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 |
|
A2 F60 I1 R1
|
23 |
45.9 |
1548470 |
99.2% |
1536082 |
139.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,535,613 |
T→G |
I86L (ATC→CTC) |
envZ ← |
sensory histidine kinase EnvZ |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,535,613 | 0 | T | G | 96.7%
| 106.3
/ NA
| 30 | I86L (ATC→CTC) | envZ | sensory histidine kinase EnvZ |
| Reads supporting (aligned to +/- strand): ref base T (0/1); new base G (13/16); total (13/17) |
| 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 |
ACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCAGTTGCTGCGCCATCTGATGGCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCAGCTCACGGTAGA‑‑TCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAAACTGCTGGAGGCTCGGC > NC_000913/3535482‑3535749
|
aCTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCAGTTGCTGCGCCATCTGATGGCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGAGCCCCAGCt < 2:498394/140‑1 (MQ=255)
ccTCAACGCGCACTTCCGTCGGGCCGCCCAGTTGCTGCGCCATCTGATGGCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGAGCCCCAGCTCa < 2:580424/131‑1 (MQ=255)
ccTCAACGCGCACTTCCGTCGGGCCGCCCAGTTGCTGCGCCATCTGATGGCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGAGCCCCAGCTCa > 1:580424/1‑131 (MQ=255)
tCAACGCGCACTTCCGTCGGGCCGCCCAGTTGCTGCGCCATCTGATGGCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGAGCCCCAGCTCACGGTAGA‑‑tctc < 2:4021/140‑1 (MQ=255)
aCTTCCGTCGGGCCGCCCAGTTGCTGCGCCATCTGATGGCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGAGCCCCAGCTCACGGTAGA‑‑TCTCCCGACGGaa > 1:414555/1‑140 (MQ=255)
ccGTCGGGCCGCCCAGTTGCTGCGCCATCTGATGGCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGAGCCCCAGCTCACGGTAGA‑‑TCTCCCGACGGAAAGCg > 2:665390/1‑140 (MQ=255)
gTCGGGCCGCCCAGTTGTTGCGCCATCTGATGGCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGAGCCCCAGCTCACGGTAGA‑‑TCTCCCGACGGAAAGCggg < 2:299646/140‑1 (MQ=255)
ccAGTTGCTGCGCCATCTGATGGCTTAAGAATTCATAGTGTTGCGCCCAACGCAGCCCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGAGCCCCAGCTCACGGTAGA‑‑TCTCCCGACGGAAAGCGGGAGGCAcaacc < 1:194678/140‑1 (MQ=255)
ctgcGCCATCTGATGGCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGAGCCCCAGCTCACGGTAGA‑‑TCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCg < 1:665390/140‑1 (MQ=255)
gcgcCATCTGATGGCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGAGCCCCAGCTCACGGTAGA‑‑TCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTg < 1:40039/140‑1 (MQ=255)
cgcCATCTGATGGCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGAGCCCCAGCTCACGGTAGA‑‑TCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGc > 1:410975/1‑140 (MQ=255)
cATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGAGCCCCAGCTCACGGTAGA‑‑TCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCg > 1:505023/1‑140 (MQ=255)
aTAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGAGCCCCAGCTCACGGTAGA‑‑TCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCgg > 1:188261/1‑140 (MQ=255)
tAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGAGCCCCAGCTCACGGTAGA‑‑TCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGt < 2:717570/140‑1 (MQ=255)
gtgtTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGAGCCCCAGCTCACGGTAGA‑‑TCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGtca < 2:150706/140‑1 (MQ=255)
gtTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGAGCCCCAGCTCACGGTAGA‑‑TCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGtcatc > 1:584344/1‑140 (MQ=255)
tGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGAGCCCCAGCTCACGGTAGA‑‑TCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCaa > 2:573661/1‑140 (MQ=255)
cccAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGAGCCCCAGCTCACGGTAGA‑‑TCTCCCGACGGAAAGCGGGAGGCACGACCAACTGTGTGGCGTACTCCAGTTGCAGTTTGTCGGTCATCAACATa > 2:223589/1‑140 (MQ=255)
aaCGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGAGCCCCAGCTCACGGTAGA‑‑TCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACg > 2:159455/1‑139 (MQ=255)
aaCGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGAGCCCCAGCTCACGGTAGA‑‑TCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACg < 1:159455/139‑1 (MQ=255)
aCGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGAGCCCCAGCTCACGGTAGA‑‑TCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCa < 1:573661/140‑1 (MQ=255)
ccTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGAGCCCCAGCTCACGGTAGA‑‑TCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTAcgcg < 2:584344/140‑1 (MQ=255)
ccTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGAGCCCCAGCTCACGGTAGA‑‑TCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTAcgcg > 2:190927/1‑140 (MQ=255)
ccTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGAGCCCCAGCTCACGGTAGA‑‑TCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCATCCTCCAGATGCTGTTTGTCGGTCAACAACATACGCACTTCGTAcgcg > 2:267371/1‑140 (MQ=255)
tctTCGGCAGCCTCGTTGGAGTAGAGAGAGAGCCCCAGCTCACGGTAGA‑‑TCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAg < 2:414555/140‑1 (MQ=255)
ttCGGTAGCCTCGTTGGTGTAGAGACAGAGCCCCAGCTCACGGTAGA‑‑TCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGa < 2:718457/140‑1 (MQ=255)
ttCGGCAGCCTCGTTGGAGTAGAGAGAGAGCCCCAGCTCACGGTAGA‑‑TCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGa < 2:410975/140‑1 (MQ=255)
ttCGGCAGCCTCGTTCGAGTAGTGAAAGATCCCCAGCACACGGTAGA‑‑TCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGa < 1:223589/140‑1 (MQ=255)
cGGCAGCCTCGTTGGAGTAGAGAGAGAGCCCCAGCTCACGGTAGATCTCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGa < 1:597835/140‑1 (MQ=255)
cagTTGGAGTAGAGACAGAGCCTCAGCTCACGGTAGA‑‑TCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTaaa < 1:373166/138‑1 (MQ=255)
gagagaGCCCCAGCTCACGGTAGA‑‑TCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAAACTGCTGGAGGCTc > 2:553668/1‑140 (MQ=255)
agagagCCCCAGCTCACGGTAGA‑‑TCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCCACATACGCACTTCGTACACGAGGACATTATGTAACTGCTTGAGGcctg > 2:373166/1‑137 (MQ=255)
agagagCCCCAGCTCACGGTAGA‑‑TCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAAACTGCTGGAGGCTCg > 2:431381/1‑140 (MQ=255)
agagagCCCCAGCTCACGGTAGA‑‑TCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAAACTGCTGGAGGCTCg > 1:570671/1‑140 (MQ=255)
agagCCCCAGCTCACGGTAGA‑‑TCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAAACTGCTGGAGGCTCGGc > 2:466537/1‑140 (MQ=255)
|
ACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCAGTTGCTGCGCCATCTGATGGCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTAGAGAGAGATCCCCAGCTCACGGTAGA‑‑TCTCCCGACGGAAAGCGGGAGGCACAACCAACTGCGTGCCGTCCTCCAGTTGCAGTTTGTCGGTCATCAACATACGCACTTCGTACGCGAGGACTTTATTAAACTGCTGGAGGCTCGGC > NC_000913/3535482‑3535749
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
