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 I206 R1
|
206 |
23.7 |
1314362 |
96.8% |
1272302 |
86.2 |
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%
| 30.9
/ NA
| 11 | I52T (ATC→ACC) | gloC | hydroxyacylglutathione hydrolase GloC |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (6/5); total (6/5) |
CCCGTCTGGCCGCACTGGTCGATCCTGGCGGCGATGCGGAAAAAATCAAACAGGAAGTTGATGACAGCGGCCTGACACTGATGCAGATCCTGCTGACGCATGGTCATCTGGACCACGTTGGCGCAGCGGCGGAACTGGCGCAACATTACGGCGTGCCGGTTTTCGGCCC > NZ_CP009273/979173‑979341
|
cccGTCTGGCCGCACTGGTCGATCCTGGCGGCGATGCGGAAAAAATCAAACAGGAAGTTGATGACAGCGGCCTGACACTGATGCAGAccc < 1:209293/90‑1 (MQ=255)
ggcggcGATGCGGAAAAAATCAAACAGGAAGTTGATGACAGCGGCCTGACACTGATGCAGACCCTGCTGACGCATGGTCATCTGGACCAc > 2:432668/1‑90 (MQ=255)
cgATGCGGAAAAAATCAAACAGGAAGTTGATGACAGCGGCCTGACACTGATGCAGACCCTGCTGACGCATGGTCATCTGGACCACGTTgg > 1:202082/1‑90 (MQ=255)
cgATGCGGAAAAAATCAAACAGGAAGTTGATGACAGCGGCCTGACACTGATGCAGACCCTGCTGACGCATGGTCATCTGGACCACGTTgg > 2:298056/1‑90 (MQ=255)
cAAACAGGAAGTTGATGACAGCGGCCTGACACTGATGCAGACCCTGCTGACGCATGGTCATCTGGACCACGTTGGCGCAGCGGCGGAACt < 1:432668/90‑1 (MQ=255)
aGGAAGTTGATGACAGCGGCCTGACACTGATGCAGACCCTGCTGACGCATGGTCATCTGGACCACGTTGGCGCAGCGGCGGAACTGgcgc < 1:298056/90‑1 (MQ=255)
aGGAAGTTGATGACAGCGGCCTGACACTGATGCAGACCCTGCTGACGCATGGTCATCTGGACCACGTTGGCGCAGCGGCGGAACTGgcgc < 1:543531/90‑1 (MQ=255)
gAAGTTGATGACAGCGGCCTGACACTGATGCAGACCCTGCTGACGCATGGTCATCTGGACCACGTTGGCGCAGCGGCGGAACTGGCGCaa < 2:499710/90‑1 (MQ=255)
gCGGCCTGACACTGATGCAGACCCTGCTGACGCATGGTCATCTGGACCACGTTGGCGCAGCGGCGGAACTGGCGCAACATTACGGCGTGc > 1:176965/1‑90 (MQ=255)
gATGCAGACCCTGCTGACGCATGGTCATCTGGACCACGTTGGCGCAGCGGCGGAACTGgc > 1:599910/1‑60 (MQ=255)
gATGCAGACCCTGCTGACGCATGGTCATCTGGACCACGTTGGCGCAGCGGCGGAACTGgc < 2:599910/60‑1 (MQ=255)
gATGCAGACCCTGCTGACGCATGGTCATCTGGACCACGTTGGCGCAGCGGCGGAACTGGCGCAACATTACGGCGTGCCGGTTTTCGGccc > 1:211819/1‑90 (MQ=255)
|
CCCGTCTGGCCGCACTGGTCGATCCTGGCGGCGATGCGGAAAAAATCAAACAGGAAGTTGATGACAGCGGCCTGACACTGATGCAGATCCTGCTGACGCATGGTCATCTGGACCACGTTGGCGCAGCGGCGGAACTGGCGCAACATTACGGCGTGCCGGTTTTCGGCCC > NZ_CP009273/979173‑979341
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ 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
CAAACCCGTCTGGCCGCACTGGTCGATCCTGGCGGCGATGCGGAAAAAATCAAACAGGAAGTTGATGACAGCGGCCTGACACTGATGCAGATCCTGCTGACGCATGGTCATCTGGACCACGTTGGCGCAGCGGCGGAACTGGCGCAACATTACGGCGTGCCGGTTTTCGGCCCGGAAAAAGAA > NZ_CP009273/979169‑979351
|
CAAACCCGTCTGGCCGCACTGGTCGATCCTGGCGGCGATGCGGAAAAAATCAAACAGGAAGTTGATGACAGCGGCCTGACACTGATGCAGACCCTGCTGA < SRR3722088.144094/100‑1 (MQ=60)
CCCGTCTGGCCGCACTGGTCGATCCTGGCGGCGATGCGGAAAAAATCAAACAGGAAGTTGATGACAGCGGCCTGACACTGATGCAGACCCTGCTGACGCA < SRR3722088.211386/100‑1 (MQ=60)
ATCCTGGCGGCGATGCGGAAAAAATCAAACAGGAAGTTGATGACAGCGGCCTGACACTGATGCAGACCCTGCTGACGCATGGTCATCTGGACCACGTTGG > SRR3722088.204104/1‑100 (MQ=60)
CAAACAGGAAGTTGATGACAGCGGCCTGACACTGATGCAGACCCTGCTGACGCATGGTCATCTGGACCACGTTGGCGCAGCGGCGGAACTGGCGCAACAT < SRR3722088.437605/100‑1 (MQ=60)
AGGAAGTTGATGACAGCGGCCTGACACTGATGCAGACCCTGCTGACGCATGGTCATCTGGACCACGTTGGCGCAGCGGCGGAACTGGCGCAACATTACGG < SRR3722088.300957/100‑1 (MQ=60)
AGGAAGTTGATGACAGCGGCCTGACACTGATGCAGACCCTGCTGACGCATGGTCATCTGGACCACGTTGGCGCAGCGGCGGAACTGGCGCAACATTACGG < SRR3722088.550158/100‑1 (MQ=60)
GTTGATGACAGCGGCCTGACACTGATGCAGACCCTGCTGACGCATGGTCATCTGGACCACGTTGGCGCAGCGGCGGAACTGGCGCAACATTACGGCGTGC > SRR3722088.178735/1‑100 (MQ=60)
GCCTGACACTGATGCAGACCCTGCTGACGCATGGTCATCTGGACCACGTTGGCGCAGCGGCGGAACTGGCGCAACATTACctgtctcttatacacatctc > SRR3722088.607295/1‑80 (MQ=60)
GCCTGACACTGATGCAGACCCTGCTGACGCATGGTCATCTGGACCACGTTGGCGCAGCGGCGGAACTGGCGCAACATTACGGCGTGCCGGTTTTCGGCCC > SRR3722088.213942/1‑100 (MQ=60)
GATGCAGACCCTGCTGACGCATGGTCATCTGGACCACGTTGGCGCAGCGGCGGAACTGGCGCAACATTACGGCGTGCCGGTTTTCGGCCCGGAAAAAGAA > SRR3722088.255323/1‑100 (MQ=60)
|
CAAACCCGTCTGGCCGCACTGGTCGATCCTGGCGGCGATGCGGAAAAAATCAAACAGGAAGTTGATGACAGCGGCCTGACACTGATGCAGATCCTGCTGACGCATGGTCATCTGGACCACGTTGGCGCAGCGGCGGAACTGGCGCAACATTACGGCGTGCCGGTTTTCGGCCCGGAAAAAGAA > NZ_CP009273/979169‑979351
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
