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 |
|
A25 F54 I1 R1
|
119 |
63.3 |
2848040 |
95.5% |
2719878 |
127.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
CP006881 |
3,725,237 |
A→G |
intergenic (‑69/‑460) |
U712_19205 ← / → U712_19210 |
Uncharacterized protein ywcI/Minor extracellular protease vpr |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP006881 | 3,725,237 | 0 | A | G | 80.0%
| 80.6
/ 0.1
| 40 | intergenic (‑69/‑460) | U712_19205/U712_19210 | Uncharacterized protein ywcI/Minor extracellular protease vpr |
| Reads supporting (aligned to +/- strand): ref base A (0/0); major base G (21/11); minor base C (0/8); total (21/19) |
| Fisher's exact test for biased strand distribution p-value = 9.83e-04 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAGC‑C‑TTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCACGGGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCAAC > CP006881/3725119‑3725353
|
ttCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAGC‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGCAAAGACGGCCGAtt > 4:121211/1‑139 (MQ=255)
ttCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAGC‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAtt > 2:59642/1‑139 (MQ=255)
ttCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAGC‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAtt > 6:59322/1‑139 (MQ=255)
ttCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAGC‑CGTTTTT‑GCAGCCCGTTTTCTAAGCCGCAGCCCGCAAGAAAATACGGCCGAtt > 8:139905/1‑139 (MQ=255)
caAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCCGG‑CAGC‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCCAGAAAAGACGGCCGAgttagtt > 6:26501/1‑135 (MQ=255)
aaaccccacccacACCCGTAAAGATACAAGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTGCTTTTTGGCAGG‑CAGC‑CTTTTTC‑GCAGCCCGTTTTCTCAGCCGCCGCCCGCAAGAAACGACGGCCGAtttcttttct < 1:41696/134‑1 (MQ=255)
aaaGACCAACCACACCCGTAAAGATACAAGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CCGC‑CTTTTTA‑GCAGCCCTTTTTCTCAGCCGCAGCCCGCAACAAACGACGGCCGAtttcttttct < 3:34100/139‑1 (MQ=255)
aGACCATCCACACCCGTAAAGATACAAGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAGC‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCg > 4:300285/1‑139 (MQ=255)
aGACCATCCACACCCGTAAAGATACAAGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAGC‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCg > 3:85162/1‑139 (MQ=255)
aTCCACCCCCGTAAAGATACAAGCAACCGGTTC‑ATAGAACAACATCCCTCCGCTGCTGTTTGGCGGG‑CAGC‑CGTTTTC‑GCAGCCCGTTTTGTCAGCCGCGGCCCGCAAGAGAAGGCGGCCGATGTCTTTGCTCGctatc > 4:43261/1‑135 (MQ=255)
tAAAGATACAAGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑GAGC‑CTTTTTA‑GCAGCCCGTTTTATCCGCCGCAGCCCGCAAGAAAAGCCGGCCGATTTCTTTTGTCGCAAACTAGCGGctcaa > 5:352098/1‑137 (MQ=255)
acaTACACGCAAACGTTTC‑ATACAAAAACACCCCTCCGCTTGTTTTTGGCAGG‑CAGC‑CTTTTTA‑CCACCCCGTTTTCACCCCCCCCCCCCGCAATAAACGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCa < 5:59322/137‑1 (MQ=255)
aCAAGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAGC‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCCAACTAGCGGCTCTAGCAAAAc > 4:171456/1‑139 (MQ=255)
aCAAGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAGC‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTGTAGCaaaa > 6:336577/1‑138 (MQ=255)
aCAAGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAGC‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCaaaa > 7:347413/1‑138 (MQ=255)
aCAAGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAGC‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAAc > 3:273990/1‑139 (MQ=255)
aCAAGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAGC‑CGTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTGTTTTCTCGCAAAATAGCGGCTCGAGCaaaa > 5:214196/1‑138 (MQ=255)
aCAAGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTGCGTTTTGGCAGG‑CAGC‑CGGTTTA‑GCAGCCCGTTTTCTCAGCCGCCGCCCGCAAGAAAAGACGGCCGATTTGTTGTGTCGCCAACTAGCGGCTCGAGCaaacc > 6:277896/1‑137 (MQ=255)
aaGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAGC‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAAATAGCGGCTCTAGCAAAAcg > 3:332048/1‑137 (MQ=255)
gaaaaCGTTTC‑AAACAAAAACATCCCCCCGCTTTTTTTTGGCAGG‑CAGC‑CTTTTTC‑GCCGCCCGTTTTCTCCGCCGCCGCCCCCAATAAAACACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCAt < 8:347413/137‑1 (MQ=255)
gCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CCGC‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCAt < 7:11250/139‑1 (MQ=255)
gCAAACGTTTA‑ATATAAAAACATCCCTCCGCTTCTTTTTGGCCGG‑CAGC‑CTTTTTA‑GCAGCCCGTTTTCTCACCCGCAGCCCCCAATAAACGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCAt < 7:197592/139‑1 (MQ=255)
ccAAAGGTTTC‑ATACAAAAACATCCCCCCGCTTCTTTTTGGCCGG‑CCGC‑CTTTTTC‑GCCGCCGGTTTTCTCAGCCGCAGCCCCAAATAAAACACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCAt < 3:303777/138‑1 (MQ=255)
ccAAACTTTTA‑ATACAAAAACACCCCTCCGATTTTTTTTGGCCGG‑CACCAT‑TTTTA‑GCCCCCCTTTTACCCCCCCGCCCCCCCAAAAAAAACACGGCCGATTTCTTTTCTCGCAAAAAAGCGGCTCTAGCAAAACTCAt < 5:90459/138‑1 (MQ=255)
aaagttttC‑ATAAAAAAACACCCCCCCGCTTATTTTGGCCCGG‑CCGCTT‑TTTTC‑CCCCCCCGTTTGCTCCCCCCCCGCCCGCAACAAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGa < 5:336577/134‑1 (MQ=255)
aaaCGTTTC‑AAACAAAAACAACCCTCCGCTTCTTTTTGGCCGG‑CACC‑CTTTTTA‑GCAGCCCGTTTTCTCCGCCGCCGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGa < 7:7458/139‑1 (MQ=255)
aaCGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAGC‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGa > 4:349867/1‑138 (MQ=255)
ccGTTTC‑ATCCAAAAACACCCCACGGCTTTTTTTTGCCCGC‑CCGC‑CTTTTTC‑CCCGCCCGTTTTCCCCGCCGCCCCCCGACAGAAACGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct < 8:75082/138‑1 (MQ=255)
ccGTTTC‑ATACAAAAACACCCCCCCGCTTCTTTTGGGCCGC‑CCGC‑C‑TTTTACCCCGCCCGTTTTCCCAGCCCCCCCCCCAAACAAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct < 4:150519/138‑1 (MQ=255)
ccGTTAC‑ATACAAAAAAAGCCCTCCGCTTATTTGTGCCCGC‑CCGC‑CTTTTTC‑GCCGCCCGTTTTCCCCGCCGCACCCCGCAACAAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct < 8:350348/138‑1 (MQ=255)
aCGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAGC‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAc > 3:164273/1‑138 (MQ=255)
aCGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAGC‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCCCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct < 7:220345/139‑1 (MQ=255)
aCGTTAC‑AAAAAAAAACAACCCCCCCCTTATTTTTGGCCGC‑CCCC‑C‑TTTTACCCCCCCCGTTTCCCCCCCCCCCCCCCCCACCAACACACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct < 4:273990/139‑1 (MQ=255)
agTTTCAATACAAAAAAATCCCTCCTCTTTTTTTTGGCTGG‑CCGCTT‑TTTTC‑GCACCCGTTTTTCTCCGCCCCCGCCCCAAAAAAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGAct < 4:164273/138‑1 (MQ=255)
tAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCCGGC‑T‑TTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAGTTCTTTTCTCGCAAACTAGCGGCTCGAGCAAAACTCATGACTCTATGa > 1:278554/1‑137 (MQ=255)
cATCCCTCCGCTTCTTTTTGGCAGG‑CAGC‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTgg < 6:120603/139‑1 (MQ=255)
cATCCCTCCGCTTCTTTTTGGCAGG‑CAGC‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTgg < 3:349867/139‑1 (MQ=255)
cGCTTCTTTTTGGCAGG‑CAGC‑CTTTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAGTTCTTTTGTGGCCAAATAGCGGCTCGAGCAACACTCATGCCTAGATTGTATACCGGGGaaatataa > 4:27638/1‑134 (MQ=255)
gcCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTACCAAAAATCATTACTCTATGATAGACCGTGGAAAGAGAATTATTTGTCAAAATATGATTGAAAAAACCa > 3:333266/1‑138 (MQ=255)
cccGTTTTCCCCCCCGCAGCCCGAAACAAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCAAc < 3:300285/139‑1 (MQ=255)
|
TTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTC‑ATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGG‑CAGC‑C‑TTTTA‑GCAGCCCGTTTTCTCAGCCGCAGCCCACGGGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCAAC > CP006881/3725119‑3725353
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
