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 I231 R1
|
218 |
12.8 |
703680 |
97.2% |
683976 |
86.9 |
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%
| 92.3
/ NA
| 24 | D26V (GAT→GTT) | BW25113_RS20185 | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base T (14/10); total (14/10) |
GATATTTATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGATCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACCTGATAAATCAATCGCAAAC > NZ_CP009273/4073080‑4073244
|
gaTATTTATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGa > 2:246184/1‑90 (MQ=255)
ttATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGc < 1:246184/90‑1 (MQ=255)
ttATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGc < 2:215194/90‑1 (MQ=255)
ttATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGc < 2:16150/90‑1 (MQ=255)
gAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCg > 2:270737/1‑90 (MQ=255)
aCTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTa > 2:261536/1‑90 (MQ=255)
ctctGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATc > 1:42430/1‑90 (MQ=255)
ctctGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATc > 2:17796/1‑90 (MQ=255)
tataGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGc < 1:104049/90‑1 (MQ=255)
aGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGa < 2:7698/90‑1 (MQ=255)
tGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGAc < 1:134923/86‑1 (MQ=255)
tGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGAc > 2:134923/1‑86 (MQ=255)
gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAtt > 2:222819/1‑90 (MQ=255)
gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAtt > 1:308313/1‑90 (MQ=255)
gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAtt > 1:168640/1‑90 (MQ=255)
gggCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTAtt > 2:279019/1‑90 (MQ=255)
gaactttACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAggg > 2:292778/5‑90 (MQ=255)
aCTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGt < 2:42430/90‑1 (MQ=255)
cTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTa < 1:160713/90‑1 (MQ=255)
cTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTa < 1:141825/90‑1 (MQ=255)
aTTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATc > 2:18613/1‑90 (MQ=255)
ttAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCgg < 1:45705/48‑1 (MQ=255)
ttAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCgg > 2:45705/1‑48 (MQ=255)
aCTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACCTGATAAATCAATCGCAAAc > 2:209337/1‑90 (MQ=255)
|
GATATTTATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGATCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACCTGATAAATCAATCGCAAAC > NZ_CP009273/4073080‑4073244
|
| 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
AAAATGATATTGGCGAGATATTTATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGATCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACCTGATAAATCAATCGCAAACAGCAAGAACCAGTGTTC > NZ_CP009273/4073064‑4073261
|
ggcagcgtcagatgtgtataagagacagCTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGT < SRR3722116.34548/72‑1 (MQ=60)
ATTGGCGAGATATTTATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGG < SRR3722116.89458/100‑1 (MQ=60)
TTTATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATC > SRR3722116.42932/1‑100 (MQ=60)
TTATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCT < SRR3722116.249623/100‑1 (MQ=60)
GTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATT > SRR3722116.170623/1‑100 (MQ=60)
GTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATT > SRR3722116.312867/1‑100 (MQ=60)
TATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTA < SRR3722116.105324/100‑1 (MQ=60)
cgtcggcagcgtcagatgtgtataagagacaGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAG < SRR3722116.46253/69‑1 (MQ=60)
GATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGG < SRR3722116.136498/100‑1 (MQ=60)
CTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACC < SRR3722116.143469/100‑1 (MQ=60)
CTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACC < SRR3722116.162542/100‑1 (MQ=60)
ATGTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACCTGATAAATCAATCGCAAACAGCAAGAACCAGTGT > SRR3722116.337054/1‑100 (MQ=60)
GTTCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACCTGATAAATCAATCGCAAACAGCAAGAACCAGTGTTC < SRR3722116.6502/100‑1 (MQ=60)
|
AAAATGATATTGGCGAGATATTTATGAACTCTCTGGCAGGTATAGATATGGGCAGAATTTTACTCGATTTATCGAATGAGGTGATTAAGCAACTTGATGATCTCGAGGTGCAGCGTAATCTTCCTCGTGCGGACCTATTAAGGGAAGCGGTAGATCAATACCTGATAAATCAATCGCAAACAGCAAGAACCAGTGTTC > NZ_CP009273/4073064‑4073261
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
