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 |
|
A1 F1 I2 R1
|
765 |
46.1 |
2269152 |
93.8% |
2128464 |
105.7 |
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 | 97.4%
| 119.3
/ ‑3.5
| 38 | coding (607/906 nt) | yhfZ | putative DNA‑binding transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base . (0/1); new base A (21/16); total (21/17) |
| Fisher's exact test for biased strand distribution p-value = 4.47e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CGGCGTCGCCTCTAATCCCAGCATGGTCAGTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCC‑‑AAAAAAAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGTGTGCGGCCCCAACTCCA > NC_000913/3511601‑3511869
|
cggcgTCGCCTCTAATCCCAGCATGGTCAGTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTGTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCC‑‑a > 2:810562/1‑139 (MQ=255)
cgTCGCCTCTAATCCCAGCATGGTCAGTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCC‑‑aaaa > 2:993706/1‑139 (MQ=255)
ccAGCATGGTCAGTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AAAAAAAACATCGGTCa < 1:993706/139‑1 (MQ=255)
aGCATGGTCAGTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AAAAAAAACATCGGTCATg > 1:198071/1‑139 (MQ=255)
tCAGTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AAAAAAAACATCGGTCATGATTTTCt > 1:841879/1‑139 (MQ=255)
tCAGTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AAAAAAAACATCGGTCATGATTTTCt > 2:262141/1‑139 (MQ=255)
tttCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AAAAAAAACATCGGTCATGATTTTCTGATccgccg < 1:262141/139‑1 (MQ=255)
tttCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AAAAAAAACATCGGTCATGATTTTCTGATccgccg < 2:198071/139‑1 (MQ=255)
cGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCC‑‑AAAAAAAACATCGGTCATGATTTTCTGATCCGCCGAACgg < 2:648995/139‑1 (MQ=255)
aGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AAAAAAAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCa < 1:889403/139‑1 (MQ=255)
gATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AAAAAAAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCAc > 1:798865/1‑139 (MQ=255)
aCATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AAAAAAAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCAcg < 1:59887/127‑1 (MQ=255)
aCATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AAAAAAAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCAcg > 2:59887/1‑127 (MQ=255)
aCATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AAAAAAAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGttt > 1:937069/1‑139 (MQ=255)
tCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AAAAAAAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCg < 2:798865/139‑1 (MQ=255)
tAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AAAAAAAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGc > 2:1074643/1‑139 (MQ=255)
tGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AAAAAAAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCCCGTTTGCGGACTCGCCTTTAc > 1:979246/1‑139 (MQ=255)
gCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCAAAAAAAAAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACt > 1:344204/1‑130 (MQ=255)
gCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCAAAAAAAAAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACt < 2:344204/130‑1 (MQ=255)
gCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AAAAAAAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACg > 1:427551/1‑139 (MQ=255)
tGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AAAAAAAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTa < 1:944531/94‑1 (MQ=255)
tGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AAAAAAAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTa > 2:944531/1‑94 (MQ=255)
tctcGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AAAAAAAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACt > 1:206740/1‑139 (MQ=255)
tGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCA‑AAAAAAAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGc > 2:441414/1‑139 (MQ=255)
agagagATCGACTCGTTCCACATCACTACCGCCA‑AAAAAAAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGcc > 2:9119/1‑139 (MQ=255)
aTCGACTCGTTCCACATCACTACCGCCA‑AAAAAAAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCaa > 1:177642/1‑116 (MQ=255)
aTCGACTCGTTCCACATCACTACCGCCA‑AAAAAAAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCaa < 2:177642/116‑1 (MQ=255)
aTCGACTCGTTCCACATCACTACCGCCA‑AAAAAAAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTa > 2:234251/1‑139 (MQ=255)
cGACTCGTTCCACATCACTACCGCCA‑AAAAAAAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAgg > 1:708834/1‑139 (MQ=255)
aCTCGTTCCACATCACTACCGCCA‑AAAAAAAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCaa < 2:1127134/112‑1 (MQ=255)
aCTCGTTCCACATCACTACCGCCA‑AAAAAAAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCaa > 1:1127134/1‑112 (MQ=255)
cGTTCCACATCACTACCGCCA‑AAAAAAAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGTGTGc < 1:810562/139‑1 (MQ=255)
cGTTCCACATCACTACCGCCA‑AAAAAAAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGTGTGc < 1:234251/139‑1 (MQ=255)
cacaTCACTACCGCCA‑AAAAAAAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGTGTGCGGccc < 2:937069/139‑1 (MQ=255)
aTCACTACCGCCA‑AAAAAAAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTc < 1:98654/88‑1 (MQ=255)
aTCACTACCGCCA‑AAAAAAAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTc > 2:98654/1‑88 (MQ=255)
aTCACTACCGCCA‑AAAAAAAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGTGTGCGGCCCCaa > 1:391430/1‑139 (MQ=255)
tACCGCCA‑AAAAAAAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACt > 2:226322/1‑82 (MQ=255)
tACCGCCA‑AAAAAAAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACt < 1:226322/82‑1 (MQ=255)
tACCGCCA‑AAAAAAAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGTGTGCGGCCCCAACTCCa < 2:841879/139‑1 (MQ=255)
|
CGGCGTCGCCTCTAATCCCAGCATGGTCAGTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCC‑‑AAAAAAAACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGTGTGCGGCCCCAACTCCA > NC_000913/3511601‑3511869
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
