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 |
|
A3 F1 I2 R1
|
777 |
59.2 |
2955938 |
92.5% |
2734242 |
106.9 |
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 | 75.6%
| 114.1
/ 32.6
| 45 | intergenic (‑131/+57) | frmR/yaiO | regulator protein that represses frmRAB operon/outer membrane protein |
| Reads supporting (aligned to +/- strand): ref base . (5/6); new base G (23/11); total (28/17) |
| Fisher's exact test for biased strand distribution p-value = 2.84e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CTGGGCATTTCGCACCTCATCATCTGCATGCAATATACTATAGGGGGGTATTCTATATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGA‑A‑‑A‑‑GGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCAGACCGTTAAAATCATCGGTTGGGGTGTCGTAC > NC_000913/379874‑380135
|
cTGGGCATTTCGCACCTCATCATCTGCATGCAATATACTATAGGGGGGTATTCTATATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGa‑a‑‑a < 1:411940/139‑1 (MQ=255)
atcatcTGCATGCAATATACTATAGGGGGGTATTCTATATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGA‑A‑‑A‑‑gggggggggggctaaggg > 2:100696/1‑131 (MQ=255)
cTGCATGCAATATACTATAGGGGGGTATTCTATATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGA‑A‑‑AG‑GGGGGGGGGGCTAATGGGCAgg > 2:1476116/1‑139 (MQ=255)
tgcaATATACTATAGGGGGGTATTCTATATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGA‑A‑‑AG‑GGGGGGGGGGCTAATCGGCAGGGAAgg < 1:646666/139‑1 (MQ=255)
ggggggATTCTATATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGA‑A‑‑AG‑GGGGGGGGGGCTAATCGGCGGGGAAGGCCGCCCGGGAAAggg > 2:929254/1‑137 (MQ=255)
gggggTATTCTATATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGA‑A‑‑AGGGGGGGGGGGGCTATTGGGCAGGGAAGGCCGCCCCGGATAgc > 2:1254060/1‑139 (MQ=255)
gggggTATTCTATATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGA‑A‑‑AG‑GGGGGGGGGGCTAATc > 2:773289/1‑113 (MQ=255)
gggggTATTCTATATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGA‑A‑‑AG‑GGGGGGGGGGCTAATc < 1:773289/113‑1 (MQ=255)
gggggTATTCTATATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGA‑A‑‑AG‑GGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAgcg > 2:330223/1‑139 (MQ=255)
gggggTATTCTATATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGA‑A‑‑AG‑GGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAgcg > 2:214175/1‑139 (MQ=255)
gggTATTCTATATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGA‑A‑‑AG‑GGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAgcggg > 2:389949/1‑139 (MQ=255)
gggTATTCTATATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGA‑A‑‑AG‑GGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAgcggg > 2:1393063/1‑139 (MQ=255)
tATTCTATATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGA‑A‑‑A‑‑‑GGGGGGGGGCTAATCGGCAGGGAAgg < 1:1183908/117‑1 (MQ=255)
tATTCTATATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGA‑A‑‑A‑‑‑GGGGGGGGGCTAATCGGCAGGGAAgg > 2:1183908/1‑117 (MQ=255)
tGCAAACCCCCCTATAGTATAAAACACTGGAGAAAAAAATTTATCCGGTGAAGGTGGTCGGAAAAAAAAGAGGA‑AGGG‑‑GGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGa < 1:1254060/139‑1 (MQ=255)
cATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGA‑A‑‑A‑‑GGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAAttt > 2:15344/1‑139 (MQ=255)
ataGTATATAACACTGGAAAATAAAATTTATTCGGTGAATGTGGTCGGAAAAAAAAGGGGA‑A‑‑AG‑GGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGa < 2:1262807/139‑1 (MQ=255)
tatataACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGA‑A‑‑AG‑GGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACggg > 1:1466597/1‑139 (MQ=255)
tataACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGA‑A‑‑AGGGGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGc > 1:332180/1‑139 (MQ=255)
tataACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGA‑A‑‑AG‑GGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCt > 1:809253/1‑139 (MQ=255)
tataACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGA‑A‑‑A‑‑ggggggggggg > 1:1347479/1‑67 (MQ=255)
tataACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGA‑A‑‑A‑‑ggggggggggg < 2:1347479/68‑2 (MQ=255)
aaCACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGA‑A‑‑A‑‑GGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCaa > 2:1212556/1‑139 (MQ=255)
cacTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGA‑A‑‑AG‑GGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAg > 1:547357/1‑139 (MQ=255)
cacTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGA‑A‑‑AG‑GGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGAAAGCGGGGGGAAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGAAAg > 1:1262807/1‑139 (MQ=255)
cTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGA‑A‑‑AG‑GGGGGGGGGGCTATTGGGCGGGGAAGCCCCCCCGGGTAAGGGGGGGGAGGAAGGATTAAAAATTTCCGGGGCAGAGGGGcggaaggtt > 1:1191683/1‑131 (MQ=255)
tGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGA‑A‑‑AG‑GGGGGGGGGGCTAATTGGGAGGGAAGGGCGCCCCGGATAGCGGGCGGGAGAAGGAATCAAAATTTCCAGGGCAGGAGGGCTGCAAGttt > 2:227514/1‑138 (MQ=255)
tGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGA‑A‑‑AG‑GGGGGGGGGGCTAATCGGCAGGGAAgg > 1:572097/1‑77 (MQ=255)
tGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGA‑A‑‑AG‑GGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTg > 2:104416/1‑139 (MQ=255)
tGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGA‑A‑‑AG‑GGGGGGGGGGCTAATCGGCAGGGAAGGCCGCACCGGATAGCGGGCGGCAGAAGGAATCAGATTTTCCAGGTCAGACGGGCTGCAAGTTg > 1:317326/1‑139 (MQ=255)
tGGAGAATAAAATTTATCCGGGGAATGTGGGCGGAAAACAAAGAGGA‑A‑‑AG‑GGGGGGGGGGCTAATCGGCAGGGAAgg < 2:572097/77‑1 (MQ=255)
gagaATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGA‑A‑‑AG‑GGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCa > 1:230060/1‑139 (MQ=255)
gagaATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGA‑A‑‑AG‑GGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCa > 1:3596/1‑139 (MQ=255)
gagaATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGA‑A‑‑AG‑GGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGAAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCa > 2:127076/1‑139 (MQ=255)
gagaATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGA‑A‑‑A‑‑GGGGGGGGGGCAAATCGGTAGGGAAGGCCGCCCCGGATAGCCGGCGGCAGAAGGAAACAGAATTTCGAGGTTAGACGGGGTGCAAGTTGCAg > 2:962826/1‑139 (MQ=255)
ggaAAAAAATTTTTCCGGGGAATGGGGTGGGAAAAAAAAAAGGA‑A‑‑A‑‑GGGGGGGGGGCTAATCGGCAGGGAAGGCCGTCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCAGa < 2:18984/138‑1 (MQ=255)
gaAAAAAATTTTTCCGGGGAATGTGGTCGGAAAACAAAGAGGA‑A‑‑AG‑GGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCAGa < 2:1191683/139‑1 (MQ=255)
cccGATGAATGTGGGCGGAAAAACACGGAGA‑A‑‑A‑‑GGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCATAATTTCCAGGTCAGACGGGCTGCAAGTTGCAGACTGTTAAAatcat < 1:568467/138‑1 (MQ=255)
ccGGTGAATGTGGTCGGAAAAAAAAGAGGA‑A‑‑AG‑GGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCAGACCGTTAAAatcat < 2:547357/139‑1 (MQ=255)
tGAATGTGGTCGGAAAACAAAGAGGA‑A‑‑AG‑GGGGGGGGGGCTAATCGGCAGGGAAgg > 1:337707/1‑56 (MQ=255)
tGAAGGTGGTCGGAAAACAAAGAGGA‑A‑‑AG‑GGGGGGGGGGCTAATCGGCAGGGAAgg < 2:337707/56‑1 (MQ=255)
ggaaaggggTCGGAAAAAAAAGAGGA‑A‑‑AG‑GGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCAGACCGTTAAAATCATCGGt < 1:1393063/132‑1 (MQ=255)
gggggggggAAAACAAAGGGGA‑AG‑G‑‑GGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCAGACCGTTAAAATCATCGGTTggg < 1:227514/132‑1 (MQ=255)
ggTCGGAAAACAAAGAGGAGA‑‑G‑‑GGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCAGACCGTTAAAATCATCGGTTGGGgtg < 1:330223/139‑1 (MQ=255)
gTCGTAAAAAAAAAAGGA‑A‑‑AG‑GGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCAGACCGTTAAAATCATCGGTTGGGgtgt < 1:1476116/139‑1 (MQ=255)
tCGGAAAACAAAGAGGA‑A‑‑A‑‑GGGGGGGGGGCCAATCGGCAGGGAAAGCCGCCCCGGAAAGGGGGGGGCAGAAGGGATCAGAATTTTCAGGTCAGAAGGGCCGGAAGTTGCCGGCCGGTAAAATCATTGGTTTGGGTGGCg > 2:1436808/1‑139 (MQ=255)
cGGAAAACAAAGAGGA‑A‑‑AG‑GGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCAGACCGTTAAAATCATCGGTTGGGGTGTCg > 2:1161306/1‑139 (MQ=255)
ggAAAACAAAGAGGA‑C‑‑A‑‑GGTGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCACAAGTTCCAGGTCAGCCGGGCTGCAACTTGCACACCGTTAAAATCATCGGTTGGGCTGTCGTa < 1:962826/139‑1 (MQ=255)
gAAAACAAAGAGGA‑A‑‑AG‑GGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCAGACCGTTAAAATCATCGGTTGGGGTGTCGTa < 1:1161306/139‑1 (MQ=255)
aaaaCAAAGAGGA‑A‑‑AG‑GGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCAGACCGTTAAAATCATCGGTTGGGGTGTCGTAc < 1:559087/139‑1 (MQ=255)
gggggA‑A‑‑G‑‑GGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGc < 1:264226/88‑1 (MQ=255)
gagGA‑A‑‑AG‑GGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGACTTTCCAGGTCAGACGGGCTGc > 2:264226/1‑91 (MQ=255)
|
CTGGGCATTTCGCACCTCATCATCTGCATGCAATATACTATAGGGGGGTATTCTATATGTCAATGCATACCCCCCTATAGTATATAACACTGGAGAATAAAATTTATCCGGTGAATGTGGTCGGAAAACAAAGAGGA‑A‑‑A‑‑GGGGGGGGGGCTAATCGGCAGGGAAGGCCGCCCCGGATAGCGGGCGGCAGAAGGAATCAGAATTTCCAGGTCAGACGGGCTGCAAGTTGCAGACCGTTAAAATCATCGGTTGGGGTGTCGTAC > NC_000913/379874‑380135
|
| 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
