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 F4 I88 R1
|
217 |
30.5 |
1742422 |
95.9% |
1670982 |
87.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
923,801 |
A→G |
V284A (GTC→GCC) |
cydC ← |
cysteine/glutathione ABC transporter ATP‑binding protein/permease CydC |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 923,801 | 0 | A | G | 100.0%
| 129.0
/ NA
| 34 | V284A (GTC→GCC) | cydC | cysteine/glutathione ABC transporter ATP‑binding protein/permease CydC |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (19/15); total (19/15) |
GAGGCAATGACTTGCCCCAGATGCTGAAATGCACCCGTTACTGGTGCCAGTGCTTCAAACGCGGCTAACGCGCAGAAGACAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCAACGCCGCCAGACGCCATCCACAGCATCAGGATCACCGCTAAC > NZ_CP009273/923723‑923884
|
gagGCAATGACTTGCCCCAGATGCTGAAATGCACCCGTTACTGGTGCCAGTGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCaa > 2:531370/1‑91 (MQ=255)
gagGCAATGACTTGCCCCAGATGCTGAAATGCACCCGTTACTGGTGCCAGTGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCaa > 2:760837/1‑91 (MQ=255)
cAATGACTTGCCCCAGATGCTGAAATGCACCCGTTACTGGTGCTAGTGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTaa < 1:331110/91‑1 (MQ=255)
aCTTGCCCCAGATGCTGAAATGCACCCGTTACTGGTGCCAGTGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACgcgc < 2:613243/91‑1 (MQ=255)
aCTTGCCCCAGATGCTGAAATGCACCCGTTACTGGTGCCAGTGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACgcgc < 1:465093/91‑1 (MQ=255)
tGCCCCAGATGCTGAAATGCACCCGTTACTGGTGCCAGTGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCgg > 2:756672/1‑91 (MQ=255)
cAGATGCTGAAATGCACCCGTTACTGGTGCCAGTGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGa > 1:259404/1‑91 (MQ=255)
aTGCTGAAATGCACCCGTTACTGGTGCCAGTGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCa > 1:268452/1‑91 (MQ=255)
tGCTGAAATGCACCCGTTACTGGTGCCAGTGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCAt < 1:452466/91‑1 (MQ=255)
tGCTGAAATGCACCCGTTACTGGTGCCAGTGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCAt < 1:215098/91‑1 (MQ=255)
tGCACCCGTTACTGGTGCCAGTGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCa > 1:377998/1‑91 (MQ=255)
tGCACCCGTTACTGGTGCCAGTGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCa < 1:577843/91‑1 (MQ=255)
gCACCCGTTACTGGTGCCAGTGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCaa > 2:766199/1‑91 (MQ=255)
aCCCGTTACTGGTGCCAGTGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCAAcg > 2:515894/1‑91 (MQ=255)
gTGCCAGTGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCAACGCCGCCAGACGc < 2:608606/91‑1 (MQ=255)
gCCAGTGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCa < 1:559841/45‑1 (MQ=255)
gCCAGTGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCa > 2:559841/1‑45 (MQ=255)
gCCAGTGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCAACGCCGCCAGACGCCa > 1:781858/1‑91 (MQ=255)
cAGTGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCAACGCCGCCAGACGCCAt < 2:856413/90‑1 (MQ=255)
cAGTGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCAACGCCGCCAGACGCCAt > 1:856413/1‑90 (MQ=255)
aGTGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCAACGCCGCCAGACGCCATcc > 2:693581/1‑91 (MQ=255)
gTGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCAACGCCGCCAGACGCCATCca > 1:808219/1‑91 (MQ=255)
gTGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCAACGCCGCCAGACGCCATCca > 1:735333/1‑91 (MQ=255)
tGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCAACGCCGCCAGACGCCATCcac < 2:268452/91‑1 (MQ=255)
tGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCAACGCCGCCAGACGCCATCcac < 1:49648/91‑1 (MQ=255)
cTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCAACGCCGCCAGACGCCATCCACAg < 2:701258/91‑1 (MQ=255)
cTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCAACGCCGCCAGACGCCATCCACAg < 2:775171/91‑1 (MQ=255)
gcgGCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCAACGCCGCCAGACGCCATCCACAGCATCAGGa < 2:456128/91‑1 (MQ=255)
ggCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCAACGCCGCCAGACGCCATCCACAGCATCAGGATc > 2:138270/1‑91 (MQ=255)
ggCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCAACGCCGCCAGACGCCATCCACAGCATCAGGATc > 2:741263/1‑91 (MQ=255)
ggCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCAACGCCGCCAGACGCCATCCACAGCATCAGGATc > 1:349606/1‑91 (MQ=255)
gcAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCAACGCCGCCAGACGc < 2:262610/63‑1 (MQ=255)
gcAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCAACGCCGCCAGACGc > 1:262610/1‑63 (MQ=255)
gcAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCAACGCCGCCAGACGCCATCCACAGCATCAGGATCACCGCTAAc > 2:708036/1‑91 (MQ=255)
|
GAGGCAATGACTTGCCCCAGATGCTGAAATGCACCCGTTACTGGTGCCAGTGCTTCAAACGCGGCTAACGCGCAGAAGACAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCAACGCCGCCAGACGCCATCCACAGCATCAGGATCACCGCTAAC > NZ_CP009273/923723‑923884
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 32 ≤ 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
CAGAGATACGTACGGCAGAGGCAATGACTTGCCCCAGATGCTGAAATGCACCCGTTACTGGTGCCAGTGCTTCAAACGCGGCTAACGCGCAGAAGACAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCAACGCCGCCAGACGCCATCCACAGCATCAGGATCACCGCTAACGCGCCAATGAGCAGC > NZ_CP009273/923706‑923899
|
CAGAGATACGTACGGCAGAGGCAATGACTTGCCCCAGATGCTGAAATGCACCCGTTACTGGTGCCAGTGCTTCAAACGCGGCTAACGCGCAGAAGGCAAAC < SRR3722118.156812/101‑1 (MQ=60)
ccgtctcgtgggctcggagatgtgtataagagacagCGTTACTGGTGCCAGTGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGC < SRR3722118.571704/65‑1 (MQ=60)
CAATGACTTGCCCCAGATGCTGAAATGCACCCGTTACTGGTGCTAGTGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGT < SRR3722118.337924/101‑1 (MQ=60)
TGACTTGCCCCAGATGCTGAAATGCACCCGTTACTGGTGCCAGTGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGA > SRR3722118.264690/1‑101 (MQ=60)
ACTTGCCCCAGATGCTGAAATGCACCCGTTACTGGTGCCAGTGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGC < SRR3722118.474907/101‑1 (MQ=60)
CTTGCCCCAGATGCTGAAATGCACCCGTTACTGGTGCCAGTGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCA > SRR3722118.273911/1‑101 (MQ=60)
GATGCTGAAATGCACCCGTTACTGGTGCCAGTGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCA > SRR3722118.385897/1‑101 (MQ=60)
TGCTGAAATGCACCCGTTACTGGTGCCAGTGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCAAC < SRR3722118.219417/101‑1 (MQ=60)
TGCTGAAATGCACCCGTTACTGGTGCCAGTGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCAAC < SRR3722118.461999/101‑1 (MQ=60)
TGCACCCGTTACTGGTGCCAGTGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCAACGCCGCCAG < SRR3722118.590080/101‑1 (MQ=60)
CGTTACTGGTGCCAGTGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCAACGCCGCCAGACGCCA > SRR3722118.799018/1‑101 (MQ=60)
TTACTGGTGCCAGTGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCAACGCCGCCAGACGCCATC > SRR3722118.875425/1‑101 (MQ=60)
ACTGGTGCCAGTGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCAACGCCGCCAGACGCCATCCA > SRR3722118.751498/1‑101 (MQ=60)
ACTGGTGCCAGTGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCAACGCCGCCAGACGCCATCCA > SRR3722118.825987/1‑101 (MQ=60)
TGCTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCAACGCCGCCAGACGCCATCCACAGCATCAGGA < SRR3722118.50572/101‑1 (MQ=60)
CTTCAAACGCGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCAACGCCGCCAGACGCCATCCACAGCATCAGGATC > SRR3722118.356857/1‑101 (MQ=60)
CGGCTAACGCGCAGAAGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCAACGCCGCCAGACGCCATCCACAGCctgtctcttatacacatc > SRR3722118.267957/1‑83 (MQ=60)
AGGCAAACAGGGCAATTAACGCGCCGGGTTGANCANTNNCGCNANCGNNNNCAGACGCCATNNNNNNNNNNNNNATCACCGCTAACGCGCCAATGAGCAGC > SRR3722118.799096/1‑101 (MQ=56)
AGGCAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCAACGCCGCCAGACGCCATCCACAGCATCAGGATCACCGCTAACGCGCCAATGAGCAGC > SRR3722118.163798/1‑101 (MQ=60)
|
CAGAGATACGTACGGCAGAGGCAATGACTTGCCCCAGATGCTGAAATGCACCCGTTACTGGTGCCAGTGCTTCAAACGCGGCTAACGCGCAGAAGACAAACAGGGCAATTAACGCGCCGGGTTGAGCATTGCCGCCAACGCCGCCAGACGCCATCCACAGCATCAGGATCACCGCTAACGCGCCAATGAGCAGC > NZ_CP009273/923706‑923899
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
