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 |
|
A11 F1 I2 R1
|
760 |
67.6 |
3323148 |
92.7% |
3080558 |
109.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,511,746 |
(A)8→9 |
coding (599/906 nt) |
yhfZ ← |
putative DNA‑binding transcriptional regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,511,738 | 1 | . | A | 94.3%
| 162.5
/ 2.0
| 53 | coding (607/906 nt) | yhfZ | putative DNA‑binding transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base . (1/2); new base A (28/22); total (29/24) |
| Fisher's exact test for biased strand distribution p-value = 5.84e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01 |
CGTCGCCTCTAATCCCAGCATGGTCAGTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCC‑‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGTGTGCGGCCCCAACTCCAGC > NC_000913/3511604‑3511871
|
cgTCGCCTCTAATCCCAGCATGGTCAGTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCC‑‑aa‑aa > 1:858777/1‑139 (MQ=255)
ccAGCATGGTCAGTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTCa < 2:55090/139‑1 (MQ=255)
ggCATGGTCAGTTCGTTTTCGGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGGAAACTCTCGTGATAAGAGAGTTCGACTCGTTCCACATCACTACCGCC‑‑AATAAAAAA‑CATCGGTCATg < 2:98482/138‑1 (MQ=255)
aTGGTCAGTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTCATGAtt < 1:208651/139‑1 (MQ=255)
ggTCAGTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTCATGAtttt > 2:194411/1‑139 (MQ=255)
tCAGTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCt > 2:1179982/1‑139 (MQ=255)
gTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGAt > 1:636009/1‑139 (MQ=255)
tttCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTCATg < 1:1097595/123‑1 (MQ=255)
tttCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTCATg > 2:1097595/1‑123 (MQ=255)
ttCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCAAAA‑AAAAAA‑CATCGGTCATGATTTTCTGATccgccg < 2:858777/139‑1 (MQ=255)
gCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACgg < 1:1593786/139‑1 (MQ=255)
gATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCC‑‑AA‑AAAAAACCATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCAc > 2:932185/1‑139 (MQ=255)
aTCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCAcg > 2:1034516/1‑139 (MQ=255)
aCCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTc > 2:141810/1‑97 (MQ=255)
aCCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTc < 1:141810/97‑1 (MQ=255)
aCCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCAcg > 1:915318/1‑136 (MQ=255)
aCCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCAcg < 2:915318/136‑1 (MQ=255)
cGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCtt > 2:994157/1‑139 (MQ=255)
cGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCtt > 1:538464/1‑139 (MQ=255)
cGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCtt > 1:1648660/1‑139 (MQ=255)
cGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AA‑AAAAAA‑CACCGGACATGAATTTCTCATCCACCCAACCGTTATCCAGACCCAccagctc > 1:505023/1‑133 (MQ=255)
cGCATCGACATCGCCTTGAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACAACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCtt > 2:948884/1‑139 (MQ=255)
cATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACCCGCTTCa > 1:1377721/1‑139 (MQ=255)
tCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCg < 1:1034516/139‑1 (MQ=255)
cGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCgg < 2:1548491/139‑1 (MQ=255)
gCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGa < 1:948884/139‑1 (MQ=255)
cTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCC‑‑AA‑AAAAAACCATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACt < 1:932185/139‑1 (MQ=255)
tAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGa > 2:1417421/1‑134 (MQ=255)
tAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGa < 1:1417421/134‑1 (MQ=255)
tGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGa < 2:203625/128‑1 (MQ=255)
tGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGa > 1:203625/1‑128 (MQ=255)
tGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTAc > 1:885405/1‑139 (MQ=255)
tAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGa > 2:1103257/1‑121 (MQ=255)
tAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGa < 1:1103257/121‑1 (MQ=255)
tcGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCAAAA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACt < 1:459967/117‑1 (MQ=255)
tcGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCAAAA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACt > 2:459967/1‑117 (MQ=255)
aTAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTc < 2:1648660/139‑1 (MQ=255)
tAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCg < 2:885405/139‑1 (MQ=255)
aTCGACTCGTTCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATccg > 2:453634/1‑60 (MQ=255)
aTCGACTCGTTCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATccg < 1:453634/60‑1 (MQ=255)
aTCGACTCGTTCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTa > 2:1141498/1‑139 (MQ=255)
cGACTCGTTCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGa < 1:1297498/98‑1 (MQ=255)
cGACTCGTTCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGa > 2:1297498/1‑98 (MQ=255)
tCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCtt < 1:927369/78‑1 (MQ=255)
tCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCtt > 2:927369/1‑78 (MQ=255)
tCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTg < 2:477756/117‑1 (MQ=255)
tCCACATCACTACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTg > 1:477756/1‑117 (MQ=255)
cTACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGTGTGCg < 1:1327971/128‑1 (MQ=255)
cTACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGTGTGCg > 2:1327971/1‑128 (MQ=255)
cTACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGTGTGCGGCCCCAACTcc > 1:254089/1‑139 (MQ=255)
tACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGc < 2:1233245/94‑1 (MQ=255)
tACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGc > 1:1233245/1‑94 (MQ=255)
tACCGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGTGTGCGGCCCCAACTCCa > 1:36730/1‑139 (MQ=255)
ccGCCA‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGTGTGCGGCCCCAACTCCAgc > 1:228413/1‑139 (MQ=255)
|
CGTCGCCTCTAATCCCAGCATGGTCAGTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCC‑‑AA‑AAAAAA‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGTGTGCGGCCCCAACTCCAGC > NC_000913/3511604‑3511871
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
