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 I209 R1
|
216 |
14.4 |
815930 |
96.1% |
784108 |
85.2 |
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%
| 62.7
/ NA
| 17 | D26V (GAT→GTT) | BW25113_RS20185 | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base T (13/4); total (13/4) |
ACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGATCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACCTGATAAATCAATCGCAAAC > NZ_CP009273/4073091‑4073244
|
aCTCTCTGGCAGGTATAGATATGGGCAGAATTCTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTa > 2:198074/1‑90 (MQ=255)
tctctGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAAt > 1:405052/1‑90 (MQ=255)
tctctGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAAt > 1:63433/1‑90 (MQ=255)
gTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTg < 1:51161/90‑1 (MQ=255)
tataGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGc > 2:138633/1‑90 (MQ=255)
tGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAt > 1:278448/1‑90 (MQ=255)
tGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAt > 1:385982/1‑90 (MQ=255)
gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGTGGACCTAtt > 1:196954/1‑90 (MQ=255)
gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGa < 1:251605/84‑1 (MQ=255)
gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGa > 2:251605/1‑84 (MQ=255)
gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAtt > 2:98083/1‑90 (MQ=255)
gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAtt > 2:206722/1‑90 (MQ=255)
gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAtt > 1:398955/1‑90 (MQ=255)
aCTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGt < 1:206722/90‑1 (MQ=255)
cTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGTGGACCTATTAAGGGAAGCGGTa < 2:196954/90‑1 (MQ=255)
cGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGa > 2:144885/1‑90 (MQ=255)
aCTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACCTGATAAATCAATCGCAAAc > 1:66929/1‑90 (MQ=255)
|
ACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGATCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACCTGATAAATCAATCGCAAAC > NZ_CP009273/4073091‑4073244
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
AAAATGATATTGGCGAGATATTTATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGATCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACCTGATAAATCAATCGCAAAC > NZ_CP009273/4073064‑4073244
|
acggcgaccaccgagatctacactaagatggtcgtcggcagcgtcagatgtgtataagagacagCGATTTATCGAATGAGGTGATTAAGCAACTTGATGT < SRR3722091.138005/36‑1 (MQ=60)
ATTTATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAAT > SRR3722091.412161/1‑100 (MQ=60)
ATTTATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAAT > SRR3722091.64390/1‑100 (MQ=60)
GGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAT > SRR3722091.283058/1‑100 (MQ=60)
GGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAT > SRR3722091.392796/1‑100 (MQ=60)
GTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGTGGACCTATT > SRR3722091.199920/1‑100 (MQ=60)
GTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATT > SRR3722091.405968/1‑100 (MQ=60)
GTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATT < SRR3722091.51911/100‑1 (MQ=60)
tctacactaagatggtcgtcggcagcgtcagatgtgtataagagacagACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGG < SRR3722091.219564/52‑1 (MQ=60)
AGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGG < SRR3722091.255606/100‑1 (MQ=60)
ACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATAC < SRR3722091.209879/100‑1 (MQ=60)
TGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACCTGATAAATCAATCGCAAAC > SRR3722091.67938/1‑100 (MQ=60)
|
AAAATGATATTGGCGAGATATTTATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGATCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACCTGATAAATCAATCGCAAAC > NZ_CP009273/4073064‑4073244
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
