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 |
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%
| 49.5
/ NA
| 16 | V241V (GTT→GTC) | BW25113_RS13685 | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (8/8); total (8/8) |
CAAACTCTGACATTTGAATAAAATCCCATAGCGGTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGAACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTACACTTCCGC > NZ_CP009273/2751152‑2751293
|
cAAACTCTGACATTTGAATAAAATCCCATAGCGGTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACag < 2:149947/90‑1 (MQ=255)
cAAACTCTGACATTTGAATAAAATCCCATAGCGGTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACag < 2:281881/90‑1 (MQ=255)
cATTTGAATAAAATCCCATAGCGGTTCGGTAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCattaat < 1:126207/90‑1 (MQ=255)
tGAATAAAATCCCATAGCGGTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGc > 1:134779/1‑90 (MQ=255)
aaaTCCCATAGCGGTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTcaacc > 1:128871/1‑90 (MQ=255)
ggTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGa > 2:68990/1‑90 (MQ=255)
ttCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAAt < 1:209518/90‑1 (MQ=255)
ttCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAAt < 2:236345/90‑1 (MQ=255)
gTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGt < 2:128871/90‑1 (MQ=255)
ttCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTa > 1:329380/1‑90 (MQ=255)
ttAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTACACt > 2:271321/1‑90 (MQ=255)
tGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAAt > 1:163172/1‑72 (MQ=255)
tGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAAt < 2:163172/72‑1 (MQ=255)
tGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTACACTTCCgc > 2:229162/1‑90 (MQ=255)
tCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTg < 1:152772/52‑1 (MQ=255)
tCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTg > 2:152772/1‑52 (MQ=255)
|
CAAACTCTGACATTTGAATAAAATCCCATAGCGGTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGAACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTACACTTCCGC > NZ_CP009273/2751152‑2751293
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GATTATTTATCTCAAACTCTGACATTTGAATAAAATCCCATAGCGGTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGAACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTACACTTCCGCTTTGCTTTTGCCACCCTTCTTTCCTGCACTCCGCCTG > NZ_CP009273/2751140‑2751330
|
GATTATTTATCTCAAACTCTGACATTTGAATAAAATCCCATAGCGGTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGAC < SRR3722091.331506/100‑1 (MQ=60)
CTCTGACATTTGAATAAAATCCCATAGCGGTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGC > SRR3722091.136803/1‑100 (MQ=60)
CATTTGAATAAAATCCCATAGCGGTTCGGTAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACC < SRR3722091.128113/100‑1 (MQ=60)
CATTTGAATAAAATCCCATAGCGGTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACC > SRR3722091.130812/1‑100 (MQ=60)
ggcagcgtcagatgtgtataagagacagACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGG < SRR3722091.155017/72‑1 (MQ=60)
GTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTA > SRR3722091.335087/1‑100 (MQ=60)
TTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTAC < SRR3722091.212728/100‑1 (MQ=60)
GTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTACctgtctct > SRR3722091.165544/1‑92 (MQ=60)
CATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTACACTTCCGCTTTGCTTTTGCCACCCTTCTTTCCTGCACTCCG > SRR3722091.93467/1‑100 (MQ=60)
GATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTACACTTCCGCTTTGCTTTTGCCACCCTTCTTTCCTGCACTCCGCCT > SRR3722091.300903/1‑100 (MQ=60)
ATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTACACTTCCGCTTTGCTTTTGCCACCCTTCTTTCCTGCACTCCGCCTG > SRR3722091.124534/1‑100 (MQ=60)
|
GATTATTTATCTCAAACTCTGACATTTGAATAAAATCCCATAGCGGTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGAACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTACACTTCCGCTTTGCTTTTGCCACCCTTCTTTCCTGCACTCCGCCTG > NZ_CP009273/2751140‑2751330
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
