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 F5 I102 R1
|
278 |
39.1 |
2251254 |
95.8% |
2156701 |
87.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
871,743 |
A→G |
E318G (GAA→GGA) |
dgcI → |
GGDEF domain‑containing protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 871,743 | 0 | A | G | 100.0%
| 100.2
/ NA
| 28 | E318G (GAA→GGA) | dgcI | GGDEF domain‑containing protein |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (19/9); total (19/9) |
ATGTATAACTCGGCGTTCCTGGACGACCTGACCAAAGCAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGAAAAAGGCGGTTATTTGTGCCTGTTTGACGTCGATAAATTCAAAAACATTAACGACACCTTCGGTCATTTGCTGGGCGATGAAGTGT > NZ_CP009273/871661‑871829
|
atgtatAACTCGGCGTTCCTGGACGACCTGACCAAAGCAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGGAAAAGGCg > 2:362079/1‑91 (MQ=255)
tataACTCGGCGTTCCTGGACGACCTGACCAAAGCAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGGAAAAGGCGGtt > 1:224019/1‑91 (MQ=255)
taACTCGGCGTTCCTGGACGACCTGACCAAAGCAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGGAAAAGGCGGTTAt > 1:586360/1‑91 (MQ=255)
aCTCGGCGTTCCTGGACGACCTGACCAAAGCAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGGAAAAGGCGGTTAttt < 1:274880/91‑1 (MQ=255)
aCTCGGCGTTCCTGGACGACCTGACCAAAGCAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGGAAAAGGCGGTTAttt > 1:717511/1‑91 (MQ=255)
aCTCGGCGTTCCTGGACGACCTGACCAAAGCAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGGAAAAGGCGGTTAttt > 1:627834/1‑91 (MQ=255)
cTCGGCGTTCCTGGACGACCTGACCAAAGCAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGGAAAAGGCGGTTATTtg > 1:1007784/1‑91 (MQ=255)
cTCGGCGTTCCTGGACGACCTGACCAAAGCAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGGAAAAGGCGGTTATTtg > 2:580574/1‑91 (MQ=255)
cGGCGTTCCTGGACGACCTGACCAAAGCAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGGAAAAGGCGGTTATTtgtg > 1:377448/1‑91 (MQ=255)
cGGCGTTCCTGGACGACCTGACCAAAGCAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGGAAAAGGCGGTTATTtgtg > 1:713042/1‑91 (MQ=255)
cGGCGTTCCTGGACGACCTGACCAAAGCAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGGAAAAGGCGGTTATTtgtg > 1:371160/1‑91 (MQ=255)
cGGCGTTCCTGGACGACCTGACCAAAGCAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGGAAAAGGCGGTTATTtgtg > 2:767774/1‑91 (MQ=255)
cGGCGTTCCTGGACGACCTGACCAAAGCAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGGAAAAGGCGGTTATTtgtg > 2:20226/1‑91 (MQ=255)
gCGTTCCTGGACGACCTGACCAAAGCAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGGAAAAGGCGGTTATTTGTGcc > 2:287852/1‑91 (MQ=255)
ttCCTGGACGACCTGACCAAAGCAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGGAAAAGGCGGTTATTTGTGCCTGt > 2:395376/1‑91 (MQ=255)
acCTGACCAAAGCAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGGAAAAGGCGGTTATTTGTGCCTGTTTGACGTCGa > 2:681370/1‑91 (MQ=255)
acCTGACCAAAGCAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGGAAAAGGCGGTTATTTGTGCCTGTTTGACGTCGa > 1:1067372/1‑91 (MQ=255)
cTGACCAAAGCAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGGAAAAGGCGGTTATTTGTGCCTGTTTGACGTCGATa < 2:503824/91‑1 (MQ=255)
tGACCAAAGCAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGGAAAAGGCGGTTATTTGTGCCTGTTTGACGTCGATaa < 1:92332/91‑1 (MQ=255)
cAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGGAAAAGGCGGTTATTTGTGCCTGTTTGACGTCGATAAATTCaaaaa < 1:312483/91‑1 (MQ=255)
ggCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGGAAAAGGCGGTTATTTGTGCCTGTTTGACGTCGATAAATTCAAAAACATTa < 2:422587/91‑1 (MQ=255)
cTTTGACGAAGATTTAAAAGCGCTGCCGGGAAAAGGCGGTTATTTGTGCCTGTTTGACGTCGATAAATTCAAAAACATTAACGACACCTTc < 2:100105/91‑1 (MQ=255)
aaGATTTAAAAGCGCTGCCGGGAAAAGGCGGTTATTTGTGCCTGTTTGACGTCGATAAATTCAAAAACATTAACGACACCTTCGGTCAttt > 2:881486/1‑91 (MQ=255)
cgcTGCCGGGAAAAGGCGGTTATTTGTGCCTGTTTGACGTCGATAAATTCAAAAACATTAACGACACCTTCGGTCATTTGCTGGGCGATGa < 1:654070/91‑1 (MQ=255)
cgcTGCCGGGAAAAGGCGGTTATTTGTGCCTGTTTGACGTCGATAAATTCAAAAACATTAACGACACCTTCGGTCATTTGCTGGGCGATGa > 2:699060/1‑91 (MQ=255)
cTGCCGGGAAAAGGCGGTTATTTGTGCCTGTTTGACGTCGATAAATTCAAAAACATTAACGACACCTTCGGTCATTTGCTGGGCGATGAAg > 2:220631/1‑91 (MQ=255)
cTGCCGGGAAAAGGCGGTTATTTGTGCCTGTTTGACGTCGATAAATTCAAAAACATTAACGACACCTTCGGTCATTTGCTGGGCGATGAAg < 2:742033/91‑1 (MQ=255)
ccGGGAAAAGGCGGTTATTTGTGCCTGTTTGACGTCGATAAATTCAAAAACATTAACGACACCTTCGGTCATTTGCTGGGCGATGAAgtgt < 2:205667/91‑1 (MQ=255)
|
ATGTATAACTCGGCGTTCCTGGACGACCTGACCAAAGCAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGAAAAAGGCGGTTATTTGTGCCTGTTTGACGTCGATAAATTCAAAAACATTAACGACACCTTCGGTCATTTGCTGGGCGATGAAGTGT > NZ_CP009273/871661‑871829
|
| 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
AAAAAACTCTACAGTATGTATAACTCGGCGTTCCTGGACGACCTGACCAAAGCAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGAAAAAGGCGGTTATTTGTGCCTGTTTGACGTCGATAAATTCAAAAACATTAACGACACCTTCGGTCATTTGCTGGGCGATGAAGTGTTGATGAAAG > NZ_CP009273/871646‑871838
|
AAAAAACTCTACAGTATGTATAACTCGGCGTTCCTGGACGACCTGACCAAAGCAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGGAAA < SRR3722125.207142/101‑1 (MQ=60)
NAACTCTACAGTATGTATAACTCGGCGTTCCTGGACGACCTGACCAAAGCAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGGAAAAGG > SRR3722125.657139/1‑101 (MQ=60)
CTACAGTATGTATAACTCGGCGTTCCTGGACGACCTGACCAAAGCAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGGAAAAGGCGGTT > SRR3722125.228461/1‑101 (MQ=60)
ACAGTATGTATAACTCGGCGTTCCTGGACGACCTGACCAAAGCAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGGAAAAGGCGGTTAT > SRR3722125.598953/1‑101 (MQ=60)
AGTATGTATAACTCGGCGTTCCTGGACGACCTGACCAAAGCAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGGAAAAGGCGGTTATTT > SRR3722125.733001/1‑101 (MQ=60)
AGTATGTATAACTCGGCGTTCCTGGACGACCTGACCAAAGCAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGGAAAAGGCGGTTATTT > SRR3722125.641363/1‑101 (MQ=60)
ttttttaaatCTCGGCGTTCCTGGACGACCTGACCAAAGCAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGGAAAAGGCGGTTATTTG < SRR3722125.700373/91‑1 (MQ=60)
GTATGTATAACTCGGCGTTCCTGGACGACCTGACCAAAGCAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGGAAAAGGCGGTTATTTG > SRR3722125.1030318/1‑101 (MQ=60)
ATGTATAACTCGGCGTTCCTGGACGACCTGACCAAAGCAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGGAAAAGGCGGTTATTTGTG > SRR3722125.378935/1‑101 (MQ=60)
ATGTATAACTCGGCGTTCCTGGACGACCTGACCAAAGCAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGGAAAAGGCGGTTATTTGTG > SRR3722125.385359/1‑101 (MQ=60)
ATGTATAACTCGGCGTTCCTGGACGACCTGACCAAAGCAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGGAAAAGGCGGTTATTTGTG > SRR3722125.728417/1‑101 (MQ=60)
ACTCGGCGTTCCTGGACGACCTGACCAAAGCAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGGAAAAGGCGGTTATTTGTGCCTGTTT < SRR3722125.280437/101‑1 (MQ=60)
TTCCTGGACGACCTGACCAAAGCAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGGAAAAGGCGGTTATTTGTGCCTGTTTGACGTCGA > SRR3722125.1091415/1‑101 (MQ=60)
TGACCAAAGCAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGGAAAAGGCGGTTATTTGTGCCTGTTTGACGTCGATAAATTCAAAAAC < SRR3722125.94074/101‑1 (MQ=60)
CAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGGAAAAGGCGGTTATTTGTGCCTGTTTGACGTCGATAAATTCAAAAACATTAACGAC < SRR3722125.318913/101‑1 (MQ=60)
CGCTGCCGGGAAAAGGCGGTTATTTGTGCCTGTTTGACGTCGATAAATTCAAAAACATTAACGACACCTTCGGTCATTTGCTGGGCGATGAAGTGTTGATG < SRR3722125.668170/101‑1 (MQ=60)
GCCGGGAAAAGGCGGTTATTTGTGCCTGTTTGACGTCGATAAATTCAAAAACATTAACGACACCTTCGGTCATTTGCTGGGCGATGAAGTGTTGATGAAAG > SRR3722125.413095/1‑101 (MQ=60)
GCCGGGAAAAGGCGGTTATTTGTGCCTGTTTGACGTCGATAAATTCAAAAACATTAACGACACCTTCGGTCATTTGCTGGGCGATGAAGTGTTGATGAAAG > SRR3722125.785526/1‑101 (MQ=60)
|
AAAAAACTCTACAGTATGTATAACTCGGCGTTCCTGGACGACCTGACCAAAGCAATGGGCAGAAAATCCTTTGACGAAGATTTAAAAGCGCTGCCGGAAAAAGGCGGTTATTTGTGCCTGTTTGACGTCGATAAATTCAAAAACATTAACGACACCTTCGGTCATTTGCTGGGCGATGAAGTGTTGATGAAAG > NZ_CP009273/871646‑871838
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
