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 |
|
A6 F1 I1 R1
|
750 |
51.0 |
2595496 |
93.6% |
2429384 |
106.4 |
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 | 98.2%
| 169.0
/ ‑3.5
| 54 | coding (607/906 nt) | yhfZ | putative DNA‑binding transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base . (1/0); new base A (28/25); total (29/25) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.11e-01 |
CGTCGCCTCTAATCCCAGCATGGTCAGTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCC‑‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGTGTGCGGCCCCAACTCCA > NC_000913/3511604‑3511869
|
cgTCGCCTCTAATCCCAGCATGGTCAGTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCC‑‑‑aaaa > 2:95584/1‑139 (MQ=255)
tCGCCTCTAATCCCAGCATGGTCAGTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCC‑‑‑aaaaa‑a > 1:327722/1‑139 (MQ=255)
tctAATCCCAGCATGGTCAGTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCC‑‑‑aaaaa‑aaaaca < 1:96613/139‑4 (MQ=255)
cccAGCATGGTCAGTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTc < 2:327722/139‑1 (MQ=255)
cccAGCATGGTCAGTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTc < 2:1072281/139‑1 (MQ=255)
cATGGTCAGTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGAt > 2:34471/1‑139 (MQ=255)
cATGGTCAGTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGAt > 1:844903/1‑139 (MQ=255)
cATGGTCAGTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGAt > 1:671723/1‑139 (MQ=255)
ggTCAGTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGAtttt > 2:15721/1‑139 (MQ=255)
gTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGAt > 1:1099811/1‑139 (MQ=255)
gTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGAt < 2:197062/139‑1 (MQ=255)
tttCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATccgccg < 1:95584/139‑1 (MQ=255)
tttCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATccgccg < 1:826269/139‑1 (MQ=255)
tCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATCCGCCGaa < 2:671723/139‑1 (MQ=255)
gCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATCCGCCGAACgg < 2:1192648/139‑1 (MQ=255)
gCCACCACGTTCCAGATCACCGCATCGAAATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATCCGCCGAACgg < 2:1024540/139‑1 (MQ=255)
ccacGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTAt > 2:613918/1‑139 (MQ=255)
ttCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCC‑‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGcc > 2:116764/1‑139 (MQ=255)
gATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCAc < 1:650966/139‑1 (MQ=255)
aTCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCAcg < 2:1232572/139‑1 (MQ=255)
ccGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCt > 1:741333/1‑139 (MQ=255)
cGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTg > 2:843831/1‑106 (MQ=255)
cGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTg < 1:843831/106‑1 (MQ=255)
cGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCtt > 1:691546/1‑139 (MQ=255)
cGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCtt > 1:1136749/1‑139 (MQ=255)
cGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACAGCCA‑‑AAAAA‑AAACCTCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACCCGCtt > 2:1041701/1‑139 (MQ=255)
cGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGt > 2:505748/1‑139 (MQ=255)
gCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGa < 1:973501/139‑1 (MQ=255)
tGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATg > 2:966603/1‑75 (MQ=255)
tGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATg < 1:966603/75‑1 (MQ=255)
tGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACt > 2:45972/1‑130 (MQ=255)
tGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACt < 1:45972/130‑1 (MQ=255)
tGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTAc > 2:404793/1‑139 (MQ=255)
gTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGc < 1:1004151/139‑1 (MQ=255)
cGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGt < 2:1136749/139‑1 (MQ=255)
aTAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTc < 2:1052670/139‑1 (MQ=255)
agagaTCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATCCGCCGTACGGTTAt < 1:842234/76‑1 (MQ=255)
agagaTCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTAt > 2:842234/1‑76 (MQ=255)
gaTCGACTCGTTCCACATCACTACCGCCAAAAAAAA‑AAACATCGGCCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACCGCAAACCAACCGGTGCTCGCCAAc > 1:201161/1‑139 (MQ=255)
gaTCGACTCGTTCCACATCACTACAGCG‑‑‑AAAAAGAAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGAGTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGt < 2:1074271/139‑1 (MQ=255)
aTCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATccgccg > 1:803477/1‑63 (MQ=255)
aTCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATccgccg < 2:803477/63‑1 (MQ=255)
aTCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCAcg < 1:943254/83‑1 (MQ=255)
aTCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCAcg > 2:81868/1‑83 (MQ=255)
aTCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCAcg < 1:81868/83‑1 (MQ=255)
aTCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCAcg > 2:943254/1‑83 (MQ=255)
aTCGACTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTa > 1:572826/1‑139 (MQ=255)
aCTCGTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGgtg > 2:90665/1‑139 (MQ=255)
gTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGTGTGCg < 1:404793/139‑1 (MQ=255)
gTTCCACATCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGTGTGCg > 2:543687/1‑139 (MQ=255)
cacaTCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGTGTGCGGccc < 1:613918/139‑1 (MQ=255)
caTCACTACCGCCA‑‑AAAAA‑AAACATCGGTGATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTGACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGc > 1:865275/1‑118 (MQ=255)
caTCACTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGc < 2:865275/118‑1 (MQ=255)
cTACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGTGTGCGGCCCCAACTcc > 1:1112932/1‑139 (MQ=255)
tACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATCCGCCGAACgg > 1:654686/1‑48 (MQ=255)
tACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATCCGCCGAACgg < 2:654686/48‑1 (MQ=255)
tACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGTGTGCGGCCCCAACTCCa > 1:463145/1‑139 (MQ=255)
tACCGCCA‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGTGTGCGGCCCCAACTCCa > 1:46618/1‑139 (MQ=255)
|
CGTCGCCTCTAATCCCAGCATGGTCAGTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCC‑‑‑AAAAA‑AAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGTGTGCGGCCCCAACTCCA > NC_000913/3511604‑3511869
|
| 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
