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 I195 R1
|
222 |
27.1 |
1551108 |
96.0% |
1489063 |
86.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
2,526,050 |
A→G |
T95A (ACC→GCC) |
cysK → |
cysteine synthase A |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 2,526,050 | 0 | A | G | 100.0%
| 68.7
/ NA
| 20 | T95A (ACC→GCC) | cysK | cysteine synthase A |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (10/10); total (10/10) |
TTGAACCGACCAGCGGTAATACCGGGATTGCACTGGCCTATGTAGCTGCCGCTCGCGGTTACAAACTCACCCTGACCATGCCAGAAACCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAACCTGGTGCTGACGGAAGGTGCTAAAGGCATGAAAGG > NZ_CP009273/2525964‑2526132
|
ttGAACCGACCAGCGGTAATACCGGGATTGCACTGGCCTATGTAGCTGCCGCTCGCGGTTACAAACTCACCCTGACCATGCCAGAAGCCa < 2:524353/90‑1 (MQ=255)
gAACCGACCAGCGGTAATACCGGGATTGCACTGGCCTATGTAGCTGCCGCTCGCGGTTACAAACTCACCCTGACCATGCCAGAAGCCATg < 1:310203/90‑1 (MQ=255)
gAACCGACCAGCGGTAATACCGGGATTGCACTGGCCTATGTAGCTGCCGCTCGCGGTTACAAACTCACCCTGACCATGCCAGAAGCCATg < 2:4290/90‑1 (MQ=255)
gAACCGACCAGCGGTAATACCGGGATTGCACTGGCCTATGTAGCTGCCGCTCGCGGTTACAAACTCACCCTGACCATGCCAGAAGCCATg < 1:661530/90‑1 (MQ=255)
aaCCGACCAGCGGTAATACCGGGATTGCACTGGCCTATGTAGCTGCCGCTCGCGGTTACAAACTCACCCTGACCATGCCAGAAGCCATGa > 1:589120/1‑90 (MQ=255)
ttGCACTGGCCTATGTAGCTGCCGCTCGCGGTTACAAACTCACCCTGACCATGCCAGAAGCCATGAGTATTGAACGCCGCAAGCTGCTGa < 1:26258/90‑1 (MQ=255)
ttGCACTGGCCTATGTAGCTGCCGCTCGCGGTTACAAACTCACCCTGACCATGCCAGAAGCCATGAGTATTGAACGCCGCAAGCTGCTGa < 2:763091/90‑1 (MQ=255)
ttGCACTGGCCTATGTAGCTGCCGCTCGCGGTTACAAACTCACCCTGACCATGCCAGAAGCCATGAGTATTGAACGCCGCAAGCTGCTGa < 1:129036/90‑1 (MQ=255)
aTGTAGCTGCCGCTCGCGGTTACAAACTCACCCTGACCATGCCAGAAGCCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTg > 1:738878/1‑90 (MQ=255)
gCTGCCGCTCGCGGTTACAAACTCACCCTGACCATGCCAGAAGCCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAAc > 1:602572/1‑90 (MQ=255)
gCTGCCGCTCGCGGTTACAAACTCACCCTGACCATGCCAGAAGCCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAAc > 2:314832/1‑90 (MQ=255)
gCTGCCGCTCGCGGTTACAAACTCACCCTGACCATGCCAGAAGCCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAAc > 1:462885/1‑90 (MQ=255)
gCTGCCGCTCGCGGTTACAAACTCACCCTGACCATGCCAGAAGCCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAAc > 2:664028/1‑90 (MQ=255)
gCTGCCGCTCGCGGTTACAAACTCACCCTGACCATGCCAAAAGCCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAAc > 2:586537/1‑90 (MQ=255)
tCGCGGTTACAAACTCACCCTGACCATGCCAGAAGCCATGAGTATTGAGCGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAACCTGGTGCt > 1:404917/1‑90 (MQ=255)
tACAAACTCACCCTGACCATGCCAGAAGCCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAACCTGGTGCTGACGGaa < 2:175876/90‑1 (MQ=255)
aCAAACTCACCCTGACCATGCCAGAAGCCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAACCTGGTGCTGACGGAAg < 2:534132/90‑1 (MQ=255)
gACCATGCCAGAAGCCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAACCTGGTGCTGACGGAAGGTGCTAAAGGCAt > 1:509734/1‑90 (MQ=255)
cATGCCAGAAGCCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAACCTGGTGCTGACGGAAGGTGCTAAAGGCATGaa < 2:602572/90‑1 (MQ=255)
gCCAGAAGCCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAACCTGGTGCTGACGGAAGGTGCTAAAGGCATGAAAgg > 2:369656/1‑90 (MQ=255)
|
TTGAACCGACCAGCGGTAATACCGGGATTGCACTGGCCTATGTAGCTGCCGCTCGCGGTTACAAACTCACCCTGACCATGCCAGAAACCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAACCTGGTGCTGACGGAAGGTGCTAAAGGCATGAAAGG > NZ_CP009273/2525964‑2526132
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ 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
GAACTGGTTGAACCGACCAGCGGTAATACCGGGATTGCACTGGCCTATGTAGCTGCCGCTCGCGGTTACAAACTCACCCTGACCATGCCAGAAACCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAACCTGGTGCTGACGGAAGGTGCTAAAGGCATGAAAGGCGCAATCCAAAAAGCAG > NZ_CP009273/2525957‑2526149
|
GAACTGGTTGAACCGACCAGCGGTAATACCGGGATTGCACTGGCCTATGTAGCTGCCGCTCGCGGTTACAAACTCACCCTGACCATGCCAGAAGCCATGA > SRR3722073.601424/1‑100 (MQ=60)
GAACCGACCAGCGGTAATACCGGGATTGCACTGGCCTATGTAGCTGCCGCTCGCGGTTACAAACTCACCCTGACCATGCCAGAAGCCATGAGTATTGAAC < SRR3722073.316771/100‑1 (MQ=60)
GAACCGACCAGCGGTAATACCGGGATTGCACTGGCCTATGTAGCTGCCGCTCGCGGTTACAAACTCACCCTGACCATGCCAGAAGCCATGAGTATTGAAC < SRR3722073.675089/100‑1 (MQ=60)
caccaccgagatctacacgaccgccatcgtcggcagcgtcagatgtgtataagagacaGCCAGAAGCCATGAGTATTGAACGCCGCAAGCTGCTGAAAGC < SRR3722073.769355/42‑1 (MQ=60)
TTGCACTGGCCTATGTAGCTGCCGCTCGCGGTTACAAACTCACCCTGACCATGCCAGAAGCCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGG < SRR3722073.131739/100‑1 (MQ=60)
TTGCACTGGCCTATGTAGCTGCCGCTCGCGGTTACAAACTCACCCTGACCATGCCAGAAGCCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGG < SRR3722073.26926/100‑1 (MQ=60)
GCACTGGCCTATGTAGCTGCCGCTCGCGGTTACAAACTCACCCTGACCATGCCAGAAGCCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTG > SRR3722073.753840/1‑100 (MQ=60)
GGCCTATGTAGCTGCCGCTCGCGGTTACAAACTCACCCTGACCATGCCAGAAGCCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAAC > SRR3722073.472764/1‑100 (MQ=60)
GGCCTATGTAGCTGCCGCTCGCGGTTACAAACTCACCCTGACCATGCCAGAAGCCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAAC > SRR3722073.615130/1‑100 (MQ=60)
TAGCTGCCGCTCGCGGTTACAAACTCACCCTGACCATGCCAGAAGCCATGAGTATTGAGCGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAACCTGGTGCT > SRR3722073.413551/1‑100 (MQ=60)
AACTCACCCTGACCATGCCAGAAGCCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAACCTGGTGCTGACGGAAGGTGCTAAAGGCAT > SRR3722073.520476/1‑100 (MQ=60)
GCCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAACCTGGTGCTGACGGAAGGTGCTAAAGGCtgtctcttatacacatctgacgctg > SRR3722073.78989/1‑75 (MQ=60)
|
GAACTGGTTGAACCGACCAGCGGTAATACCGGGATTGCACTGGCCTATGTAGCTGCCGCTCGCGGTTACAAACTCACCCTGACCATGCCAGAAACCATGAGTATTGAACGCCGCAAGCTGCTGAAAGCGTTAGGTGCAAACCTGGTGCTGACGGAAGGTGCTAAAGGCATGAAAGGCGCAATCCAAAAAGCAG > NZ_CP009273/2525957‑2526149
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
