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 |
979,260 |
T→C |
I52T (ATC→ACC) |
gloC → |
hydroxyacylglutathione hydrolase GloC |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 979,260 | 0 | T | C | 100.0%
| 21.1
/ NA
| 8 | I52T (ATC→ACC) | gloC | hydroxyacylglutathione hydrolase GloC |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (6/2); total (6/2) |
GGCGGCGATGCGGAAAAAATCAAACAGGAAGTTGATGACAGCGGCCTGACACTGATGCAGATCCTGCTGACGCATGGTCATCTGGACCACGTTGGCGCAGCGGCGGAACTGGCGCAACATTACGGCGTGC > NZ_CP009273/979199‑979328
|
ggcggcGATGCGGAAAAAATCAAACAGGAAGTTGATGACAGCGGCCTGACACTGATGCAGACCCTGCTGACGCATGGTCATCTGGACCAc > 1:107647/1‑90 (MQ=255)
aCAGGAAGTTGATGACAGCGGCCTGACACTGATGCAGACCCTGCTGACGCATGGTCATCTGGACCACGTTGGCGCAGCGGCGGAACTGgc < 2:396686/90‑1 (MQ=255)
aCAGCGGCCTGACACTGATGCAGACCCTGCTGACGCATGGTCATCTGGACCACGTTGGCGCAGCGGCGGAACTGGCGCAACATTACGGCg > 1:168876/1‑90 (MQ=255)
gCGGCCTGACACTGATGCAGACCCTGCTGACGCATGGTCATCTGGAcc < 1:299491/48‑1 (MQ=255)
gCGGCCTGACACTGATGCAGACCCTGCTGACGCATGGTCATCTGGAcc > 2:299491/1‑48 (MQ=255)
gCGGCCTGACACTGATGCAGACCCTGCTGACGCATGGTCATCTGGACCACGTTGGCGCAGCGGCGGAACTGGCGCAACATTACGGCGTGc > 2:358079/1‑90 (MQ=255)
gCGGCCTGACACTGATGCAGACCCTGCTGACGCATGGTCATCTGGACCACGTTGGCGCAGCGGCGGAACTGGCGCAACATTACGGCGTGc > 2:51881/1‑90 (MQ=255)
gCGGCCTGACACTGATGCAGACCCTGCTGACGCATGGTCATCTGGACCACGTTGGCACAGCGGCGGAACTGGCGCAACATTACGGCGTGc > 1:402904/1‑90 (MQ=255)
|
GGCGGCGATGCGGAAAAAATCAAACAGGAAGTTGATGACAGCGGCCTGACACTGATGCAGATCCTGCTGACGCATGGTCATCTGGACCACGTTGGCGCAGCGGCGGAACTGGCGCAACATTACGGCGTGC > NZ_CP009273/979199‑979328
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ 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
GGTGTGAACAAACCCGTCTGGCCGCACTGGTCGATCCTGGCGGCGATGCGGAAAAAATCAAACAGGAAGTTGATGACAGCGGCCTGACACTGATGCAGATCCTGCTGACGCATGGTCATCTGGACCACGTTGGCGCAGCGGCGGAACTGGCGCAACATTACGGCGTGC > NZ_CP009273/979161‑979328
|
GGTGTGAACAAACCCGTCTGGCCGCACTGGTCGATCCTGGCGGCGATGCGGAAAAAATCAAACAGGAAGTTGATGACAGCGGCCTGACACTGATGCAGAC < SRR3722114.452153/100‑1 (MQ=60)
GGTGTGAACAAACCCGTCTGGCCGCACTGGTCGATCCTGGCGGCGATGCGGAAAAAATCAAACAGGAAGTTGATGACAGCGGCCTGACACTGATGCAGAC < SRR3722114.56966/100‑1 (MQ=60)
ACAAACCCGTCTGGCCGCACTGGTCGATCCTGGCGGCGATGCGGAAAAAATCAAACAGGAAGTTGATGACAGCGGCCTGACACTGATGCAGACCCTGCTG < SRR3722114.492899/100‑1 (MQ=60)
GGTCGATCCTGGCGGCGATGCGGAAAAAATCAAACAGGAAGTTGATGACAGCGGCCTGACACTGATGCAGACCCTGCTGACGCATGGTCATCTGGACCAC > SRR3722114.108784/1‑100 (MQ=60)
tctcgtggctcggagatgtgtataagagacagGTTGATGACAGCGGCCTGACACTGATGCAGACCCTGCTGACGCATGGTCATCTGGACCACGTTGGCGC < SRR3722114.302682/68‑1 (MQ=60)
GAAGTTGATGACAGCGGCCTGACACTGATGCAGACCCTGCTGACGCATGGTCATCTGGACCACGTTGGCGCAGCGGCGGAACTGGCGCAACATTACGGCG > SRR3722114.170548/1‑100 (MQ=60)
GTTGATGACAGCGGCCTGACACTGATGCAGACCCTGCTGACGCATGGTCATCTGGACCACGTTGGCACAGCGGCGGAACTGGCGCAACATTACGGCGTGC > SRR3722114.407811/1‑100 (MQ=60)
|
GGTGTGAACAAACCCGTCTGGCCGCACTGGTCGATCCTGGCGGCGATGCGGAAAAAATCAAACAGGAAGTTGATGACAGCGGCCTGACACTGATGCAGATCCTGCTGACGCATGGTCATCTGGACCACGTTGGCGCAGCGGCGGAACTGGCGCAACATTACGGCGTGC > NZ_CP009273/979161‑979328
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ 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: ‑ |
