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 F2 I230 R1
|
226 |
18.8 |
1048726 |
96.7% |
1014118 |
86.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
1,174,665 |
T→G |
L206W (TTG→TGG) |
nagK → |
N‑acetylglucosamine kinase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 1,174,665 | 0 | T | G | 100.0%
| 41.7
/ NA
| 14 | L206W (TTG→TGG) | nagK | N‑acetylglucosamine kinase |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base G (5/9); total (5/9) |
TGGTCAGCATGGCTGCATTGAAAATTATCTGTCTGGTCGCGGTTTTGCGTGGCTGTATCAACACTATTATCATCAACCGTTGCAGGCTCCCGAAATTATTGCGCTTTATGATCAAGGCGATGAGCAGGCAAGGGCGCACGTTGAGCGTTATCTGGATTTATTAGC > NZ_CP009273/1174585‑1174749
|
tgGTCAGCATGGCTGCATTGAAAATTATCTGTCTGGTCGCGGTTTTGCGTGGCTGTATCAACACTATTATCATCAACCGTGGCAGGCTcc > 2:73986/1‑90 (MQ=255)
ggTCAGCATGGCTGCATTGAAAATTATCTGTCTGGTCGCGGTTTTGCGTGGCTGTATCAACACTATTATCATCAACCGTGGCAGGCTccc < 1:141305/90‑1 (MQ=255)
ggTCAGCATGGCTGCATTGAAAATTATCTGTCTGGTCGCGGTTTTGCGTGGCTGTATCAACACTATTATCATCAACCGTGGCAGGCTccc < 2:158329/90‑1 (MQ=255)
gCATGGCTGCATTGAAAATTATCTGTCTGGTCGCGGTTTTGCGTGGCTGTATCAACACTATTATCATCAACCGTGGCAg < 1:321209/79‑1 (MQ=255)
gCATGGCTGCATTGAAAATTATCTGTCTGGTCGCGGTTTTGCGTGGCTGTATCAACACTATTATCATCAACCGTGGCAg > 2:321209/1‑79 (MQ=255)
gCTGCATTGAAAATTATCTGTCTGGTCGCGGTTTTGCGTGGCTGTATCAACACTATTATCATCAACCGTGGCAGGCTCCCGAAATTATTg < 1:29146/90‑1 (MQ=255)
cTGCATTGAAAATTATCTGTCTGGTCGCGGTTTTGCGTGGCTGTATCAACACTATTATCATCAACCGTGGCAGGCTCCCGAAATTATTgc < 1:238254/90‑1 (MQ=255)
tGAAAATTATCTGTCTGGTCGCGGTTTTGCGTGGCTGTATCAACACTATTATCATCAACCGTGGCAGGCTCCCGAAATTATTGCGCTTTa < 1:256502/90‑1 (MQ=255)
tgtctgGTCGCGGTTTTGCGTGGCTGTATCAACACTATTATCATCAACCGTGGCAGGCTCCCGAAATTATTGCGCTTTATGATCAAGGCg > 2:287437/1‑90 (MQ=255)
gTCGCGGTTTTGCGTGGCTGTATCAACACTATTATCATCAACCGTGGCAGGCTCCCGAAATTATTGCGCTTTATGATCAAGGCGATGAGc < 2:2794/90‑1 (MQ=255)
cGTGGCTGTATCAACACTATTATCATCAACCGTGGCAGGCTCCCGAAATTATTGCGCTTTATGATCAAGGCGATGAGCAGGCAAGGgcgc < 2:339823/90‑1 (MQ=255)
caACCGTGGCAGGCTCCCGAAATTATTGCGCTTTATGATCAAGGCGATGAGCAGGCAAGGGCGCACGTTGAGCGTTATCTGGATttatta < 1:69197/90‑1 (MQ=255)
caACCGTGGCAGGCTCCCGAAATTATTGCGCTTTATGATCAAGGCGATGAGCAGGCAAGGGCGCACGTTGAGCGTTATCTGGATttatta > 2:69197/1‑90 (MQ=255)
aCCGTGGCAGGCTCCCGAAATTATTGCGCTTTATGATCAAGGCGATGAGCAGGCAAGGGCGCACGTTGGGCGTTATCTGGATTTATTAGc > 1:55945/1‑90 (MQ=255)
|
TGGTCAGCATGGCTGCATTGAAAATTATCTGTCTGGTCGCGGTTTTGCGTGGCTGTATCAACACTATTATCATCAACCGTTGCAGGCTCCCGAAATTATTGCGCTTTATGATCAAGGCGATGAGCAGGCAAGGGCGCACGTTGAGCGTTATCTGGATTTATTAGC > NZ_CP009273/1174585‑1174749
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GGCTGTGGTCAGCATGGCTGCATTGAAAATTATCTGTCTGGTCGCGGTTTTGCGTGGCTGTATCAACACTATTATCATCAACCGTTGCAGGCTCCCGAAATTATTGCGCTTTATGATCAAGGCGATGAGCAGGCAAGGGCGCACGTTGAGCGTTATCTGGATTTATTAGCGGTTTGTCTGGGA > NZ_CP009273/1174580‑1174762
|
GGCTGTGGTCAGCATGGCTGCATTGAAAATTATCTGTCTGGTCGCGGTTTTGCGTGGCTGTATCAACACTATTATCATCAACCGTGGCAGGCTCCCGAAA < SRR3722114.324697/100‑1 (MQ=60)
GGTCAGCATGGCTGCATTGAAAATTATCTGTCTGGTCGCGGTTTTGCGTGGCTGTATCAACACTATTATCATCAACCGTGGCAGGCTCCCGAAATTATTG < SRR3722114.142763/100‑1 (MQ=60)
GCTGCATTGAAAATTATCTGTCTGGTCGCGGTTTTGCGTGGCTGTATCAACACTATTATCATCAACCGTGGCAGGCTCCCGAAATTATTGCGCTTTATGA < SRR3722114.29427/100‑1 (MQ=60)
CTGCATTGAAAATTATCTGTCTGGTCGCGGTTTTGCGTGGCTGTATCAACACTATTATCATCAACCGTGGCAGGCTCCCGAAATTATTGCGCTTTATGAT < SRR3722114.240515/100‑1 (MQ=60)
TGAAAATTATCTGTCTGGTCGCGGTTTTGCGTGGCTGTATCAACACTATTATCATCAACCGTGGCAGGCTCCCGAAATTATTGCGCTTTATGATCAAGGC < SRR3722114.259065/100‑1 (MQ=60)
CTATTATCATCAACCGTGGCAGGCTCCCGAAATTATTGCGCTTTATGATCAAGGCGATGAGCAGGCAAGGGCGCACctgtctcttatacacatctccgag > SRR3722114.504008/1‑76 (MQ=60)
ATTATCATCAACCGTGGCAGGCTCCCGAAATTATTGCGCTTTATGATCAAGGCGATGAGCAGGCAAGGGCGCACGTTGGGCGTTATCTGGATTTATTAGC > SRR3722114.56497/1‑100 (MQ=60)
CAACCGTGGCAGGCTCCCGAAATTATTGCGCTTTATGATCAAGGCGATGAGCAGGCAAGGGCGCACGTTGAGCGTTATCTGGATTTATTAGCGGTTTGTC < SRR3722114.69905/100‑1 (MQ=60)
GTGGCAGGCTCCCGAAATTATTGCGCTTTATGATCAAGGCGATGAGCAGGCAAGGGCGCACGTTGAGCGTTATCTGGATTTATTAGCGGTTTGTCTGGGA > SRR3722114.155220/1‑100 (MQ=60)
|
GGCTGTGGTCAGCATGGCTGCATTGAAAATTATCTGTCTGGTCGCGGTTTTGCGTGGCTGTATCAACACTATTATCATCAACCGTTGCAGGCTCCCGAAATTATTGCGCTTTATGATCAAGGCGATGAGCAGGCAAGGGCGCACGTTGAGCGTTATCTGGATTTATTAGCGGTTTGTCTGGGA > NZ_CP009273/1174580‑1174762
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
