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 |
|
A8 F1 I1 R1
|
771 |
44.8 |
2153074 |
94.1% |
2026042 |
109.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,624,356 |
(T)8→6 |
coding (141‑142/393 nt) |
ydeI ← |
hydrogen peroxide resistance OB fold protein, putative periplasmic protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,624,350 | 0 | T | . | 97.5%
| 158.3
/ ‑1.9
| 40 | coding (148/393 nt) | ydeI | hydrogen peroxide resistance OB fold protein, putative periplasmic protein |
| Reads supporting (aligned to +/- strand): ref base T (1/0); new base . (17/22); total (18/22) |
| Fisher's exact test for biased strand distribution p-value = 4.50e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.56e-01 |
| * | NC_000913 | 1,624,351 | 0 | T | . | 90.0%
| 128.9
/ 11.4
| 40 | coding (147/393 nt) | ydeI | hydrogen peroxide resistance OB fold protein, putative periplasmic protein |
| Reads supporting (aligned to +/- strand): ref base T (2/2); new base . (16/20); total (18/22) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.94e-01 |
GCAGGAATAACGACATTAATTTCACCGCTCTTATCGCGAAAAACGTAACGGTCCTCTCCTTTGTGAGAAATCAAATTACCGCGTAGTGAAACCGAAGCGCCATCGTGCATGGTTTTTGCGAAATCAACGGTCATTTTTTTTGCATCATCGGTTCCGCGATAGCCATCTTCTATTGCATGAGGCGGCGGTGGCGCTGCATCCTGTTTTAAACCGCCCTGGTCATCTGCCAACGCATAAGGCATGACAAGAAAACTTGCTAATACA > NC_000913/1624217‑1624480
||
gCAGGAATAACGACATTAATTTCACCGCTCTTATCGCGAAAAACGTAACGGTCCTCTCCTTTGTGAGAAATCAAATTACCGCGTAGTGAAACCGAAGCGCCATCGTGCACGGTTTTTGCGAAATCAACGGTCAtttttt < 1:717586/139‑1 (MQ=255)
aaCGACATTAATTTCACCGCTCTTATCGCGAAAAACGTAACGGTCCTCTCCTTTGTGAGAAATCAAATTACCGCGTAGTGAAACCGAAGCGCCATCGTGCATGGTTTTTGCGAAATCAACGGTCA‑TTTTTTTGcatcat < 1:636141/139‑1 (MQ=255)
aTTTCCCCGCTCTTATCGCGAAAAACGTAACGGTCCTCTCCTTTGTGAGAAATCAAATTACCGCGTAGTGAAACCGAAGCGCCATCGTGCATGGTTTTTGCGAAATCAACGGTCA‑‑TTTTTTGCATCATCGGTTCCGCGa < 1:1073792/139‑1 (MQ=255)
tttCACCGCTCTTATCGCGAAAAACGTAACGGTCCTCTCCTTTGTGAGAAATCAAATTACCGCGTAGTGAAACCGAAGCGCCATCGTGCATGGTTTTTGCGAAATCAACGGTCA‑‑TTTTTTGCATCATCGGTTCCGCGAt < 1:699885/139‑1 (MQ=255)
aCCGCTCTTATCGCGAAAAACGTAACGGTCCTCTCCTTTGTGAGAAATCAAATTACCGCGTAGTGAAACCGAAGCGCCATCGTGCATGGTTTTTGCGAAATCAACGGTCA‑‑TTTTTTGCATCATCGGTTCCGCGATAGcc > 2:538510/1‑139 (MQ=255)
aCCGCTCTTATCGCGAAAAACGTAACGGTCCTCTCCTTTGTGAGAAATCAAATTACCGCGTAGTGAAACCGAAGCGCCATCGTGCATGGTTTTTGCGAAATCAACGGTCA‑‑TTTTTTGCATCATCGGTTCCGCGATAGcc > 1:44974/1‑139 (MQ=255)
aCCGCTCTTATCGCGAAAAACGTAACGGTCCTCTCCTTTGTGAGAAATCAAATTACCGCGTAGTGAAACCGAAGCGCCATCGTGCATGGTTTTTGCGAAATCAACGGTCA‑‑TTTTTTGCATCATCGGTTCCGCGATAGcc < 1:545425/139‑1 (MQ=255)
ctgCTATTAACGCGAAAAACGTAACGGTCCCGACAGTTGGGAGAAATGAGATTACCGCGTAGTGAAACCGAAGCGCCTTCGTGCATGGTTTTTGCGAAATCAACGGTCA‑TTTTTTTGCATCATCGGTTCCGCGATAGcc < 2:941253/137‑1 (MQ=255)
cGCTCTTATCGCGAAAAACGTAACGGTCCTCTCCTTTGTGAGAAATCAAATTACCGCGTAGTGAAACCGAAGCGCCATCGTGCATGGTTTTTGCGAAATCAACGGTCA‑‑TTTTTTGCATCATCGGTTCCGCGATAGCCAt < 2:51536/139‑1 (MQ=255)
ctctTATCGCGAAAAACGTAACGGTCCTCTCCTTTGTGAGAAATCAAATTACCGCGTAGTGAAACCGAAGCGCCATCGTGCATGGTTTTTGCGAAATCAACGGTCA‑‑TTTTTTGCATCATCGGTTCCGCGATAGCCAtct > 1:51901/1‑139 (MQ=255)
ctctTATCGCGAAAAACGTAACGGTCCTCTCCTTTGTGAGAAATCAAATTACCGCGTAGTGAAACCGAAGCGCCATCGTGCATGGTTTTTGCGAAATCAACGGTCA‑‑TTTTTTGCATCATCGGTTCCGCGATAGCCAtct < 1:538510/139‑1 (MQ=255)
aaaaaCGTAACGGTCCTCTCCTTTGTGAGAAATCAAATTACCGCGTAGTGAAACCGAAGCGCCATCGTGCATGGTTTTTGCGAAATCAACGGTCA‑‑TTTTTTGCATCATCGGTTCCGCGATAGCCATCTTCTATTGCATg > 1:275549/1‑139 (MQ=255)
gTAACGGTCCTCTCCTTTGTGAGAAATCAAATTACCGCGTAGTGAAACCGAAGCGCCATCGTGCATGGTTTTTGCGAAATCAACGGTCA‑‑TTTTTTGCATCATCGGTTCCGCGATAGCCATCTTCTATTGCATGAggcgg < 2:144839/139‑1 (MQ=255)
gTAACGGTCCTCTCCTTTGTGAGAAATCAAATTACCGCGTAGTGAAACCGAAGCGCCATCGTGCATGGTTTTTGCGAAATCAACGGTCA‑‑TTTTTTGCATCATCGGTTCCGCGATAGCCATCTTCTATTGCATGAggcgg < 2:51901/139‑1 (MQ=255)
ctctCCTTTGTGAGAAATCAAATTACCGCGTAGTGAAACCGAAGCGCCATCGTGCATGGTTTTTGCGAAATCAACGGTCA‑‑TTTTTTGCATCATCGGTTCCGCGATAGCCATCTTCTATTGCATGAGGCGGCGGTGgcgc > 2:786173/1‑139 (MQ=255)
tttGTGAGAAATCAAATTACCGCGTAGTGAAACCGAAGCGCCATCGTGCATGGTTTTTGCGAAATCAACGGTCA‑‑TTTTTTGCATCATCGGTTCCGCGATAGCCATCTTCTATTGCATGAGGCGGCGGTGGCGCTGCATc < 2:673265/139‑1 (MQ=255)
tgtgAGAAATCAAATTACCGCGTAGTGAAACCGAAGCGCCATCGTGCATGGTTTTTGCGAAATCAACGGTCA‑‑TTTTTTGCATCATCGGTTc < 1:622486/91‑1 (MQ=255)
tgtgAGAAATCAAATTACCGCGTAGTGAAACCGAAGCGCCATCGTGCATGGTTTTTGCGAAATCAACGGTCA‑‑TTTTTTGCATCATCGGTTCCGCGa > 1:489927/1‑96 (MQ=255)
tgtgAGAAATCAAATTACCGCGTAGTGAAACCGAAGCGCCATCGTGCATGGTTTTTGCGAAATCAACGGTCA‑‑TTTTTTGCATCATCGGTTCCGCGa < 2:489927/96‑1 (MQ=255)
tgagagaAATCGAATTACCGCGTAGTGAAACCGAAGCGCCATCGTGCATGGTCTTTGCGAAATCAACGGTCA‑‑TTTTTTGCATCATCGGTTc > 2:622486/4‑91 (MQ=255)
aTCAAATTACCGCGTAGTGAAACCGAAGCGCCATCGTGCATGGTTTTTGCGAAATCAACGGTCA‑‑TTTTTTGCATCATCGGTTCCGCGATAg < 1:354796/91‑1 (MQ=255)
aTCAAATTACCGCGTAGTGAAACCGAAGCGCCATCGTGCATGGTTTTTGCGAAATCAACGGTCA‑‑TTTTTTGCATCATCGGTTCCGCGATAg > 2:354796/1‑91 (MQ=255)
cgcgTAGTGAAACCGAAGCGCCATCGTGCATGGTTTTTGCGAAATCAACGGTCA‑‑TTTTTTGCATCATCGGTTCCGCGATAGCCATCTTCTa < 2:958926/91‑1 (MQ=255)
cgcgTAGTGAAACCGAAGCGCCATCGTGCATGGTTTTTGCGAAATCAACGGTCA‑‑TTTTTTGCATCATCGGTTCCGCGATAGCCATCTTCTa > 1:958926/1‑91 (MQ=255)
gcgTAGTGAAACCGAAGCGCCATCGTGCATGGTTTTTGCGAAATCAACGGTCA‑‑TTTTTTGCATCATCGGTTCCGCGATAGCCATCTTCTATTGCATGAGGCGGCGGTGGCGCTGCATcc > 1:333165/1‑119 (MQ=255)
gcgTAGTGAAACCGAAGCGCCATCGTGCATGGTTTTTGCGAAATCAACGGTCA‑‑TTTTTTGCATCATCGGTTCCGCGATAGCCATCTTCTATTGCATGAGGCGGCGGTGGCGCTGCATcc < 2:333165/119‑1 (MQ=255)
gcgTAGTGAAACCGAAGCGCCATCGTGCATGGTTTTTGCGAAATCAACGGTCA‑‑TTTTTTGCATCATCGGTTCCGCGATAGCCATCTTCTATTGCATGAGGCGGCGGTGGCGCTGCATCCTGTTTTAAACCGCCCTGGTc > 2:697074/1‑139 (MQ=255)
aGTGAAACCGAAGCGCCATCGTGCATGGTTTTTGAGAAATCAACGGTCATTTTTTTTGCTTCATCGCTTCTGCGATAGCCATCTTCTATTGCATGAGGCGGCGGTGGCGCTGCATCCTGTTTTAAACCGCCCTGGTCAt > 2:359739/1‑139 (MQ=255)
gAAACCGAAGCGCCATCGTGCATGGTTTTTGCGAAATCAACGGTCA‑‑TTTTTTGCATCATCGGTTCCGCGATAGCCATCTTCTATTGCATGAGGCGGCGGTGGCGCTGCATCCTGTTTTAAACCGCCCTGGTCATCTGcc < 1:818108/139‑1 (MQ=255)
gAAGCGCCATCGTGCATGGTTTTTGCGAAATCAACGGTCA‑‑TTTTTTGCATCATCGGTTCCGCGATAGCCATCTTCTATTGCATGAGGCGGCGGTGGCGCTGCATCCTGTTTTAAACCGCCCTGGTCATCTGCCAACGCa < 1:786173/139‑1 (MQ=255)
gcgcCATCGTGCATGGTTTTTGCGAAATCAACGGTCA‑TTTTTTTGCATCATCGGTTCCGCGATAGCCATCTTCTATTGCATGAGGCGGCGGTGGCGCTGCATCCTGTTTTAAACCGCCCTGGTCATCTGCCAACGCATa > 2:881056/1‑139 (MQ=255)
gcgcCATCGTGCATGGTTTTTGCGAAATCAACGGTCA‑‑TTTTTTGCATCATCGGTTCCGCGATAGCCATCTTCTATTGCATGAGGCGGCGGTGGCGCTGCATCCTGTTTTAAACCGCCCTGGTCATCTGCCAACGCATaa > 1:334523/1‑139 (MQ=255)
gcCATCGTGCATGGTTTTTGCGAAATCAACGGTCA‑‑TTTTTTGCATCATCGGTTCCGCGATAGCCATCTTCTATTGCATGAGGCGGCGGTGGCGCTGCATCCTGTTTTAAACCGCCCTGGTCATCTGCCAACGCATAAgg > 1:782707/1‑139 (MQ=255)
ggTTTTTGCGAAATCAACGGTCA‑‑TTTTTTGCATCATCGGTTCCGCGATAGCCATCTTCTATTGCATGAGGCGGCGGTGGCGCTGCATCCTGTTTTAAACCGCCCTGGTCATCTGCCAACGCATAAGGCATGACAAGaaa > 2:866158/1‑139 (MQ=255)
gTTTTTGCGAAATCAACGGTCA‑‑TTTTTTGCATCATCTGTTCCGCGATAGCCATCTTCTATTGCATGAGGCGGCGGTGGCGCTGCATCCTGTTTTAAACCGCCCTGATCATCTGCCAACGCATAAGGCATGACAAGaaaa < 2:782707/139‑1 (MQ=255)
gTTTTTGCGAAATCAACGGTCA‑‑TTTTTTGCATCATCGGTTCCGCGATAGCCATCTTCTATTGCATGAGGCGGCGGTGGCGCTGCATCCTGTTTTAAACCGCCCTGGTCATCTGCCAACGCATAAGGCATGACAAGaaaa < 1:986644/139‑1 (MQ=255)
tGCGAAATCAACGGTCA‑‑TTTTTTGCATCATCGGTTCCGCGATAGCCATCTTCTATTGCATGAGGCGGCGGTGGCGCTGCATCCTGTTTTAAACCGCCCTGGTCATCTGCCAACGCATAAGGCATGACAAGAAAACTTGc < 1:624040/139‑1 (MQ=255)
cGAAATCAACGGTCA‑‑TTTTTTGCATCATCGGTTCCGCGATAGCCATCTTCTATTGCATGAGGCGGCGGTGGCGCTGCATCCTGTTTTAAACCGCCCTGGTCATCTGCCAACGCATAAGGCATGACAAGAAAACTTGCTa < 2:44974/139‑1 (MQ=255)
aaTCAACGGTCA‑‑TTTTTTGCATCATCGGTTCCGCGATAGCCATCTTCTATTGCATGAGGCGGCGGTGGCGCTGCATCCTGTTTTAAACCGCCCTGGTCATCTGCCAACGCATAAGGCATGACAAGAAAACTTGCTAATa > 2:890425/1‑139 (MQ=255)
aTCAACGGTCA‑‑TTTTTTGCATCATCGGTTCCGCGATAGCCATCTTCTATTGCATGAGGCGGCGGTGGCGCTGCATCCTGTTTTAAACCGCCCTGGTCATCTGCCAACGCATAAGGCATGACAAGAAAACTTGCTAATAc > 2:45855/1‑139 (MQ=255)
tCAACGGTCA‑‑TTTTTTGCATCATCGGTTCCGCGATAGCCATCTTCTATTGCATGAGGCGGCGGTGGCGCTGCATCCTGTTTTAAACCGCCCTGGTCATCTGCCAACGCATAAGGCATGACAAGAAAACTTGCTAATACa < 2:883285/139‑1 (MQ=255)
||
GCAGGAATAACGACATTAATTTCACCGCTCTTATCGCGAAAAACGTAACGGTCCTCTCCTTTGTGAGAAATCAAATTACCGCGTAGTGAAACCGAAGCGCCATCGTGCATGGTTTTTGCGAAATCAACGGTCATTTTTTTTGCATCATCGGTTCCGCGATAGCCATCTTCTATTGCATGAGGCGGCGGTGGCGCTGCATCCTGTTTTAAACCGCCCTGGTCATCTGCCAACGCATAAGGCATGACAAGAAAACTTGCTAATACA > NC_000913/1624217‑1624480
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
