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 I194 R1
|
197 |
32.2 |
1845014 |
95.2% |
1756453 |
85.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
575,614 |
A→G |
intergenic (+72/+93) |
BW25113_RS02885 → / ← ylcI |
hypothetical protein/YlcI/YnfO family protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 575,614 | 0 | A | G | 100.0%
| 133.6
/ NA
| 37 | intergenic (+72/+93) | BW25113_RS02885/ylcI | hypothetical protein/YlcI/YnfO family protein |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (22/15); total (22/15) |
CTGGTGGTTGACTGATCACCATAACTGCTAATCATTCAAACTACTTAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGAAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAGTGAATTTACAATATCGTCCTGTTCGGAGGGAAGAAC > NZ_CP009273/575528‑575697
|
cTGGTGGTTGACTGATCACCATAACTGCTAATCATTCAAACTACTTAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAg > 2:265892/1‑90 (MQ=255)
tGATCACCATAACTGCTAATCATTCAAACTACTTAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGc > 2:270095/1‑90 (MQ=255)
gATCACCATAACTGCTAATCATTCAAACTACTTAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCa < 2:829939/90‑1 (MQ=255)
gATCACCATAACTGCTAATCATTCAAACTACTTAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCa < 2:357866/90‑1 (MQ=255)
cACCATAACTGCTAATCATTCAAACTACTTAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACt < 2:514684/90‑1 (MQ=255)
aCCATAACTGCTAATCATTCAAACTACTTAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTc > 1:57382/1‑90 (MQ=255)
aCTGCTAATCATTCAAACTACTTAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTAc > 1:853160/1‑90 (MQ=255)
cTAATCATTCAAACTACTTAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCa > 1:833385/1‑90 (MQ=255)
tAATCATTCAAACTACTTAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCaa < 1:464233/90‑1 (MQ=255)
tAATCATTCAAACTACTTAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCaa > 1:196894/1‑90 (MQ=255)
tAATCATTCAAACTACTTAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCaa > 1:672197/1‑90 (MQ=255)
tCATTCAAACTACTTAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGc < 2:824621/90‑1 (MQ=255)
ttCAAACTACTTAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTAc < 2:553727/79‑1 (MQ=255)
ttCAAACTACTTAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTAc > 1:553727/1‑79 (MQ=255)
ttCAAACTACTTAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCt > 1:738708/1‑90 (MQ=255)
ttCAAACTACTTAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCt > 1:159944/1‑90 (MQ=255)
ttCAAACTACTTAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCt < 1:39994/90‑1 (MQ=255)
actTAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTa > 2:294227/1‑90 (MQ=255)
ctTAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTaa > 2:393726/1‑90 (MQ=255)
aaCCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAGTg < 1:44150/90‑1 (MQ=255)
aaCCTGTGACAGAGCCAACACGCAGTCAGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAGTg < 2:414841/90‑1 (MQ=255)
tgtgACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAGTGAAtt > 1:709514/1‑90 (MQ=255)
tgACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAGt > 2:822680/1‑83 (MQ=255)
tgACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAGt < 1:822680/83‑1 (MQ=255)
tgACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAGTGAATTTa > 1:850263/1‑90 (MQ=255)
tgACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAGTGAATTTa > 1:76476/1‑90 (MQ=255)
tgACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAGTGAATTTa > 2:526338/1‑90 (MQ=255)
gACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAGTGAATTTAc < 1:393726/90‑1 (MQ=255)
gACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAGTGAATTTAc < 1:199586/90‑1 (MQ=255)
gagCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAGt < 2:182167/78‑1 (MQ=255)
gagCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAGt > 1:182167/1‑78 (MQ=255)
gagCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAGTGAATTTACAata > 1:673027/1‑90 (MQ=255)
cAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAGTGAATTTACAATATCGt > 1:417679/1‑90 (MQ=255)
acacGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAGTGAATTTACAATATCGTcc < 2:57382/90‑1 (MQ=255)
tCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAGTGAATTTACAATATCGTCCTGTTCGGa > 1:861369/1‑90 (MQ=255)
ctgtcactgtcaGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAGTGAATTTACAATATCGTCCTGTTCGGAg < 1:714058/90‑1 (MQ=255)
gtcaGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAGTGAATTTACAATATCGTCCTGTTCGGAGGGAAGAAc > 1:220012/1‑90 (MQ=255)
|
CTGGTGGTTGACTGATCACCATAACTGCTAATCATTCAAACTACTTAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGAAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAGTGAATTTACAATATCGTCCTGTTCGGAGGGAAGAAC > NZ_CP009273/575528‑575697
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GGATTATTCCCTGGTGGTTGACTGATCACCATAACTGCTAATCATTCAAACTACTTAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGAAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAGTGAATTTACAATATCGTCCTGTTCGGAGGGAAGAACGCGG > NZ_CP009273/575518‑575701
|
GGATTATTCCCTGGTGGTTGACTGATCACCATAACTGCTAATCATTCAAACTACTTAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAG < SRR3722072.638251/100‑1 (MQ=60)
TTGACTGATCACCATAACTGCTAATCATTCAAACTACTTAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTC > SRR3722072.58429/1‑100 (MQ=60)
GATCACCATAACTGCTAATCATTCAAACTACTTAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTAC > SRR3722072.867894/1‑100 (MQ=60)
ACCATAACTGCTAATCATTCAAACTACTTAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCA > SRR3722072.847830/1‑100 (MQ=60)
CCATAACTGCTAATCATTCAAACTACTTAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAA > SRR3722072.200289/1‑100 (MQ=60)
CCATAACTGCTAATCATTCAAACTACTTAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAA > SRR3722072.684235/1‑100 (MQ=60)
CTGCTAATCATTCAAACTACTTAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCT > SRR3722072.162730/1‑100 (MQ=60)
CTGCTAATCATTCAAACTACTTAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCT > SRR3722072.751797/1‑100 (MQ=60)
CTGCTAATCATTCAAACTACTTAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCC > SRR3722072.563677/1‑100 (MQ=60)
TAATCATTCAAACTACTTAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTA < SRR3722072.472723/100‑1 (MQ=60)
TTCAAACTACTTAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAG < SRR3722072.40724/100‑1 (MQ=60)
CTACTTAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAGTGAATT > SRR3722072.722169/1‑100 (MQ=60)
ACTTAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAGTGAATTTA > SRR3722072.864957/1‑100 (MQ=60)
ACTTAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAGTGAATTTA > SRR3722072.77896/1‑100 (MQ=60)
TAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAGTGAATTTACAA < SRR3722072.836990/100‑1 (MQ=60)
AACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAGTGAATTTACAAT < SRR3722072.44966/100‑1 (MQ=60)
ACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAGTGAATTTACAAct > SRR3722072.185319/1‑98 (MQ=60)
ACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAGTGAATTTACAATA > SRR3722072.896704/1‑100 (MQ=60)
ACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAGTGAATTTACAATA > SRR3722072.685081/1‑100 (MQ=60)
GTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAGTGAATTTACAATATCGT > SRR3722072.425247/1‑100 (MQ=60)
GACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAGTGAATTTACAATATCGTCC < SRR3722072.203030/100‑1 (MQ=60)
GACAGAGCCAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAGTGAATTTACAATATCGTCC < SRR3722072.400809/100‑1 (MQ=60)
CAACACGCAGTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAGTGAATTTACAATATCGTCCTGTTCGGA > SRR3722072.876231/1‑100 (MQ=60)
GTCTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAGTGAATTTACAATATCGTCCTGTTCGGAGGGAAGAAC > SRR3722072.223753/1‑100 (MQ=60)
CTGTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAGTGAATTTACAATATCGTCCTGTTCGGAGGGAAGAACGC < SRR3722072.726781/100‑1 (MQ=60)
GTCACTGTCAGGGAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAGTGAATTTACAATctgtctcttatacacatctccgagccca > SRR3722072.107067/1‑72 (MQ=60)
|
GGATTATTCCCTGGTGGTTGACTGATCACCATAACTGCTAATCATTCAAACTACTTAACCTGTGACAGAGCCAACACGCAGTCTGTCACTGTCAGGAAAGTGGTAAAACTGCAACTCAATTACTGCAATGCCCTCGTAATTAAGTGAATTTACAATATCGTCCTGTTCGGAGGGAAGAACGCGG > NZ_CP009273/575518‑575701
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
