGCTTCCGTGATATCa < 1:1658140/70‑1 (MQ=255)
aTGACGCTGAAAGACGCCAACGGCAATGTTCTGGAAGTGGTGCCACAACGCGTTGGCTTCCGTGATATCa > 1:710876/1‑70 (MQ=255)
aTGACGCTGAAAGACGCCAACGGCAATGTTCTGGAAGTGGTGCCACAACGCGTTGGCTTCCGTGATATCa > 1:232591/1‑70 (MQ=255)
aTGACGCTGAAAGACGCCAACGGCAATGTTCTGGAAGTGGTGCCACAACGCGATGGCTTCCGTGATATCaa < 1:680475/71‑1 (MQ=255)
tGACGCTGAAAGACGCCAACGGCAATGTTCTGGAAGTGGTGCCACAACGCGTTGGCTTCCGTGATATCaa < 1:1280738/70‑1 (MQ=255)
tGACGCTGAAAGACGCCAACGGCAACGTTCTGGAAGTGGTGCCACAAcgcg < 1:1233277/51‑1 (MQ=255)
aCGCTGAAAGACGCCAACGGCAATGTTCTGGAAgtggt > 1:973642/1‑38 (MQ=255)
aCGCTGAAAGACGCCAACGGCAACGTTCTGGAAGTGGTGCCACAACGCGTTGGCTTCCGTGATATCAAAg < 1:2201221/70‑1 (MQ=255)
aGACGCCAACGGCAATGTTCTGGAAGTTGTGCCACAACGCGTTGGCTTCCGTGATATCAAAGTGCGCGACg < 1:1072093/71‑1 (MQ=255)
aGACGCCAACGGCAATGTTCTGGAAGTGGTGCCACAACGCGTTGGCTTCCGTGATATCAAAGTGCGCGACg < 1:1284244/71‑1 (MQ=255)
cGCCAACGGCAATGTTCTGGAAGTGGTGCCACAACGCGTTGTCTTCCGTGATATCAAAGTGCGCGACGGTc > 1:1274283/1‑71 (MQ=255)
aCGGCAATGTTCTGGAAGTGGTGCCACAACGCGTTGGCTTCCGTGATATCAAAGTGCGCGACGGTCTGTTc > 1:810584/1‑71 (MQ=255)
ggCAATGTTCTGGAAGTGGTGCCACAACGCGTTGGCTTCCGTGATATCAAAGTGCGCGACGGTCTGTTCTg > 1:2332969/1‑71 (MQ=255)
ggCAATGTTCTGGAAGTGGTGCCACAACGCGTTGGCTTCCGTGATATCAAAGTGCGCGACGGTCTGTTCTg > 1:2786217/1‑71 (MQ=255)
ggCAACGTTCTGGAAGTGGTGCCACAACGCGTTGGCTTCCGTGATATCAAAGTGCGCGACGGTCTGTTCTg < 1:2323031/71‑1 (MQ=255)
gCAATGTTCTGGAAGTGGTGCCACAACGCGTTGGCTTCCGTGATATCAAAGTGCGCGACGGTCTGTTCTgg < 1:370100/71‑1 (MQ=255)
|
AATGGTCAGCAGAATCCCCTTATCTTTACCATCTGGTCATGACGCTGAAAGACGCCAACGGCAACGTTCTGGAAGTGGTGCCACAACGCGTTGGCTTCCGTGATATCAAAGTGCGCGACGGTCTGTTCTGG > W3110S.gb/3222142‑3222272
|
| 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
