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 |
|
A5 F1 I2 R1
|
772 |
77.0 |
3769570 |
91.6% |
3452926 |
105.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
578,568 |
G→A |
*154* (TAG→TAA) |
rzpD → |
DLP12 prophage, putative murein endopeptidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 578,568 | 0 | G | A | 98.5%
| 218.3
/ NA
| 68 | *154* (TAG→TAA) | rzpD | DLP12 prophage, putative murein endopeptidase |
| Reads supporting (aligned to +/- strand): ref base G (0/0); major base A (33/34); minor base T (1/0); total (34/34) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CCTCCCCCCGACTGGCAGACACCGCTGAACGGGATTATTTCACCCTCAGAGAGAGGCTGATCACTATGCAAAAACAACTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAGAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACACGCGCTTCCAGCGGAGTATAAATGCCTAAAGTAATAAAACCGAGCAATCCATTTACGAATGTTTGCTGGGTTTCTGTTTTAAC > NC_000913/578450‑578701
|
ccTCCCCCCGACTGGCAGACACCGCTGAACGGGATTATTTCACCCTCAGAGAGAGGCTGATCACTATGCAAAAACAACTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCTGACCATATCGATGGGc > 1:225086/1‑139 (MQ=255)
ccccGACTGGCAGACACCGCTGAACGGGATTATTTCACCCTCAGAGAGAGGCTGATCACTATGCAAAAACAACTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCTGa > 2:864990/1‑120 (MQ=255)
ccccGACTGGCAGACACCGCTGAACGGGATTATTTCACCCTCAGAGAGAGGCTGATCACTATGCAAAAACAACTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCTGa < 1:864990/120‑1 (MQ=255)
cccGACTGGCAGACACCGCTGAACGGGATTATTTCACCCACAGAGAGTGGCTGATCACTATGCAAAAACAACTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCa < 2:1783417/139‑1 (MQ=255)
ccGACTGGCAGACACCGCTGCACGGGATTCTTCCACCCTCAGAGAGAGGCTGATCACTATGCAAAAACAACTGGAAGGAACCCAGAAGTCTATTAATGAGCAGTGCAGATATAGCTGACAATATCGATGGGCAACTCAt > 1:351652/1‑139 (MQ=255)
cTGAACGGGATTATTTCACCCTCAGAGAGAGGCTGATCACTATGCAAAAACAACTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCa > 2:355488/1‑121 (MQ=255)
cTGAACGGGATTATTTCACCCTCAGAGAGAGGCTGATCACTATGCAAAAACAACTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCa < 1:355488/121‑1 (MQ=255)
attattTCACCCTCAGAGAGAGGCTGATCACTATGCAAAAACAACTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACAcgc < 1:1463808/139‑1 (MQ=255)
tttCACCCTCAGAGAGAGGCTGATCACTATGCAAAAACAACTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCt < 2:1656873/86‑1 (MQ=255)
tttCACCCTCAGAGAGAGGCTGATCACTATGCAAAAACAACTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCt > 1:1656873/1‑86 (MQ=255)
aCCCTCAGAGAGAGGCTGATCACTATGCAAAAACAACTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACACGCGCTTCCAg < 2:1124179/139‑1 (MQ=255)
cccTCAGAGAGAGGCTGATCACTATGCAAAAACAACTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACACGCGCTTCCAGc > 2:512202/1‑139 (MQ=255)
tCAGAGAGAGGCTGATCACTATGCAAAAACAACTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACACGCGCTTCCAGCGGa < 2:757575/139‑1 (MQ=255)
agagagagGCTGATCACTATGCAAAAACAACTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACACGCGCTTc < 2:1733209/130‑1 (MQ=255)
agagagagGCTGATCACTATGCAAAAACAACTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACACGCGCTTc > 1:1733209/1‑130 (MQ=255)
agagagagGCTGATCACTATGCAAAAACAACTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACACGCGCTTCCAGCGGAGt > 1:1468149/1‑139 (MQ=255)
agagagagGCTGATCACTATGCAAAAACAACTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACACGCGCTTCCAGCGGAGt > 2:807251/1‑139 (MQ=255)
agagagagGCTGATCACTATGCAAAAACAACTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACACGCGCTTCCAGCGGAGt > 2:381497/1‑139 (MQ=255)
gagagagGCTGATCACTATGCAAAAACAACTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTg < 2:1164857/110‑1 (MQ=255)
gagagagGCTGATCACTATGCAAAAACAACTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTg > 1:1164857/1‑110 (MQ=255)
gagagagGCTGATCACTATGCAAAAACAACTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACAcg > 2:1736276/1‑123 (MQ=255)
gagagagGCTGATCACTATGCAAAAACAACTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACAcg < 1:1736276/123‑1 (MQ=255)
gagagGCTGATCACTATGCAAAAACAACTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACACGCGCTTCCAGCGGAGtata < 2:742758/139‑1 (MQ=255)
agGCTGATCACTATGCAAAAACAACTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACAcg < 2:743045/118‑1 (MQ=255)
agGCTGATCACTATGCAAAAACAACTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACAcg > 1:743045/1‑118 (MQ=255)
cTGATCACTATGCAAAAACAACTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACACGCGCTTCCAGCGGAGTATAAATGcc < 1:512202/139‑1 (MQ=255)
aTCACTATGCAAAAACAACTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTg > 1:1480596/1‑99 (MQ=255)
aTCACTATGCAAAAACAACTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTg < 2:1480596/99‑1 (MQ=255)
aTCACTATGCAAAAACAACTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCa < 2:1395644/103‑1 (MQ=255)
aTCACTATGCAAAAACAACTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCa > 1:1395644/1‑103 (MQ=255)
aTGCAAAAACAACTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACACGCGCTTCCAGCGGAGTATAAATGCCTAAAGtaat > 2:877475/1‑139 (MQ=255)
aTGCAAAAACAACTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCTGAACATATCGATGGGCAACTAATGCAATTATGTTGGGCAATACACACGCGCTTCCAGCGGAGTATAAATGCCTAAAGtaaa > 1:1695026/1‑138 (MQ=255)
aaaaaCAACTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACACGCGCTTCCAGCGGAGTATAAATGCCTAAAGTAATaaaa < 1:807251/139‑1 (MQ=255)
caacTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACACGCGCTTCCAGCGGAGTATAAATGCCTAAAGTAATAAAACCGAg < 2:1695026/139‑1 (MQ=255)
acTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCt < 2:1621392/47‑1 (MQ=255)
acTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCt > 1:1621392/1‑47 (MQ=255)
acTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTAtttt < 1:557238/81‑1 (MQ=255)
acTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTAtttt > 2:557238/1‑81 (MQ=255)
tGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACACGCGCTTCCAGCGGAGTATAAATGCCTAAAGTAATAAAACCGAGCAAt < 2:1468149/139‑1 (MQ=255)
aGAAGTATATTAATGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACACGCGCTTCCAg > 2:1418257/1‑90 (MQ=255)
aGAAGTATATTAATGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGAAATTATTTTGAGCAATACACACGCGCTTCCAg < 1:1418257/90‑1 (MQ=255)
tatTAATGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACACGCGCTTCCAGCGGAGTATAAATGCCTAAAGTAATAAAACCGAGCAATCCATTTACGAATGTTTGCt > 2:778567/1‑139 (MQ=255)
tAATGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACACGCGCTTCCAGCGGAGTATAAATGCCTAAAGtaa > 2:578924/1‑103 (MQ=255)
tAATGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACACGCGCTTCCAGCGGAGTATAAATGCCTAAAGtaa < 1:578924/103‑1 (MQ=255)
aTGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCa > 1:506258/1‑43 (MQ=255)
aTGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCa < 2:506258/43‑1 (MQ=255)
aTGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAg > 2:757148/1‑58 (MQ=255)
aTGAGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAg < 1:757148/58‑1 (MQ=255)
aGCAGTGCAGATAAAGCTGATCATATCGATGGGCAACTCATGCAATTCTTTTGAGCAATACACACGCGCTTCCAGCGGAGtata < 2:1197838/84‑1 (MQ=255)
aGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTAtttt > 2:1271008/1‑52 (MQ=255)
aGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTAtttt < 1:1271008/52‑1 (MQ=255)
aGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACACGCGCTTCCAGCGGAGtata > 1:1197838/1‑84 (MQ=255)
aGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACACGCGCTTCCAGCGGAGTATAAATGCCTAAAGTAATAAAACCGAGCAATCCATTTACGAATGTTTGCTg > 2:485806/1‑132 (MQ=255)
aGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACACGCGCTTCCAGCGGAGTATAAATGCCTAAAGTAATAAAACCGAGCAATCCATTTACGAATGTTTGCTg < 1:485806/132‑1 (MQ=255)
aGCAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACACGCGCTTCCAGCGGAGTATAAATGCCTAAAGTAATAAAACCGAGCAATCCATTTACGAATGTTTGCTGGGTTTCt > 2:16633/1‑139 (MQ=255)
cAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACACGCGCTTCCAGCGGAGTATAAATGCCTAAAGTAATAAAACCGAGCa < 2:321225/108‑1 (MQ=255)
cAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACACGCGCTTCCAGCGGAGTATAAATGCCTAAAGTAATAAAACCGAGCa > 1:321225/1‑108 (MQ=255)
cAGTGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACACGCGCTTCCAGCGGAGTATAAATGCCTAAAGTAATAAAACCGAGCAATCCATTTACGAATGTTTGCTGGGTTTCTGt > 1:539918/1‑139 (MQ=255)
tGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACACGCGCTTCCAg < 2:496681/70‑1 (MQ=255)
tGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACACGCGCTTCCAg < 2:18443/70‑1 (MQ=255)
tGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACACGCGCTTCCAg > 1:496681/1‑70 (MQ=255)
tGCAGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACACGCGCTTCCAg > 1:18443/1‑70 (MQ=255)
cAGATAAAGCTGACCATATCGATGGGCAACTCATGCaa > 1:994346/1‑38 (MQ=255)
cAGATAAAGCTGACCATATCGATGGGCAACTCATGCaa < 2:994346/38‑1 (MQ=255)
aGATAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACACGCGCTTCCAGCGGAGTATAAATGCCTAAAGTAATAAAACCGAGCAATCCATTTACGAATGTTTGCTGGGTTTCTGTTTTaac < 1:16633/139‑1 (MQ=255)
aTAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACACGCGCTTCCAGCGGAGTATAAATGCCTaa < 2:261091/83‑1 (MQ=255)
aTAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACACGCGCTTCCAGCGGAGTATAAATGCCTaa > 1:261091/1‑83 (MQ=255)
aTAAAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACACGCGCTTCCAGCGGAGTATAAATGCCTAAAGTAATAAAACCGAGCa < 1:213159/100‑1 (MQ=255)
|
CCTCCCCCCGACTGGCAGACACCGCTGAACGGGATTATTTCACCCTCAGAGAGAGGCTGATCACTATGCAAAAACAACTGGAAGGAACCCAGAAGTATATTAATGAGCAGTGCAGATAGAGCTGACCATATCGATGGGCAACTCATGCAATTATTTTGAGCAATACACACGCGCTTCCAGCGGAGTATAAATGCCTAAAGTAATAAAACCGAGCAATCCATTTACGAATGTTTGCTGGGTTTCTGTTTTAAC > NC_000913/578450‑578701
|
| 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
