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 I1 R1
|
757 |
76.1 |
3598070 |
93.4% |
3360597 |
108.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
380,022 |
(G)10→11 |
intergenic (‑141/+47) |
frmR ← / ← yaiO |
regulator protein that represses frmRAB operon/outer membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 380,012 | 1 | . | G | 83.0%
| 172.2
/ 25.4
| 59 | intergenic (‑131/+57) | frmR/yaiO | regulator protein that represses frmRAB operon/outer membrane protein |
| Reads supporting (aligned to +/- strand): ref base . (6/4); new base G (29/20); total (35/24) |
| 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 |
TCGCACCTCATCATCTGCATGCAATATACTATAGGGGGGTATTCTATATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAA‑‑‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCAGACCGTTAAAATCATCGGTTGGGGTGTCGTACCACACTTT > NC_000913/379883‑380143
|
taagagacagtcatcTGCATGCAATATACTATAGGGGGGTATTTTATATGTCAAGTAATAGCCCCCTATAGTATATAACATTGGAGAAAAAAAGTTCTCCGGTAAATGTGGTCGGAAAACAAAGAGGAAA‑‑‑ggggggg‑‑gg < 1:1104202/129‑1 (MQ=255)
caATATACTATAGGGGGGTATTCTATATGTCAATGCATACCCTCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCGGcctgtctctta > 2:1104202/1‑129 (MQ=255)
taGGGGGGTATTCTATATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATa > 2:827708/1‑139 (MQ=255)
gggggTATTCTATATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAgcg > 2:765123/1‑139 (MQ=255)
gggggTATTCTATATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAgcg > 1:910274/1‑139 (MQ=255)
aacgaacagttattTGTGAATGCATACCCCCCTATAGTATATAACTCTGGAGAATAAAATTTATCCGGTGAATGTGGGTGGAAAACAAAGAGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAgcg < 2:1641488/129‑1 (MQ=255)
gggTATTCTATATTTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAgcggg < 1:827708/139‑1 (MQ=255)
gggTATTCTATATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAGG‑GGGGGGG‑‑GGGC‑AAATCGGCAGGGAAGGCCGCCCCGGATAgggg > 2:1490537/1‑139 (MQ=255)
gggTATTCTATATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAgcggg > 2:896970/1‑139 (MQ=255)
tATTCTATATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAA‑‑‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAGCGggcggc > 1:1675316/1‑139 (MQ=255)
gTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAA‑‑‑ggggggg‑‑ggggcta > 2:462426/1‑91 (MQ=255)
gTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAA‑‑‑ggggggg‑‑ggggcta < 1:462426/95‑5 (MQ=255)
aaTGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCg > 2:869762/1‑96 (MQ=255)
aaTGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGGCGGAAAACAAAGAGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCg < 1:869762/96‑1 (MQ=255)
tGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGGGAATGTGGTCGGAAAACCAAGAGGAAA‑‑‑GGGGGGG‑‑GGGCTTAATGGGCAGGGAAGTCCGCCCCGGATAGCGGGCGGCCGAAgctgtctctt > 1:1641488/1‑130 (MQ=255)
ccccccTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGCAAACGGGCGGCAGAAGGAATCAGAATTTCCa > 1:1129504/1‑139 (MQ=255)
tataACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCgg > 1:1194864/1‑76 (MQ=255)
tataACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCgg > 1:1138782/1‑76 (MQ=255)
tataACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCgg > 2:1543772/1‑76 (MQ=255)
tataACACTGGAGAATAAAATTTATCCGGGGAATGTGGTCGGAAAACAAAGAGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCgg < 2:1138782/76‑1 (MQ=255)
taaaaCACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCgg < 2:1194864/73‑1 (MQ=255)
aataACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCgg < 1:1543772/75‑1 (MQ=255)
taaacagggAGAATAAAATTTATCCGGTGAAGGGGGGGGGAAAACAAAGAGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGc < 1:514333/132‑1 (MQ=255)
cacTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGa > 2:1370232/1‑104 (MQ=255)
cacTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGa < 1:1370232/104‑1 (MQ=255)
cacTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGAGGGGCTGCAAg > 2:1697680/1‑139 (MQ=255)
cacTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAg > 2:340298/1‑139 (MQ=255)
cacTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAg > 1:1631244/1‑139 (MQ=255)
tGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGGGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACggg < 2:1766966/129‑1 (MQ=255)
tGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAGG‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGtt > 2:475133/1‑139 (MQ=255)
tGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACggg > 1:1766966/1‑129 (MQ=255)
tGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTg > 2:514333/1‑139 (MQ=255)
tGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTg > 1:1105092/1‑139 (MQ=255)
tGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTg > 1:509981/1‑139 (MQ=255)
tGGAGAATAAAATTTAACCGGTGAATGTGGTCGGAAAACAAAGAGGAAAGG‑GGGGGGG‑‑GGGG‑TAATTGGTAGGGAAGGCCGCCCCGAAGAGCGGGCGGGAGAAGGAATAAGAATTTCCAGGTCAGACGGGCAGCAAGtt > 2:231578/1‑139 (MQ=255)
agaATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGGGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCAg < 1:340298/139‑1 (MQ=255)
tAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAGGGGGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCAGa > 2:58723/1‑138 (MQ=255)
tAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAGGGGGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCAGa < 1:58723/138‑1 (MQ=255)
tAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCAGACCg > 2:1044778/1‑139 (MQ=255)
aaaTTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCAGACCGtt < 2:910274/139‑1 (MQ=255)
ccGGTGAATGTGGTCGGAAAACAAAGAGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCAGACCGTTAAAatcat < 2:1129504/139‑1 (MQ=255)
cGGTGAATGTGGTCGGAAAACAAAGAGGAAAGG‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCAGACCGTTAAAatcat < 1:475133/139‑1 (MQ=255)
tGAATGTGGTCGGAAAACAAAGAGGAAAGGGGGGGGGG‑‑GGGC‑AAATAGGCAGGGAAGGCCGCCCCGGAGAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGCCGGGCGGCAAGTTGCAGACCTTTAAAATCATCg > 2:1611283/1‑139 (MQ=255)
tGAATGTGGTCGGAAAACAAAGAGGAAAGG‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAgg > 2:253436/1‑57 (MQ=255)
tGAATGTGGTCGGAAAACAAAGAGGAAAGG‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAgg < 1:253436/57‑1 (MQ=255)
tGAATGTGGTCGGAAAACAAAGAGGAAA‑‑‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCAGACCGTTAAAATCATCGGtt > 1:138381/1‑139 (MQ=255)
tGAATGTGGTCGGAAAACAAAGAGGAAA‑‑‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCAGACCGTTAAAATCATCGGtt > 2:613933/1‑139 (MQ=255)
aaTGTGGTCGGAAAACAAAGAGGAAA‑‑‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCAGACCGTTAAAATCATCGGTTgg < 1:613933/139‑1 (MQ=255)
gggcGGAAAACAAAGAGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCAGACCGTTAAAATCATCGGTTGGGgtg < 2:1391679/136‑1 (MQ=255)
gTCGGAAAACAAAGAGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCAGACCGTTAAAATCATCGGTTgg > 2:174865/1‑134 (MQ=255)
gTCGGAAAACAAAGAGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCAGACCGTTAAAATCATCGGTTgg < 1:174865/134‑1 (MQ=255)
gTCGGAAAACAAAGAGGAAA‑‑‑‑GGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCAGACCGTTa < 2:954345/118‑1 (MQ=255)
gTCGGAAAACAAAGAGGAAA‑‑‑‑GGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCAGACCGTTa > 1:954345/1‑118 (MQ=255)
tCGGAAAACAAAGAGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCgg > 2:1782612/1‑38 (MQ=255)
tCGGAAAACAAAGAGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCgg < 1:1782612/38‑1 (MQ=255)
gAAAACAAAGAGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATCTCCAGGTCAGACGGGCTGCAAGTTGCAGACCGTTAAAATCATCGGTTGGGGTGTCGTa > 1:1415373/1‑139 (MQ=255)
gAAAACAAAGAGGAAA‑‑‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAgcg < 2:960179/58‑1 (MQ=255)
gAAAACAAAGAGGAAA‑‑‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAgcg > 1:960179/1‑58 (MQ=255)
gAAAACAAAGAGGAAA‑‑‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCAGACCGTTAAAATCATCGGTTGGGGTGTCGTAc < 2:1675316/139‑1 (MQ=255)
aaaaCAATGGGGAAA‑‑‑GGGGGGGGCGGGC‑TAAACGGCAGGGAAGGCCGCCCCGGATAGCGGCAGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGATGCAGACCGTTAAAATCATCGGTTGGGGTGTCGTa < 1:231578/139‑1 (MQ=255)
aaaaCAAAGAGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCAGACCGTTAAAATCATCGGTTGGGGTGTCGTAc < 1:896970/139‑1 (MQ=255)
cAAAGAGGAAAG‑‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCAGACCGTTAAAATCATCGGTTGGGGTGTCGTACcaca < 2:509981/139‑1 (MQ=255)
gagGAAAG‑‑GGGGGGG‑‑GGGC‑TAACCGGCAGGGAAGGCCGCCCCGCAAACCGGGCGGCAGAAGGAATCAGATTTTCCGGGTCGGCCGGGCTGCAAGTTGCGGACCGTTAAAATCATCGGTTGGGGGGTCGTACCACACttt > 2:1200863/1‑139 (MQ=255)
|
TCGCACCTCATCATCTGCATGCAATATACTATAGGGGGGTATTCTATATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGAAA‑‑‑GGGGGGG‑‑GGGC‑TAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCAGACCGTTAAAATCATCGGTTGGGGTGTCGTACCACACTTT > NC_000913/379883‑380143
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
