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 |
463,972 |
A→G |
D45G (GAC→GGC) |
decR → |
DNA‑binding transcriptional regulator DecR |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 463,972 | 0 | A | G | 100.0%
| 53.2
/ NA
| 18 | D45G (GAC→GGC) | decR | DNA‑binding transcriptional regulator DecR |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (13/5); total (13/5) |
TGCACCCTCTCTTTGCAGGCACTGGCTGAAGCCGTTAATCTGACAACCACCCCTTGCTGGAAGCGCCTGAAACGGCTGGAGGACGACGGTATCCTTATCGGCAAAGTCGCCCTGCTGGATCCGGAAAAAATAGGCCTCGGCCTGACCGCTTTTGTGCTGATAAAA > NZ_CP009273/463887‑464051
|
tGCACCCTCTCTTTGCAGGCACTGGCTGAAGCCGTTAATCTGACAACCACCCCTTGCTGGAAGCGCCTGAAACGGCTGGAGGACGGCGGt > 2:38749/1‑90 (MQ=255)
gCACCCTCTCTTTGCAGGCACTGGCTGAAGCCGTTAATCTGACAACCACCCCTTGCTGGAAGCGCCTGAAACGGCTGGAGGGCGGCGGTa > 1:68154/1‑90 (MQ=255)
gCACCCTCTCTTTGCAGGCACTGGCTGAAGCCGTTAATCTGACAACCACCCCTTGCTGGAAGCGCCTGAAACGGCTGGAGGACGGCGGTa > 1:189920/1‑90 (MQ=255)
gCACCCTCTCTTTGCAGGCACTGGCTGAAGCCGTTAATCTGACAACCACCCCTTGCTGGAAGCGCCTGAAACGGCTGGAGGACGGCGGTa > 1:221267/1‑90 (MQ=255)
ctctctTTGCAGGCACTGGCTGAAGCCGTTAATCTGACAACCACCCCTTGCTGGAAGCGCCTGAAACGGCTGGAGGACGGCGGTATCCtt > 1:305101/1‑90 (MQ=255)
aGGCAGTGGCTGAAGCCGTTAATCTGACAACCACCCCTTGCTGGAAGCGCCTGAAACGGCTGGAGGACGGCGGTATCCTTATCGGCAAAg > 1:6990/1‑90 (MQ=255)
aGGCACTGGCTGAAGCCGTTAATCTGACAACCACCCCTTGCTGGAAGCGCCTGAAACGGCTGGAGGACGGCGGTATCCTTATCGGCAAAg > 2:330270/1‑90 (MQ=255)
aaTCTGACAACCACCCCTTGCTGGAAGCGCCTGAAACGGTTGGAGGACGGCGGTATCCTTATCGGCAAAGTCGCCCTGCTGGATCCGGaa < 2:434255/90‑1 (MQ=255)
gACAACCACCCCTTGCTGGAAGCGCCTGAAACGGCTGGAGGACGGCGGTATCCTTATCGGCAAAGTCGCCCTGCTGGATCCGGAAAAAAt > 1:534966/1‑90 (MQ=255)
aCAACCACCCCTTGCTGGAAGCGCCTGAAACGGCTGGAGGACGGCGGTATCCTTATCGGCAAAGTCGCCCTGCTGGATCCGGAAAAAATa < 1:405569/90‑1 (MQ=255)
ccccTTGCTGGAAGCGCCTGAAACGGCTGGAGGACGGCGGTATCCTTATCGGCAAAGTCGCCCTGCTGGATCCGGAAAAAATAGGCCTCg > 2:581043/1‑90 (MQ=255)
ttGCTGGAAGCGCCTGAAACGGCTGGAGGACGGCGGTATCCTTATCGGCAAAGTCGCCCTGCTGGATCCGGAAAAAATAGGCCTCGGCCt > 2:137245/1‑90 (MQ=255)
ttGCTGGAAGCGCCTGAAACGGCTGGAGGACGGCGGTATCCTTATCGGCAAAGTCGCCCTGCTGGATCCGGAAAAAATAGGCCTCGGCCt > 1:380120/1‑90 (MQ=255)
tGGAAGCGCCTGAAACGGCTGGAGGACGGCGGTATCCTTATCGGCAAAGTCGCCCTGCTGGATCCGGAAAAAATAGGCCTCGGCCTGAcc < 2:305681/90‑1 (MQ=255)
gAAGCGCCTGAAACGGCTGGAGGACGGCGGTATCCTTATCGGCAAAGTCGCCCTGCTGGATCCGGAAAAAATAGGCCTCGGCCTGACCGc > 2:226434/1‑90 (MQ=255)
gCTGGAGGACGGCGGTATCCTTATCGGCAAAGTCGCCCTGCTGGATCCGGAAAAAATAGGCCTCGGCCTGACCGCttt < 2:233896/78‑1 (MQ=255)
gCTGGAGGACGGCGGTATCCTTATCGGCAAAGTCGCCCTGCTGGATCCGGAAAAAATAGGCCTCGGCCTGACCGCttt > 1:233896/1‑78 (MQ=255)
cTGGAGGACGGCGGTATCCTTATCGGCAAAGTCGCCCTGCTGGATCCGGAAAAAATAGGCCTCGGCCTGACCGCTTTTGTGCTGATaaaa < 1:205178/90‑1 (MQ=255)
|
TGCACCCTCTCTTTGCAGGCACTGGCTGAAGCCGTTAATCTGACAACCACCCCTTGCTGGAAGCGCCTGAAACGGCTGGAGGACGACGGTATCCTTATCGGCAAAGTCGCCCTGCTGGATCCGGAAAAAATAGGCCTCGGCCTGACCGCTTTTGTGCTGATAAAA > NZ_CP009273/463887‑464051
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 31 ≤ 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
CAGCAGGATTGCACCCTCTCTTTGCAGGCACTGGCTGAAGCCGTTAATCTGACAACCACCCCTTGCTGGAAGCGCCTGAAACGGCTGGAGGACGACGGTATCCTTATCGGCAAAGTCGCCCTGCTGGATCCGGAAAAAATAGGCCTCGGCCTGACCGCTTTTGTGCTGATAAAAACGCAACATC > NZ_CP009273/463878‑464061
|
CAGCAGGATTGCACCCTCTCTTTGCAGGCACTGGCTGAAGCCGTTAATCTGACAACCACCCCTTGCTGGAAGCGCCTGAAACGGCTGGAGGGCGGCGGTA > SRR3722109.68974/1‑100 (MQ=60)
CAGCAGGATTGCACCCTCTCTTTGCAGGCACTGGCTGAAGCCGTTAATCTGACAACCACCCCTTGCTGGAAGCGCCTGAAACGGCTGGAGGACGGCGGTA > SRR3722109.192255/1‑100 (MQ=60)
CAGCAGGATTGCACCCTCTCTTTGCAGGCACTGGCTGAAGCCGTTAATCTGACAACCACCCCTTGCTGGAAGCGCCTGAAACGGCTGGAGGACGGCGGTA > SRR3722109.223912/1‑100 (MQ=60)
GGATTGCACCCTCTCTTTGCAGGCACTGGCTGAAGCCGTTAATCTGACAACCACCCCTTGCTGGAAGCGCCTGAAACGGCTGGAGGACGGCGGTATCCTT > SRR3722109.309071/1‑100 (MQ=60)
CTCTCTTTGCAGGCAGTGGCTGAAGCCGTTAATCTGACAACCACCCCTTGCTGGAAGCGCCTGAAACGGCTGGAGGACGGCGGTATCCTTATCGGCAAAG > SRR3722109.7092/1‑100 (MQ=60)
CCGTTAATCTGACAACCACCCCTTGCTGGAAGCGCCTGAAACGGCTGGAGGACGGCGGTATCCctgtctcttatacacatctgacgctgccgacgaatgt > SRR3722109.165262/1‑63 (MQ=60)
CCGTTAATCTGACAACCACCCCTTGCTGGAAGCGCCTGAAACGGCTGGAGGACGGCGGTATCCTTATCGGCAAAGTCGCCCTGCTGGATCCGGAAAAAAT > SRR3722109.543108/1‑100 (MQ=60)
ACAACCACCCCTTGCTGGAAGCGCCTGAAACGGCTGGAGGACGGCGGTATCCTTATCGGCAAAGTCGCCCTGCTGGATCCGGAAAAAATAGGCCTCGGCC < SRR3722109.411467/100‑1 (MQ=60)
CAACCACCCCTTGCTGGAAGCGCCTGAAACGGCTGGAGGACGGCGGTATCCTTATCGGCAAAGTCGCCCTGCTGGATCCGGAAAAAATAGGCCTCGGCCT > SRR3722109.385513/1‑100 (MQ=60)
TGCTGGAAGCGCCTGAAACGGCTGGAGGACGGCGGTATCCctgtctcttatacacatctgacgctgccgacgaatgtcaatgtgtagatctcggtggtcg > SRR3722109.117556/1‑40 (MQ=60)
GCCTGAAACGGCTGGAGGACGGCGGTATCCTTATCGGCAAAGTCGCCCTGCTGGATCCGGAAAAAATAGGCCTCGGCCTGACCGCTTTTGTGCTGATAct > SRR3722109.236666/1‑98 (MQ=60)
CTGGAGGACGGCGGTATCCTTATCGGCAAAGTCGCCCTGCTGGATCCGGAAAAAATAGGCCTCGGCCTGACCGCTTTTGTGCTGATAAAAACGCAACATC < SRR3722109.207663/100‑1 (MQ=60)
|
CAGCAGGATTGCACCCTCTCTTTGCAGGCACTGGCTGAAGCCGTTAATCTGACAACCACCCCTTGCTGGAAGCGCCTGAAACGGCTGGAGGACGACGGTATCCTTATCGGCAAAGTCGCCCTGCTGGATCCGGAAAAAATAGGCCTCGGCCTGACCGCTTTTGTGCTGATAAAAACGCAACATC > NZ_CP009273/463878‑464061
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
