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 I225 R1
|
227 |
21.4 |
1179702 |
97.1% |
1145490 |
86.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
3,002,903 |
T→C |
S261P (TCA→CCA) |
ygeY → |
YgeY family selenium metabolism‑linked hydrolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 3,002,903 | 0 | T | C | 100.0%
| 51.8
/ NA
| 17 | S261P (TCA→CCA) | ygeY | YgeY family selenium metabolism‑linked hydrolase |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (11/6); total (11/6) |
CGGCAAAGGCACCCTCACCGTTTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAG > NZ_CP009273/3002824‑3002984
|
cGGCAAAGGCACCCTCCCCGTTTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACcg < 1:280912/90‑1 (MQ=255)
ccTCACCGTTTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTg > 1:557718/1‑90 (MQ=255)
cGTTTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGa < 2:62698/90‑1 (MQ=255)
ttcttcACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGgc > 1:223939/1‑90 (MQ=255)
caTCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTgg > 2:64818/1‑90 (MQ=255)
ccAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGaa < 2:155965/90‑1 (MQ=255)
gcTGTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCcctg < 2:398573/90‑1 (MQ=255)
gTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGAGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCcctgcct > 2:94684/1‑90 (MQ=255)
aGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCctgcctgc < 2:187578/90‑1 (MQ=255)
gCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCctgcctgc > 1:402676/1‑82 (MQ=255)
gCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCctgcctgc < 2:402676/82‑1 (MQ=255)
gCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGa > 1:62221/1‑90 (MQ=255)
gCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGa > 1:356651/1‑90 (MQ=255)
gCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGa > 1:222755/1‑90 (MQ=255)
gCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGa > 1:196441/1‑90 (MQ=255)
gcgcGGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAg > 1:138555/1‑90 (MQ=255)
gcgcAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAg > 2:160712/1‑90 (MQ=255)
|
CGGCAAAGGCACCCTCACCGTTTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAG > NZ_CP009273/3002824‑3002984
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GGTTATGACGAATTCCTCGGCAAAGGCACCCTCACCGTTTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTA > NZ_CP009273/3002807‑3003002
|
GGTTATGACGAATTCCTCGGCAAAGGCACCCTCACCGTTTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAA > SRR3722109.268260/1‑100 (MQ=60)
CGGCAAAGGCACCCTCCCCGTTTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACC < SRR3722109.284462/100‑1 (MQ=60)
GCAAAGGCACCCTCACCGTTTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTG > SRR3722109.566176/1‑100 (MQ=60)
TTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGC > SRR3722109.226606/1‑100 (MQ=60)
GTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGA > SRR3722109.198840/1‑100 (MQ=60)
GTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGA > SRR3722109.225413/1‑100 (MQ=60)
GTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGA > SRR3722109.361544/1‑100 (MQ=60)
GTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGA > SRR3722109.408510/1‑100 (MQ=60)
GTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGA > SRR3722109.62959/1‑100 (MQ=60)
GCAGACAGCTGCGCGGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAG > SRR3722109.140269/1‑100 (MQ=60)
GTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTT < SRR3722109.301774/100‑1 (MQ=60)
CCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTA < SRR3722109.214916/100‑1 (MQ=60)
CCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTA > SRR3722109.442637/1‑100 (MQ=60)
|
GGTTATGACGAATTCCTCGGCAAAGGCACCCTCACCGTTTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTA > NZ_CP009273/3002807‑3003002
|
| 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: ‑ |
