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 |
|
A9 F200 I1 R1
|
100 |
75.0 |
3643689 |
96.7% |
3523447 |
99.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,008,075 |
A→G |
D189G (GAC→GGC) |
ygeX → |
2,3‑diaminopropionate ammonia lyase, PLP‑dependent |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,008,075 | 0 | A | G | 98.0%
| 170.1
/ ‑4.1
| 53 | D189G (GAC→GGC) | ygeX | 2,3‑diaminopropionate ammonia lyase, PLP‑dependent |
| Reads supporting (aligned to +/- strand): ref base A (0/1); new base G (29/21); total (30/23) |
| Fisher's exact test for biased strand distribution p-value = 4.31e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.84e-01 |
GCCGAGTGCATCGTCACGGATATGAACTATGACGATACCGTTCGCCTGACCATGCAACACGCGCAGCAGCACGGCTGGGAAGTGGTACAGGACACGGCATGGGAAGGTTACACCAAAATCCCAACCTGGATCATGCAAGGCTACGCAACCCTGGCAGATGAAGCCGTCGAGCAAATGCGTGAAATG > NC_000913/3007984‑3008169
|
gCCGAGTGCATCGTCACGGATATGAACTATGACGATACCGTTCGCCTGACCATGCAACACGCGCAACAGCACGGCTGGGAAGTGGTACAGGGCACGGCAt > 2:1708/1‑100 (MQ=255)
ccGAGTGCATCGTCACGGATATGAACTATGACGATACCGTTCGCCTGACCATGCAACACGCGCAGCAGCACGGCTGGGAAGTGGTACAGGGCACGGCATg < 1:223271/100‑1 (MQ=255)
cGAGTGCATCGTCACGGATATGAACTATGACGATACCGTTCGCCTGACCATGCAACACGCGCAGCAGCACGGCTGGGAAGTGGTACAGGGCACGGCATgg > 1:1505131/1‑100 (MQ=255)
gTGCATCGTCACGGATATGAACTATGACGATACCGTTCGCCTGACCATGCAACACGCGCAGCAGCACGGCTGGGAAGTGGTACAGGGCACGGCATGGGaa < 1:455603/100‑1 (MQ=255)
gATATGAACTATGACGATACCGTTCGCCTGACCATGCAACACGCGCAGCAGCACGGCTGGGAAGTGGTACAGGGCACGGCATAGGAAGGTTACACCaaaa > 2:992916/1‑100 (MQ=255)
tatGAACTATGACGATACCGTTCGCCTGACCATGCAACACGCGCAGCAGCACGGCTGGGAAGTGGTACAGGGCACGGCATGGGAAGGTTACACCAAAATc > 1:111093/1‑100 (MQ=255)
atGAACTATTACGATACTGTTCGCCTGACCATGCAACACGCGCAGCAGCACGGCTGGGAAGTGGTACAGGGCACGGCATGGGAAGGTTACACCAAAATcc < 2:761032/100‑1 (MQ=255)
tGAACTATGACGATACCGTTAGCCTGACCATGCAACACGCGCAGCAGCACGGCTGGGAAGTGGTACAGGGCACGGCATGGGAAGGTTACACCAAAATccc > 1:1111319/1‑100 (MQ=255)
gAACTATGACGATACCGTTCGCCTGACCATGCAACACGCGCAGCAGCACGGCTGGGAAGTGGTACAGGGCACGGCATGGGAAGGTTACACCAAAATCCCa < 1:1429534/100‑1 (MQ=255)
aCTATGACGATACCGTTCGCCTGACCATGCAACACGCGCAGCAGCACGGCTGGGAAGTGGTACAGGGCACGGCATGGGAAGGTTACACCAAAATCCCaa > 2:1174906/1‑99 (MQ=255)
cTATGACGATACCGTTCGCCTGACCATGCAACACGCGCAGCAGCACGACTGGGAAGTGGTACAGGGCACGGCATGGGAAGGTTACACCAAAAACCCAAcc > 2:875841/1‑100 (MQ=255)
tATGACGATACCGTTCGCCTTACCATGCAACTCGCGCAGCAGCACGGCTGGGAAGTGGTACAGGGGACGGCATGGGAAGGTTACACCAAAATCCCAAc < 2:99192/98‑1 (MQ=255)
tATGACGATACCGTTCGCCTGACCATGCAACACGCGCAGCAGCACGGCTGGGAAGTGGTACAGGGCACGGCATGGGAAGGTTACACCAAAATCCCAACCt > 1:1389332/1‑100 (MQ=255)
tGACGATACCGTTCGCCTGACCATGCAACACGCGCAGCAGCACGGCTGGGAAGTGGTACAGGGCACGGCATGGGAAGGTTACACCAAAATCCCAACCTgg > 2:384602/1‑100 (MQ=255)
tGACGATACCGTTCGCCTGACCATGCAACACGCGCAGCAGCACGGCTGGGAAGTGGTACAGGGCACGCCATGGGAAGGTTACACCAAAATCCCAACCTgg > 1:578941/1‑100 (MQ=255)
tGACGATACCGTTCGCCTGACCATGCAACACGCGCAGCAGCACGGCTGGGAAGTGGTACAGGACACGGCATGGGAAGGTTACACCAAAATCCCAACCTgg < 2:1152080/100‑1 (MQ=255)
gACAATAACGTTCGACTGACCATGCAACACGCGCAGCAGCACGGCAGGACAGAGGTAAAGGCCGCGGCATGGGAAGGTTACACCAAAATCCCAAc > 1:1081848/1‑95 (MQ=255)
cGATACCGTTCGCCTGACCATGCAACACGCGCAGCAGCACGGCTGGGAAGTGGTACAGGGCACGGCATGGGAAGGTTACACCAAAATCCCAACCTGGATc < 2:1603201/100‑1 (MQ=255)
cGATACCGTTCGCCTGACCATGCAACACGCGCAGCAGCACGGCTGGGAAGTGGTACAGGGCACGGCATGGGAAGGTTACACCAAAATCCCAACCTGGATc > 2:1530787/1‑100 (MQ=255)
gATACCGTTCGCCTGACCATGCAACACGCGCAGCAGCACGGCTGGGAAGTGGTACAGGGCACGGCATGGGAAGGTTACACCAAAATCCCAACCTGGATCa < 1:1463563/100‑1 (MQ=255)
ccGTTCGCCTGACCATGCAACACGCGCAGCAGCCCGGCTGGGAAGTGGTACAGGGCACGGCATGGGAATATAACACAAAAATCCAAACATGGATCATTCa > 2:573645/1‑100 (MQ=255)
ccGTTCGCCTGACCATGCAACACGCGCAGCAGCACGGCTGGGAAGTGGTACAGGGCACGGCATGGGAAGGTTACACCAAAATCCCAACCTGGATCATGCa > 2:893601/1‑100 (MQ=255)
cTGACCATGCAACACGCGCAGCAGCACGGCTGGGAAGTGGTACAGGGCACGGCATGGGAAGGTTACACCAAAATCCCAACCTGGATCATGCAAGGCTACg < 2:1389342/100‑1 (MQ=255)
tGACCATGCAACACGCGCAGCAGCACGGCTGGGAAGTGGTACAGGGCACGGCATGGGAAGGTTACACCAAAATCCCAACCTGGATCATGCAAGGCTACGc < 1:424465/100‑1 (MQ=255)
tGACCATGCAACACGCGCAGCAGCACGGCTGGGAAGTGGTACAGGGCACGGCATGGGAAGGTTACACCAAAATCCCAACCTGGATCATGCAAGGCTACGc < 2:1137516/100‑1 (MQ=255)
aTGCAACACGCGCAGCAGCACGGCTGGGAAGTGGTACAGGGCACGGCATGGGAAGGTTACACCAAAATCCCAACCTGGATCATGCAAGGCTACGCAAccc < 1:64782/100‑1 (MQ=255)
tGCAACACGCGCAGCAGCACGGCTGGGAAGTGGTACAGGGCACGGCATGGGAAGGTTACACCAAAATCCCAACCTGGATCATGCAAGGCTACGCAACCCt > 2:1474824/1‑100 (MQ=255)
cacGCGCAGCAGCACGGCTGGGAAGTGGTACAGGGCACGGCATGGGAAGGTTACACCAAAATCCCAACCTGGATCATGCAAGGCTACGCAACCCTGGCAg > 2:34012/1‑100 (MQ=255)
gcgcAGCAGCACGGCTGGGAAGTGGTACAGGGCACGGCATGGGAAGGTTACACCAAAATCCCAACCTGGATCATGCAAGGCTACGCAACCCTGGCAGATg < 1:1104295/100‑1 (MQ=255)
cagctgcaCGGATGGGAAGTGGTACAGGTCACGGTATGGGAAGGTTACACCAAAATCTCAACCTTGTTCATGCAAGGCTACGCAACCCTGGCAGATGAAg < 1:385466/100‑1 (MQ=255)
gcagcaCGGCTGGGAAGTGGTACAGGGCACGGCATGGGAAGGTTACACCAAAATCCCAACCTGGATCATGCAAGGCTACGCAACCCTGGCAGATGAAGcc > 2:112544/1‑100 (MQ=255)
agcaCGGCTGGGAAGTGGTACAGGGCACGGCATGGGAAGGTTACACCAAAATCCCAACCTGGATCATGCAAGGCTACGCAACCCTGGCAGATGAAGCCGt < 1:1621521/100‑1 (MQ=255)
gcaCGGCTGGGAAGTGGTACAGGGCACGGCATGGGAAGGTTACACCAAAATCCCAACCTGGATCATGCAAGGCTACGCAACCCTGGCAGATGAAGCCg > 2:225471/1‑98 (MQ=255)
gcaCGGCTGGGAAGTGGTACAGGGCACGGCATGGGAAGGTTACACCAAAATCCCAACCTGGATCATGCAAGGCTACGCAACCCTGGCAGATGAAGCCGTc < 2:651977/100‑1 (MQ=255)
cGGCTGGGAAGTGGTACAGGGCACGGCATGGGAAGGTTACACCAAAATCCCAACCTGGATCATGCAAGGCTACGCAACCCTGGCAGATGAAGCCGTCGAg > 1:1185556/1‑100 (MQ=255)
ggaggggAAGTGGTACAGGGCACGGCATGGGAAGGTTACACCAAAATCCGAACCTGGAGCATGCAAGGCTACGCAACCCTGGCAGATGAATCCGTCGa < 1:77393/94‑1 (MQ=255)
ggCTGGGAAGTGGTACAGGGCACGGCATGGGAAGGTTACACCAAAATCCCAACCTGGATCATGCAAGGCTACGCAACCCTGGCAGATGAAGCCGTCGAGc < 1:1737326/100‑1 (MQ=255)
ggCTGGGAAGTGGTACAGGGCACGGCATGGGAAGGTTACACCAAAATCCCAACCTGGATCATGCAAGGCTACGCAACCCTGGCAGATGAAGCCGTCGAGc > 1:1816858/1‑100 (MQ=255)
gCTGGGAAGTGGTACAGGGCACGGCATGGGAAGGTTACACCAAAATCCCAACCTGGATCATGCAAGGCTACGCAACCCTGGCAGATGAAGCCGTCGAGCa > 2:290428/1‑100 (MQ=255)
gCTGGGAAGTGGTACAGGGCACGGCATGGGAAGGTTACACCAAAATCCCAACCTGGATCATGCAAGGCTACGCAACCCTGGCAGATGAAGCCGTCGAGCa < 1:1010031/100‑1 (MQ=255)
gggAAGTGGTACAGGGCACGGCATGGGAAGGTTACACCAAAATCCCAACCTGGATCATGCAAGGCTACGCAACCCTGGCAGATGAAGCCGTCGAGCaaa > 2:1586943/1‑99 (MQ=255)
gggAAGTGGTACAGGGCACGGCATGGGAAGGTTACACCAAAATCCCAACCTGGATCATGCAAGGCTACGCAACCCTGGCAGATGAAGCCGTCGAGCAAAt > 2:1439099/1‑100 (MQ=255)
gggAAGTGGTACAGGGCACGGCATGGGAAGGTTACACCAAAATCCCAACCTGGATCATGCAAGGCTACGCAACCCTGGCAGATGAAGCCGTCGAGCAAAt < 1:1708/100‑1 (MQ=255)
gggAAGTGGTACAGGGCACGGCATGGGAAGGTTACACCAAAATCCCAACCTGGATCATGCAAGGCTACGCAACCCTGGCAGATGAAGCCGTCGAGCAAAt > 2:935088/1‑100 (MQ=255)
gAAGTGGTACAGGGCACGGCATAGGAAGGTTACACCAAAATCCCAACCTGGATCATGCAAGGCTACGCAACCCTGGCAGATGAAGCCGTCGAGCAAATg > 1:719849/1‑99 (MQ=255)
aaGTGGTACAGGGCACGGCATGGGAAGGTTACACCAAAATCCCAACCTGGATCATGCAAGGCTACGCAACCCTGGCAGATGAAGCCGTCGAGCAAATGCg > 1:502163/1‑100 (MQ=255)
gTGGTACAGGGCACGGCATGGGAAGGTTACACCAAAATCCCAACCTGGATCATGCAAGGCTACGCAACCCTGGCAGATGAAGCCGTCGAGTAAATGCGTg < 1:1505721/100‑1 (MQ=255)
gTGGTACAGGGCACGGCATGGGAAGGTTACACCAAAATCCCAACCTGGATCATGCAAGGCTACGCAACCCTGGCAGATGAAGCCGTCGAGCAAATGCGTg < 2:73370/100‑1 (MQ=255)
ggTACAGGGCACGGCATGGGAAGGTTACACCAAAATCCCAACCTGGATCATGCAAGGCTACGCAACCCTGGCAGATGAAGCCGTCGAGCAAATGCGTGaa > 1:1368938/1‑100 (MQ=255)
ggTACAGGGCACGGCATGGGAAGGTTACACCAAAATCCCAACCTGGATCATGCAAGGCTACGCAACCCTGGCAGATGAAGCCGTCGAGCAAATGCGTGaa > 1:1359715/1‑100 (MQ=255)
tACAGGGCACGGCATGGGAAGGTTACACCAAAATCCCAACCTGGATCATGCAAGGCTACGCAACCCTGGCAGATGAAGCCGTCGAGCAAATGCGAGAAAt > 2:352575/1‑100 (MQ=255)
aCAGGGCACGGCATGGGAAGGTTAAACCAAAATCCCAACCTGGATCATGCAAGGCTACGCAACCCTGGCAGATGAAGCCGTCGAGCAAATGCGTGAAATg < 1:1711086/100‑1 (MQ=255)
aGGGCACGGCATGGGAAGGTTAAACCAAAATCCCAACCTGGATCATGCAAGGCTACGCAACCCTGGCAGATGAAGCCGTCGAGCAAATGCGTGaa > 1:6739/1‑95 (MQ=255)
|
GCCGAGTGCATCGTCACGGATATGAACTATGACGATACCGTTCGCCTGACCATGCAACACGCGCAGCAGCACGGCTGGGAAGTGGTACAGGACACGGCATGGGAAGGTTACACCAAAATCCCAACCTGGATCATGCAAGGCTACGCAACCCTGGCAGATGAAGCCGTCGAGCAAATGCGTGAAATG > NC_000913/3007984‑3008169
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
