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 |
3,785,687 |
G→C |
G75G (GGC→GGG) |
kbl ← |
glycine C‑acetyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 3,785,687 | 0 | G | C | 100.0%
| 67.0
/ NA
| 22 | G75G (GGC→GGG) | kbl | glycine C‑acetyltransferase |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base C (11/11); total (11/11) |
AGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATGCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGATAGTTGTTGGCACAA > NZ_CP009273/3785613‑3785771
|
aGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGaa > 1:481924/1‑90 (MQ=255)
ccgccAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTc > 2:605388/1‑90 (MQ=255)
gccAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTccc > 1:198283/1‑90 (MQ=255)
cAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGccgccg < 1:98128/90‑1 (MQ=255)
cAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGccgccg < 1:607593/90‑1 (MQ=255)
ctctTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAat < 1:486875/90‑1 (MQ=255)
tctTTATGGCTGTCCTGAGTGCCGCAAAAAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAatc < 2:180854/90‑1 (MQ=255)
tttATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAatcag > 2:220367/1‑90 (MQ=255)
aTGGCTGTCCTGAGTGCCGCAAATAAAACGCCCCGAAGCCACCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAatcagatc < 2:316648/90‑1 (MQ=255)
aTGGCTGTCCTGAGTGCCGAAAAAAAAACGCCCCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAatcagatc < 2:481924/90‑1 (MQ=255)
gTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGgatg > 1:411669/1‑90 (MQ=255)
gTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGgatg > 1:315881/1‑90 (MQ=255)
gTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGgatg > 1:654150/1‑90 (MQ=255)
gTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGgatg > 1:277229/1‑90 (MQ=255)
tGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTc > 1:472447/1‑90 (MQ=255)
cccGCAAATAAAACGCCCCGAAGCCACCCCGAAACCGTGAGAACCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAg < 2:418282/89‑1 (MQ=255)
ccGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGc > 2:609365/1‑90 (MQ=255)
cGCAAATAAACCGCACCGAAGCCACCCCGAAACCGTGAGAATCCATCCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGcc < 2:574225/90‑1 (MQ=255)
gCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGccc < 1:220367/90‑1 (MQ=255)
gCAAATAAAACGCACCGAAGCCACCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGccc < 1:395333/90‑1 (MQ=255)
aaTAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCgag > 2:177102/1‑90 (MQ=255)
gCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGATAGTTGTTGGCACaa < 2:136548/90‑1 (MQ=255)
|
AGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATGCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGATAGTTGTTGGCACAA > NZ_CP009273/3785613‑3785771
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GTAGAGAATCGCATCTTCCATCCCCAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATGCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGATAGTTGTTGGCACAAAAGTTAATGACGTG > NZ_CP009273/3785588‑3785785
|
GTAGAGAATCGCATCTTCCATCCCCAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATC > SRR3722088.137957/1‑100 (MQ=60)
GAATCGCATCTTCCATCCCCAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAA > SRR3722088.16188/1‑100 (MQ=60)
ATCGCATCTTCCATCCCCAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAAC < SRR3722088.236708/100‑1 (MQ=60)
TTCCATCCCCAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAA > SRR3722088.487662/1‑100 (MQ=60)
CAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCC > SRR3722088.200255/1‑100 (MQ=60)
CAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATC < SRR3722088.99137/100‑1 (MQ=60)
CAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATC < SRR3722088.615079/100‑1 (MQ=60)
CTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGA < SRR3722088.492673/100‑1 (MQ=60)
CTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATG > SRR3722088.319072/1‑100 (MQ=60)
CTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATG > SRR3722088.416217/1‑100 (MQ=60)
CTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATG > SRR3722088.279904/1‑100 (MQ=60)
CTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATG > SRR3722088.662256/1‑100 (MQ=60)
CTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGACATCCCGAAACCGTGAGAATCCATTCCCGCCTctgtctcttatacacatctccgagc > SRR3722088.32830/1‑75 (MQ=60)
ATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTC > SRR3722088.478033/1‑100 (MQ=60)
GCAAATAAAACGCACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGATAGTTG < SRR3722088.222578/100‑1 (MQ=60)
GCAAATAAAACGCACCGAAGCCACCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGATAGTTG < SRR3722088.399594/100‑1 (MQ=60)
CACCGAAGCCATCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGATAGTTGTTGGCACAAAAG > SRR3722088.121180/1‑100 (MQ=60)
TCCCGAAACCGTGAGAATCCATTCCCGCCTTTGCAGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGATAGTTGTTGGCACAAAAGTTAATGACGTG > SRR3722088.394185/1‑100 (MQ=60)
|
GTAGAGAATCGCATCTTCCATCCCCAGGAAGGCCGCCAGTTTTTGTTCAAGCTCTTTATGGCTGTCCTGAGTGCCGCAAATAAAACGCACCGAAGCCATGCCGAAACCGTGAGAATCCATTCCCGCCTTTGCCGCCGCAATCAGATCAGGATGATTCGCCAGCCCGAGATAGTTGTTGGCACAAAAGTTAATGACGTG > NZ_CP009273/3785588‑3785785
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
