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 |
|
A0 F0 I1 R1
|
715 |
38.4 |
1606192 |
96.6% |
1551581 |
120.0 |
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 | 86.7%
| 82.5
/ 7.0
| 30 | coding (607/906 nt) | yhfZ | putative DNA‑binding transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base . (2/2); new base A (15/11); total (17/13) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.97e-01 |
CGGCGTCGCCTCTAATCCCAGCATGGTCAGTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCC‑AAA‑AAAA‑ACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGTGTGCGGCCCCAACTCCA > NC_000913/3511601‑3511869
|
cggcgTCGCCTCTAATCCCAGCATGGTCAGTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCTCC‑a > 1:155530/1‑139 (MQ=255)
cggcgTCGCCTCTAATCCCAGCATGGTCAGTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCC‑a < 2:415378/139‑1 (MQ=255)
cgTCGCCTCTAATCCCAGCATGGTCAGTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCC‑aaa‑a > 2:581139/1‑139 (MQ=255)
aTCCCAGCATGGTCAATTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCAAAA‑AAAA‑ACATCgg < 2:342937/139‑1 (MQ=255)
ccAGCATGGTCAGTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCAAAA‑AAAA‑ACATCGGTCa < 2:410339/139‑1 (MQ=255)
aGCATGGTCAGTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCAAAA‑AAAA‑ACATCGGTCATg < 1:383853/139‑1 (MQ=255)
tCAGTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCAAAA‑AAAA‑ACATCGGTCATGATTTTCt > 2:158198/1‑139 (MQ=255)
tCGTTTTCCGCCACCACGTTCCAGATCACCGCTTCGACATCGCCTTTAACAATGCGTTGTAACCTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCC‑aaa‑aaaa‑aaacat < 2:50698/120‑6 (MQ=255)
tCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCC‑aaa‑aaaa‑aaacat > 1:50698/1‑115 (MQ=255)
tttCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCAAAA‑AAAA‑ACATCGGTCATGATTTTCTGATccgccg < 2:85277/139‑1 (MQ=255)
tttCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCAAAA‑AAAA‑ACATCGGTCATGATTTTCTGATccgccg > 1:71483/1‑139 (MQ=255)
cGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCC‑AAA‑AAAA‑ACATCGGTCATGATTTTCTGATCCGCCGAACgg < 2:10592/139‑1 (MQ=255)
cGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCAAAA‑AAAA‑ACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCtt > 1:23877/1‑139 (MQ=255)
aCATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCAAAA‑AAAA‑ACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGttt > 2:687449/1‑139 (MQ=255)
aTGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCAAAA‑AAAA‑ACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTa > 1:789599/1‑139 (MQ=255)
tGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCAAAA‑AAAA‑ACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTAc > 1:454265/1‑139 (MQ=255)
gCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCAAAA‑AAAA‑ACATCGGTCATGATTTTCTGATccgccg < 2:306684/90‑1 (MQ=255)
gCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCAAAA‑AAAA‑ACATCGGTCATGATTTTCTGATccgccg > 1:306684/1‑90 (MQ=255)
tAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCC‑AAA‑AAAATACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAAt > 2:79498/1‑139 (MQ=255)
cGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCAAAA‑AAAA‑ACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGt > 1:586951/1‑139 (MQ=255)
gTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCAAAA‑AAAA‑ACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTg < 2:789599/139‑1 (MQ=255)
aaGAGAGATCGACTCGTTCCACATCACTACGCCA‑AAA‑AAAA‑ACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGcc < 1:739329/139‑1 (MQ=255)
agaTCGACTCGTTCCACATCACTACCGCCAAAA‑AAAA‑ACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCATCCCCAcg > 2:587904/1‑85 (MQ=255)
agaTCGACTCGTTCCACATCACTACCGCCAAAA‑AAAA‑ACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCAcg < 1:587904/85‑1 (MQ=255)
agaTCGACTCGTTCCACATCACTACCGCC‑AAACAAAA‑ACATCGGCCACGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCCAATCAACTGGTACTCGCCAACg > 1:245298/1‑139 (MQ=255)
tCGACTCGTTCCACATCACTACCGCCAAAA‑AAAA‑ACATCGGTCATGATTTTCTGATccgccg > 2:550919/1‑62 (MQ=255)
tCGACTCGTTCCACATCACTACCGCCAAAA‑AAAA‑ACATCGGTCATGATTTTCTGATccgccg < 1:550919/62‑1 (MQ=255)
gACTCGTTCCACATCACTACCGCCAAAA‑AAAA‑ACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGgt > 2:328597/1‑139 (MQ=255)
tCGTTCCACATCACTACCGCCAAAA‑AAAA‑ACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGtgtg < 2:801989/139‑1 (MQ=255)
gTTCCACATCACTACCGCCAAAA‑AAAA‑ACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGTGTGCg < 1:687449/139‑1 (MQ=255)
aCTACCGCCAAAA‑AAAA‑ACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAG‑‑GTGCGGCCCCAACTCCa > 2:237233/1‑139 (MQ=255)
cTACCGCCAAAA‑AAAA‑ACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCACCGTAGGTGTGCGGCCCCAACTcc > 1:172471/1‑139 (MQ=255)
tACCGCCAAAA‑AAAA‑ACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGc > 1:323883/1‑85 (MQ=255)
tACCGCCAAAA‑AAAA‑ACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGc < 2:323883/85‑1 (MQ=255)
tACCGCCAAAA‑AAAA‑ACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGTGTGCGGCCCCAACTCCa > 1:9082/1‑139 (MQ=255)
|
CGGCGTCGCCTCTAATCCCAGCATGGTCAGTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCC‑AAA‑AAAA‑ACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGTGTGCGGCCCCAACTCCA > NC_000913/3511601‑3511869
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
