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 |
2,882,413 |
A→C |
V349G (GTT→GGT) |
cysI ← |
assimilatory sulfite reductase (NADPH) hemoprotein subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 2,882,413 | 0 | A | C | 100.0%
| 82.4
/ NA
| 24 | V349G (GTT→GGT) | cysI | assimilatory sulfite reductase (NADPH) hemoprotein subunit |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base C (12/12); total (12/12) |
GGTTTTCAGCGGACGCGCCGGATAATCAAGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTAACCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATTTGATCCCCGCGCGACGCTCCACTTCCG > NZ_CP009273/2882328‑2882497
|
ggTTTTCAGCGGACGCGCCGGATAATCAAGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCCCa > 1:433140/1‑90 (MQ=255)
aaTCAAGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCgg < 1:866680/90‑1 (MQ=255)
cAAGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGa < 1:617766/90‑1 (MQ=255)
aGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAAc < 1:318703/90‑1 (MQ=255)
aGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAAc < 2:547307/90‑1 (MQ=255)
aGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAAc < 1:547416/90‑1 (MQ=255)
aGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAAc < 1:537155/90‑1 (MQ=255)
gCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAAc > 2:646257/1‑85 (MQ=255)
gCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAAc < 1:646257/85‑1 (MQ=255)
cGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCatat > 1:238147/1‑90 (MQ=255)
gATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCgg > 1:66056/1‑90 (MQ=255)
gCGTCAGGTGCCAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAAtt > 1:634311/1‑90 (MQ=255)
gCGTCAGGTGCCAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAAtt > 2:402289/1‑90 (MQ=255)
cGTCAGGTGCCAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAAttt > 2:543761/1‑90 (MQ=255)
gTCAGGTGCCAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATTTg > 1:396650/1‑90 (MQ=255)
tGCCAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATTTGATcccc > 1:383007/1‑90 (MQ=255)
aGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATTTGATCCCcgcgc < 2:816428/90‑1 (MQ=255)
tATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATTTGATCCCCGCGCGAc < 2:383007/90‑1 (MQ=255)
aTGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGCCGGATCGGTTCAAATTTGATCCCCGCGCGACGCTCCACt < 2:537198/90‑1 (MQ=255)
aTGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATTTGATCCCCGCGCGACGCTCCACt > 2:740212/1‑90 (MQ=255)
cccTTACCCCATCCAATACGAACGCCCCGTCCGGTTAACTCATATTGACGGATCGGTTCAAATTTGATCCCCGCGCGACGCTCCCCTTcc < 2:694015/90‑1 (MQ=255)
ccTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATTTGATCCCCGCGCGACGCTCCACTTCCg > 2:655331/1‑90 (MQ=255)
cTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATc > 2:532962/1‑52 (MQ=255)
cTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATc < 1:532962/52‑1 (MQ=255)
|
GGTTTTCAGCGGACGCGCCGGATAATCAAGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTAACCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATTTGATCCCCGCGCGACGCTCCACTTCCG > NZ_CP009273/2882328‑2882497
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 19 ≤ ATCG/ATCG < 30 ≤ 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
CTCCAGCAGGCCGGTTTTCAGCGGACGCGCCGGATAATCAAGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTAACCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATTTGATCCCCGCGCGACGCTCCACTTCCGCTTTAAACG > NZ_CP009273/2882316‑2882506
|
CTCCAGCAGGCCGGTTTTCAGCGGACGCGCCGGATAATCAAGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCC < SRR3722072.241131/100‑1 (MQ=60)
CTCCAGCAGGCCGGTTTTCAGCGGACGCGCCGGATAATCAAGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCC < SRR3722072.302085/100‑1 (MQ=60)
CTCCAGCAGGCCGGTTTTCAGCGGACGCGCCGGATAATCAAGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCC < SRR3722072.881806/100‑1 (MQ=60)
tataagagacaGGTTTTCAGCGGACGCGCCGGATAATCAAGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCCC < SRR3722072.6526/89‑1 (MQ=60)
CCAGCAGGCCGGTTTTCAGCGGACGCGCCGGATAATCAAGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCCCA > SRR3722072.441024/1‑100 (MQ=60)
AATCAAGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATA < SRR3722072.881625/100‑1 (MQ=60)
ATCAAGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATAT > SRR3722072.242128/1‑100 (MQ=60)
CAAGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGG < SRR3722072.628785/100‑1 (MQ=60)
AGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGAC < SRR3722072.557259/100‑1 (MQ=60)
AGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGAC < SRR3722072.657791/100‑1 (MQ=60)
AGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGAC < SRR3722072.546825/100‑1 (MQ=60)
AGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGAC < SRR3722072.324282/100‑1 (MQ=60)
GACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGG > SRR3722072.67276/1‑100 (MQ=60)
tgggctcggagatgtgtataagagacagCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATT < SRR3722072.542565/72‑1 (MQ=60)
TCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATT > SRR3722072.645631/1‑100 (MQ=60)
GATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATTTG > SRR3722072.403808/1‑100 (MQ=60)
CAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATTTGATCCCC > SRR3722072.389853/1‑100 (MQ=60)
CAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCtgtctcttatacacatctccgagcccacgagacgtccgattatctcgtatgccgtcttctgc > SRR3722072.624553/1‑38 (MQ=60)
TCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATTTGATCCCCGCGCGACGCTCCACTTCCGCTT > SRR3722072.93533/1‑100 (MQ=60)
TGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGGTCAAATTTGATCCCCGCGCGACGCTCCACTTCCGCTTTAAA > SRR3722072.528054/1‑100 (MQ=60)
GCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATTTGATCCCCGCGCTACGCTCCACTTCCGCTTTAAAC > SRR3722072.599457/1‑100 (MQ=60)
GCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATTTGATCCCCGCGCGACGCTCCACTTCCGCTTTAAAC > SRR3722072.439705/1‑100 (MQ=60)
GCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATTTGATCCCCGCGCGACGCTCCACTTCCGCTTTAAAC > SRR3722072.793797/1‑100 (MQ=60)
CCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCctgtctcttatacacatctccgagcccacgagacgtccgattatct > SRR3722072.745657/1‑54 (MQ=60)
CCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATTTGATCCCCGCGCGACGCTCCACTTCCGCTTTAAACG > SRR3722072.11339/1‑100 (MQ=60)
CCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATTTGATCCCCGCGCGACGCTCCACTTCCGCTTTAAACG > SRR3722072.305483/1‑100 (MQ=60)
|
CTCCAGCAGGCCGGTTTTCAGCGGACGCGCCGGATAATCAAGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTAACCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATTTGATCCCCGCGCGACGCTCCACTTCCGCTTTAAACG > NZ_CP009273/2882316‑2882506
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
