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 I207 R1
|
218 |
45.0 |
2482936 |
97.1% |
2410930 |
86.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
1,818,956 |
T→G |
K80T (AAA→ACA) |
ves ← |
environmental stress‑induced protein Ves |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 1,818,956 | 0 | T | G | 100.0%
| 57.0
/ NA
| 18 | K80T (AAA→ACA) | ves | environmental stress‑induced protein Ves |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base G (6/12); total (6/12) |
ATGATGTTGAAATCCATCGACATCTGCCCTGCCGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTTTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCA > NZ_CP009273/1818869‑1819019
|
atgatgTTGAAATCCATCGACATCTGCCCTGCCGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGtgtt < 1:49868/90‑1 (MQ=255)
ttGAAATCCATCGACATCTGCCCTGCCGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTa < 1:523234/90‑1 (MQ=255)
ccATCGACATCTGCCCTGCCGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTaa > 1:1156096/1‑90 (MQ=255)
ccATCGACATCTGCCCTGCCGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTaa > 1:929206/1‑90 (MQ=255)
aTCGACATCTGCCCTGCCGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAg < 1:1000915/90‑1 (MQ=255)
tCGACATCTGCCCTGCCGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGc < 2:61718/90‑1 (MQ=255)
ctgccctgccGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTgc < 2:501922/90‑1 (MQ=255)
ccctgccGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCt < 1:125547/90‑1 (MQ=255)
aGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGc < 1:301424/90‑1 (MQ=255)
tACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCgccgcc > 2:301218/1‑90 (MQ=255)
tACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCgccgcc > 2:218043/1‑90 (MQ=255)
ggTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCa < 2:983491/90‑1 (MQ=255)
ggTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCa < 2:533478/90‑1 (MQ=255)
ggTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCa > 2:1168015/1‑90 (MQ=255)
tCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAAc < 1:983150/90‑1 (MQ=255)
tCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAAc < 1:460716/90‑1 (MQ=255)
cTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAGGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCa < 2:841189/90‑1 (MQ=255)
aaGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCaa < 2:207096/48‑1 (MQ=255)
aaGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCaa > 1:207096/1‑48 (MQ=255)
|
ATGATGTTGAAATCCATCGACATCTGCCCTGCCGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTTTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCA > NZ_CP009273/1818869‑1819019
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
CGTGTCATGATGTTGAAATCCATCGACATCTGCCCTGCCGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTTTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCACTATCCTTTCCATGCCGGGAAACAAAGAAAACTCCC > NZ_CP009273/1818863‑1819055
|
gtcggcagcgtcagatgtgtataagagacagGCCCTGCCGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGG < SRR3722089.234206/69‑1 (MQ=60)
CGTGTCATGATGTTGAAATCCATCGACATCTGCCCTGCCGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGG < SRR3722089.623321/100‑1 (MQ=60)
CGTGTCATGATGTTGAAATCCATCGACATCTGCCCTGCCGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGG < SRR3722089.62618/100‑1 (MQ=60)
CGTGTCATGATGTTGAAATCCACCGACATCTGCCCTGCCGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGG < SRR3722089.122407/100‑1 (MQ=60)
ATGATGTTGAAATCCATCGACATCTGCCCTGCCGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGT < SRR3722089.50488/100‑1 (MQ=60)
ATGTTGAAATCCATCGACATCTGCCCTGCCGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAA > SRR3722089.1173690/1‑100 (MQ=60)
ATGTTGAAATCCATCGACATCTGCCCTGCCGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAA > SRR3722089.942774/1‑100 (MQ=60)
TTGAAATCCATCGACATCTGCCCTGCCGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGC < SRR3722089.529351/100‑1 (MQ=60)
ATCGACATCTGCCCTGCCGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGC < SRR3722089.1015795/100‑1 (MQ=60)
CCCTGCCGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGC < SRR3722089.127082/100‑1 (MQ=60)
AGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGC < SRR3722089.305253/100‑1 (MQ=60)
TCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCACTATCC < SRR3722089.997727/100‑1 (MQ=60)
TCCGCTGCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCACTATCC < SRR3722089.466217/100‑1 (MQ=60)
GCAAAGGCAAAAGGCTGGAACGGTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCctgtctcttatacacatctgacgctgccgacg > SRR3722089.209700/1‑68 (MQ=60)
GTGTTAAGGTATGGTTAAAGCGGTCTTCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAAGGTCACGATCCTTTCCATGCCGGGAAACAAAGAAACCTC > SRR3722089.774939/1‑100 (MQ=60)
GTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCACTATCCTTTCCATGCCGGGAAACAAAGAAAACTC > SRR3722089.1053528/1‑100 (MQ=60)
GTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCACTATCCTTTCCATGCCGGGAAACAAAGAAAACTC > SRR3722089.671461/1‑100 (MQ=60)
GTGTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCACTATCCTTTCCATGCCGGGAAACAAAGAAAACTC > SRR3722089.1217210/1‑100 (MQ=60)
GTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCACTATCCTTTCCATGCCGGGAAACAAAGAAAACTCCC > SRR3722089.445713/1‑100 (MQ=60)
|
CGTGTCATGATGTTGAAATCCATCGACATCTGCCCTGCCGTCAGTTTCGCTTTTACCACCTGGTCCGCTGCAAAGGCAAAAGGCTGGAACGGTTTTAAGGTATGGTTAAAGCGGTCTGCGCTTTCAAGGAGCATCTCGCCGCCTTCCAGCAACGTCACTATCCTTTCCATGCCGGGAAACAAAGAAAACTCCC > NZ_CP009273/1818863‑1819055
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
