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 F4 I96 R1
|
227 |
23.3 |
882352 |
98.0% |
864704 |
126.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
4,556,234 |
T→C |
E277G (GAA→GGA) |
yjiN ← |
DUF445 domain‑containing protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 4,556,234 | 0 | T | C | 100.0%
| 77.5
/ NA
| 23 | E277G (GAA→GGA) | yjiN | DUF445 domain‑containing protein |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (8/15); total (8/15) |
ACACGAGAATCTTCACTGTTGATATCCACTTTCAGCCATTCCCGTAAATCCCCCCACAATTCACTGAGATAGCGATTAAAAGCTTCATCTTCTTTCAGATAGCTTTTTACGGCATCGGCTCGCGCTGCCATTTCCGGATCGTTTTTCAGCTTGTCGATCAGGGCGAAGGTGGCGCGATCAAACGCATGGCGGATCTGATGCGCACGATCGCGACTAATATCATCAAGCAAAGAATTCACCGCGTCAGAAACCAACT > NZ_CP009273/4556102‑4556357
|
acacGAGAATCTTCACTGTTGATATCCACTTTCAGCCATTCCCGTAAATCCCCCCACAATTCACTGAGATAGCGATTAAAAGCTTCATCTTCTTTCAGATAGCTTTTTACGGCATCGGCTCGCGCTGCCATTCCCGGAt < 2:69966/139‑1 (MQ=255)
gagaATCTTCACTGTTGATATCCACTTTCAGCCATTCCCGTAAATCCCCCCACAATTCACTGAGATAGCGATTAAAAGCTTCATCTTCTTTCAGATAGCTTTTTACGGCATCGGCTCGCGCTGCCATTCCCGGATCGtt > 1:304128/1‑139 (MQ=255)
gATATCCACTTTCAGCCATTCCCGTAAATCCCCCCACAATTCACTGAGATAGCGATTAAAAGCTTCATCTTCTTTCAGATAGCTTTTTACGGCATCGGCTCGCGCTGCCATTCCCGGATCGTTTTTCAGCTTGTCGAt < 2:183678/138‑1 (MQ=255)
gATATCCACTTTCAGCCATTCCCGTAAATCCCCCCACAATTCACTGAGATAGCGATTAAAAGCTTCATCTTCTTTCAGATAGCTTTTTACGGCATCGGCTCGCGCTGCCATTCCCGGATCGTTTTTCAGCTTGTCGAt < 2:132701/138‑1 (MQ=255)
ccATTCCCGTAAATCCCCCCACAATTCACTGAGATAGCGATTAAAAGCTTCATCTTCTTTCAGATAGCTTTTTACGGCATCGGCTCGCGCTGCCATTCCCGGATCGTTTTTCAGCTTGTCGATCAGGGCGAAGGTGgcg < 2:86587/139‑1 (MQ=255)
ccATTCCCGTAAATCCCCCCACAATTCACTGAGATAGCGATTAAAAGCTTCATCTTCTTTCAGATAGCTTTTTACGGCATCGGCTCGCGCTGCCATTCCCGGATCGTTTTTCAGCTTGTCGATCAGGGCGAAGGTGgcg < 1:367636/139‑1 (MQ=255)
tCCCGTAAATCCCCCCACAATTCACTGAGATAGCGATTAAAAGCTTCATCTTCTTTCAGATAGCTTTTTACGGCATCGGCTCGCGCTGCCATTCCCGGATCGTTTTTCAGCTTGTCGATCAGGGCGAAGGTGGCGCGAt > 1:8250/1‑139 (MQ=255)
cccccACAATTCACTGAGATAGCGATTAAAAGCTTCATCTTCTTTCAGATAGCTTTTTACGGCATCGGCTCGCGCTGCCATTCCCGGATCGTTTTTCAGCTTGTCGATCAGGGCGAAGGTGGCGCGATCAAACGCATgg < 1:123381/139‑1 (MQ=255)
cccccACAATTCACTGAGATAGCGATTAAAAGCTTCATCTTCTTTCAGATAGCTTTTTACGGCATCGGCTCGCGCTGCCATTCCCGGATCGTTTTTCAGCTTGTCGATCAGGGCGAAGGTGGCGCGATCAAACGCATgg < 1:93064/139‑1 (MQ=255)
cccccACAATTCACTGAGATAGCGATTAAAAGCTTCATCTTCTTTCAGATAGCTTTTTACGGCATCGGCTCGCGCTGCCATTCCCGGATCGTTTTTCAGCTTGTCGATCAGGGCGAAGGTGGCGCGATCAAACGCATgg < 1:387837/139‑1 (MQ=255)
cccccACAATTCACTGAGATAGCGATTAAAAGCTTCATCTTCTTTCAGATAGCTTTTTACGGCATCGGCTCGCGCTGCCATTCCCGGATCGTTTTTCAGCTTGTCGATCAGGGCGAAGGTGGCGCGATCAAACGCATgg < 1:364857/139‑1 (MQ=255)
ccccACAATTCACTGAGATAGCGATTAAAAGCTTCATCTTCTTTCAGATAGCTTTTTACGGCATCGGCTCGCGCTGCCATTCCCGGATCGTTTTTCAGCTTGTCGATCAGGGCGAAGGTGGCGCGATCAAACGCATGGc > 2:385895/1‑139 (MQ=255)
tCACTGAGATAGCGATTAAAAGCTTCATCTTCTTTCAGATAGCTTTTTACGGCATCGGCTCGCGCTGCCATTCCCGGATCGTTTTTCAGCTTGTCGATc > 2:202137/1‑99 (MQ=255)
tCACTGAGATAGCGATTAAAAGCTTCATCTTCTTTCAGATAGCTTTTTACGGCATCGGCTCGCGCTGCCATTCCCGGATCGTTTTTCAGCTTGTCGATc < 1:202137/99‑1 (MQ=255)
tGAGATAGCGATTAAAAGCTTCATCTTCTTTCAGATAGCTTTTTACGGCATCGGCTCGCGCTGCCATTCCCGGATCGTTTTTCAGCTTGTCGAt < 2:85640/94‑1 (MQ=255)
tGAGATAGCGATTAAAAGCTTCATCTTCTTTCAGATAGCTTTTTACGGCATCGGCTCGCGCTGCCATTCCCGGATCGTTTTTCAGATTGTCGAt > 1:85640/1‑94 (MQ=255)
tAGCGATTAAAAGCTTCATCTTCTTTCAGATAGCTTTTTACGGCATCGGCTCGCGCTGCCATTCCCGGATCGTTTTTCAGCTTGTCGATCAGGGCGAAGGTGGCGCGATCAAACGCATGGCGGATCTGATGCGCACGAt > 1:45762/1‑139 (MQ=255)
gCGATTAAAAGCTTCATCTTCTTTCAGATAGCTTTTTACGGCATCGGCTCGCGCTGCCATTCCCGGATCGTTTTTCAGCTTGTCGATCAGGGCGAAGGTGGCGCGATCAAACGCATGGCGGATCTGATGCGCACGATc < 1:75997/138‑1 (MQ=255)
tAAAAGCTTCATCTTCTTTCAGATAGCTTTTTACGGCATCGGCTCGCGCTGCCATTCCCGGATCGTTTTTCAGCTTGTCGATCAGGGCGAAGGTGgcg > 2:122927/1‑98 (MQ=255)
tAAAAGCTTCATCTTCTTTCAGATAGCTTTTTACGGCATCGGCTCGCGCTGCCATTCCCGGATCGTTTTTCAGCTTGTCGATCAGGGCGAAGGTGgcg < 1:122927/98‑1 (MQ=255)
aTCTTCTTTCAGATAGCTTTTTACGGCATCGGCTCGCGCTGCCATTCCCGGATCGTTTTTCAGCTTGTCGATCAGGGCGAAGGTGGCGCGATCAAACGCATGGCGGATCTGATGCGCACGATCGCGACTAATatcatc > 2:139421/1‑138 (MQ=255)
ggCTCGCGCTGCCATTCCCGGATCGTTTTTCAGCTTGTCGATCAGGGCGAAGGTGGCGCGATCAAACGCATGGCGGATCTGATGCGCACGATCGCGACTAATATCATCAAGCAAAGAATTCACCGCGTCAGAAACCAAc < 2:52716/139‑1 (MQ=255)
gCTCGCGCTGCCATTCCCGGATCGTTTTTCAGCTTGTCGATCAGGGCGAAGGTGGCGCGATCAAACGCATGGCGGATCTGATGCGCACGATCGCGACTAATATCATCAAGCAAAGAATTCACCGCGTCAGAAACCAACt < 1:385895/139‑1 (MQ=255)
|
ACACGAGAATCTTCACTGTTGATATCCACTTTCAGCCATTCCCGTAAATCCCCCCACAATTCACTGAGATAGCGATTAAAAGCTTCATCTTCTTTCAGATAGCTTTTTACGGCATCGGCTCGCGCTGCCATTTCCGGATCGTTTTTCAGCTTGTCGATCAGGGCGAAGGTGGCGCGATCAAACGCATGGCGGATCTGATGCGCACGATCGCGACTAATATCATCAAGCAAAGAATTCACCGCGTCAGAAACCAACT > NZ_CP009273/4556102‑4556357
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
TTCTTTCACACGAGAATCTTCACTGTTGATATCCACTTTCAGCCATTCCCGTAAATCCCCCCACAATTCACTGAGATAGCGATTAAAAGCTTCATCTTCTTTCAGATAGCTTTTTACGGCATCGGCTCGCGCTGCCATTTCCGGATCGTTTTTCAGCTTGTCGATCAGGGCGAAGGTGGCGCGATCAAACGCATGGCGGATCTGATGCGCACGATCGCGACTAATATCATCAAGCAAAGAATTCACCGCGTCAGAAACCAACTCCGCGCTATGT > NZ_CP009273/4556095‑4556368
|
TTCTTTCACACGAGAATCTTCACTGTTGATATCCACTTTCAGCCATTCCCGTAAATCCCCCCACAATTCACTGAGATAGCGATTAAAAGCTTCATCTTCTTTCAGATAGCTTTTTACGGCATCGGCTCGCGCTGCCATTCCCGGATCGTTT > SRR3722119.307239/1‑151 (MQ=60)
cgtgggctcggagatgttatagagacagCCCCCCACAATTCACTGAGATAGCGATTAAAAGCTTCATCTTCTTTCAGATAGCTTTTTACGGCATCGGCTCGCGCTGCCATTCCCGGATCGTTTTTCAGCTTGTCGATCAGGGCGAAGGT < SRR3722119.204290/121‑1 (MQ=60)
CTTTCAGCCATTCCCGTAAATCCCCCCACAATTCACTGAGATAGCGATTAAAAGCTTCATCTTCTTTCAGATAGCTTTTTACGGCATCGGCTCGCGCTGCCATTCCCGGATCGTTTTTCAGCTTGTCGATCAGGGCGAAGGTGGCGCGATC > SRR3722119.8311/1‑151 (MQ=60)
GCCATTCCCGTAAATCCCCCCACAATTCACTGAGATAGCGATTAAAAGCTTCATCTTCTTTCAGATAGCTTTTTACGGCATCGGCTCGCGCTGCCATTCCCGGATCGTTTTTCAGCTTGTCGATCAGGGCGAAGGTGGCGCGATCAAACGC < SRR3722119.371351/151‑1 (MQ=60)
cgtgggctcggagatgtgtataagagacagGAGATAGCGATTAAAAGCTTCATCTTCTTTCAGATAGCTTTTTACGGCATCGGCTCGCGCTGCCATTCCCGGATCGTTTTTCAGCTTGTCGATCAGGGCGAAGGTGGCGCGATCAAACGC < SRR3722119.124159/120‑1 (MQ=60)
CCCCCCACAATTCACTGAGATAGCGATTAAAAGCTTCATCTTCTTTCAGATAGCTTTTTACGGCATCGGCTCGCGCTGCCATTCCCGGATCGTTTTTCAGCTTGTCGATCAGGGCGAAGGTGGCGCGATCAAACGCATGGCGGATCTGATG < SRR3722119.124614/151‑1 (MQ=60)
CCCCCCACAATTCACTGAGATAGCGATTAAAAGCTTCATCTTCTTTCAGATAGCTTTTTACGGCATCGGCTCGCGCTGCCATTCCCGGATCGTTTTTCAGCTTGTCGATCAGGGCGAAGGTGGCGCGATCAAACGCATGGCGGATCTGATG < SRR3722119.368538/151‑1 (MQ=60)
CCCCCCACAATTCACTGAGATAGCGATTAAAAGCTTCATCTTCTTTCAGATAGCTTTTTACGGCATCGGCTCGCGCTGCCATTCCCGGATCGTTTTTCAGCTTGTCGATCAGGGCGAAGGTGGCGCGATCAAACGCATGGCGGATCTGATG < SRR3722119.391731/151‑1 (MQ=60)
CCCCCCACAATTCACTGAGATAGCGATTAAAAGCTTCATCTTCTTTCAGATAGCTTTTTACGGCATCGGCTCGCGCTGCCATTCCCGGATCGTTTTTCAGCTTGTCGATCAGGGCGAAGGTGGCGCGATCAAACGCATGGCGGATCTGATG < SRR3722119.93971/151‑1 (MQ=60)
CCACAATTCACTGAGATAGCGATTAAAAGCTTCATCTTCTTTCAGATAGCTTTTTACGGCATCGGCTCGCGCTGCCATTCCCGGATCGTTTTTCAGATTGTCGATAAGGGCGAAGGctgtctcttatacacatctccgagcccacgagact > SRR3722119.86486/1‑116 (MQ=60)
ATTCACTGAGATAGCGATTAAAAGCTTCATCTTCTTTCAGATAGCTTTTTACGGCATCGGCTCGCGCTGCCATTCCCGGATCGTTTTTCAGCTTGTCGATCAGGGCGAAGGTGGCGCGATCAAACGCATGGCGGATCTGATGCGCACGATC > SRR3722119.46164/1‑151 (MQ=60)
AGCGATTAAAAGCTTCATCTTCTTTCAGATAGCTTTTTACGGCATCGGCTCGCGCTGCCATTCCCGGATCGTTTTTCAGCTTGTCGATCAGGGCGAAGGTGGCGCGATCAAACGCATGGCGGATCTGATGCGCACGATCGCGACTAATAT < SRR3722119.76725/150‑1 (MQ=60)
GGCTCGCGCTGCCATTCCCGGATCGTTTTTCAGCTTGTCGATCAGGGCGAAGGTGGCGCGATCAAACGCATGGCGGATCTGATGCGCACGATCGCGACTAATATCATCAAGCAAAGAATTCACCGCGTCAGAAACCAACTCCGCGCTATGT < SRR3722119.389776/151‑1 (MQ=60)
|
TTCTTTCACACGAGAATCTTCACTGTTGATATCCACTTTCAGCCATTCCCGTAAATCCCCCCACAATTCACTGAGATAGCGATTAAAAGCTTCATCTTCTTTCAGATAGCTTTTTACGGCATCGGCTCGCGCTGCCATTTCCGGATCGTTTTTCAGCTTGTCGATCAGGGCGAAGGTGGCGCGATCAAACGCATGGCGGATCTGATGCGCACGATCGCGACTAATATCATCAAGCAAAGAATTCACCGCGTCAGAAACCAACTCCGCGCTATGT > NZ_CP009273/4556095‑4556368
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
