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 I230 R1
|
226 |
18.8 |
1048726 |
96.7% |
1014118 |
86.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
4,073,163 |
A→T |
D26V (GAT→GTT) |
BW25113_RS20185 → |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 4,073,163 | 0 | A | T | 100.0%
| 83.3
/ NA
| 24 | D26V (GAT→GTT) | BW25113_RS20185 | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base T (15/9); total (15/9) |
GAGATATTTATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGATCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACCTGATAAATCAATCGCAAA > NZ_CP009273/4073078‑4073243
|
gagaTATTTATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTtctc > 2:101707/1‑90 (MQ=255)
gaTATTTATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGa < 2:90062/90‑1 (MQ=255)
gaTATTTATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGa < 2:399503/90‑1 (MQ=255)
ttATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGc < 2:290809/90‑1 (MQ=255)
ctctGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATc > 2:333986/1‑90 (MQ=255)
ctctGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGGGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATc > 2:312972/1‑90 (MQ=255)
tataGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGc > 2:300171/1‑90 (MQ=255)
taGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCgt < 2:65110/90‑2 (MQ=255)
atatGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGAcc < 2:369742/90‑1 (MQ=255)
tGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAt > 1:489166/1‑90 (MQ=255)
tGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAt > 2:408016/1‑90 (MQ=255)
tGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAt > 2:298742/1‑90 (MQ=255)
gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAtt > 1:394213/1‑90 (MQ=255)
gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAtt > 2:443095/1‑90 (MQ=255)
gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAtt > 2:322807/1‑90 (MQ=255)
gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAtt > 2:117731/1‑90 (MQ=255)
gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAtt > 1:483839/1‑90 (MQ=255)
gAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGAcc < 2:256234/81‑1 (MQ=255)
gAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGAcc > 1:256234/1‑81 (MQ=255)
cTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTa < 2:332620/90‑1 (MQ=255)
cTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTa < 2:456267/90‑1 (MQ=255)
tCGTATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATAc < 2:179018/90‑1 (MQ=255)
aGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACCTGATaa > 2:190120/1‑90 (MQ=255)
aaCTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACCTGATAAATCAATCGCaaa > 2:307254/1‑90 (MQ=255)
|
GAGATATTTATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGATCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACCTGATAAATCAATCGCAAA > NZ_CP009273/4073078‑4073243
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 26 ≤ 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
AAAATGATATTGGCGAGATATTTATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGATCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACCTGATAAATCAATCGCAAACAGCAA > NZ_CP009273/4073064‑4073249
|
AAAATGATATTGGCGAGATATTTATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGT < SRR3722114.84455/100‑1 (MQ=60)
GGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAT > SRR3722114.495287/1‑100 (MQ=60)
GTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATT > SRR3722114.398990/1‑100 (MQ=60)
GTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATT > SRR3722114.489903/1‑100 (MQ=60)
GATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGG > SRR3722114.258793/1‑100 (MQ=60)
cgtgggctcggagatgtgtataagagacagCTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACC < SRR3722114.52540/70‑1 (MQ=60)
AAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACCTGATAAATCAATCGCAAACAGCAA > SRR3722114.139062/1‑100 (MQ=60)
|
AAAATGATATTGGCGAGATATTTATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGATCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACCTGATAAATCAATCGCAAACAGCAA > NZ_CP009273/4073064‑4073249
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ 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: ‑ |
