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 I197 R1
|
189 |
12.7 |
697584 |
97.1% |
677354 |
86.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
2,751,237 |
A→G |
V241V (GTT→GTC) |
BW25113_RS13685 ← |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 2,751,237 | 0 | A | G | 100.0%
| 31.6
/ NA
| 11 | V241V (GTT→GTC) | BW25113_RS13685 | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (5/6); total (5/6) |
CTCAAACTCTGACATTTGAATAAAATCCCATAGCGGTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGAACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTACACTTCCGCTTTGCTTTTGCCACCCTTC > NZ_CP009273/2751150‑2751312
|
ctcAAACTCTGACATTTGAATAAAATCCCATAGCGGTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGAc < 1:214119/90‑1 (MQ=255)
cAAACTCTGACATTTGAATAAAATCCCATAGCGGTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACag < 1:222380/90‑1 (MQ=255)
cAAACTCTGACATTTGAATAAAATCCCATAGCGGTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACag < 1:298809/90‑1 (MQ=255)
aGCGGTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGt < 2:196665/90‑1 (MQ=255)
ggTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGa > 1:62365/1‑90 (MQ=255)
cGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGa < 1:72212/90‑1 (MQ=255)
tGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTACACTTCCgc > 1:143291/1‑90 (MQ=255)
tATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGt < 1:72245/56‑1 (MQ=255)
tATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGt > 2:72245/1‑56 (MQ=255)
tCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTACACTTCCGCTTTGCTTTTGCCACCct > 1:173246/1‑90 (MQ=255)
cACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTACACTTCCGCTTTGCTTTTGCCACCcttc > 1:99268/1‑90 (MQ=255)
|
CTCAAACTCTGACATTTGAATAAAATCCCATAGCGGTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGAACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTACACTTCCGCTTTGCTTTTGCCACCCTTC > NZ_CP009273/2751150‑2751312
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
CTCAAACTCTGACATTTGAATAAAATCCCATAGCGGTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGAACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTACACTTCCGCTTTGCTTTTGCCACCCTTCTTTCCTGCACTCC > NZ_CP009273/2751150‑2751325
|
CTCAAACTCTGACATTTGAATAAAATCCCATAGCGGTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTA < SRR3722076.216968/100‑1 (MQ=60)
CAAACTCTGACATTTGAATAAAATCCCATAGCGGTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAAT < SRR3722076.225408/100‑1 (MQ=60)
CAAACTCTGACATTTGAATAAAATCCCATAGCGGTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAAT < SRR3722076.303290/100‑1 (MQ=60)
ATCCCATAGCGGTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGA > SRR3722076.63138/1‑100 (MQ=60)
gcgtcagatgtgtataagagacagGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATAT < SRR3722076.73144/76‑1 (MQ=60)
CGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTACAC < SRR3722076.73110/100‑1 (MQ=60)
GTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTACACTTCCGC > SRR3722076.144948/1‑100 (MQ=60)
ACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTACACTTCCGCTTTGCTTTTGCCACCCT > SRR3722076.175420/1‑100 (MQ=60)
CTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTACACTTCCGCTTTGCTTTTGCCACCCTTC > SRR3722076.100474/1‑100 (MQ=60)
agagacagATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTACACTTCCGCTTTGCTTTTGCCACCCTTCTTTCCTGCAC < SRR3722076.335173/92‑1 (MQ=60)
CCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTACACTTCCGCTTTGCTTTTGCCACCCTTCTTTCCTGCACTCC > SRR3722076.111421/1‑100 (MQ=60)
|
CTCAAACTCTGACATTTGAATAAAATCCCATAGCGGTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGAACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTACACTTCCGCTTTGCTTTTGCCACCCTTCTTTCCTGCACTCC > NZ_CP009273/2751150‑2751325
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
