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 |
609,731 |
A→G |
D40G (GAT→GGT) |
entF → |
enterobactin non‑ribosomal peptide synthetase EntF |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 609,731 | 0 | A | G | 100.0%
| 41.3
/ NA
| 14 | D40G (GAT→GGT) | entF | enterobactin non‑ribosomal peptide synthetase EntF |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (4/10); total (4/10) |
CGGCATCTGGATGGCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGATTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATGCGTTTTACGGAAGATAACGGCGA > NZ_CP009273/609648‑609815
|
cGGCATCTGGATGGCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGcc < 1:312274/90‑1 (MQ=255)
cGGCATCTGGATGGCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGcc < 2:418493/90‑1 (MQ=255)
tGGATGGCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTg > 2:508786/1‑90 (MQ=255)
gCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCcgc > 2:27879/1‑90 (MQ=255)
tGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGcc > 1:372657/1‑67 (MQ=255)
tGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGcc < 2:372657/67‑1 (MQ=255)
tGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTg > 1:387639/1‑90 (MQ=255)
aaTTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGTGGTGGTTGCCGGAc < 2:383927/90‑1 (MQ=255)
cGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGc < 2:388951/90‑1 (MQ=255)
gAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATAc < 1:508786/90‑1 (MQ=255)
cATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATg < 1:162878/90‑1 (MQ=255)
cATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATg < 1:265375/90‑1 (MQ=255)
cATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATg < 1:284920/90‑1 (MQ=255)
aCCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATGCGTTTTACGGAAGAt < 1:478403/90‑1 (MQ=255)
ggttggttCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATGCGTTTTACGGAAGATAACGGCGa < 2:174643/90‑1 (MQ=255)
|
CGGCATCTGGATGGCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGATTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATGCGTTTTACGGAAGATAACGGCGA > NZ_CP009273/609648‑609815
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ 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
GCCCGGCATCTGGATGGCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGATTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATGCGTTTTACGGAAGATAACGGCGAAGTCTGGCAG > NZ_CP009273/609645‑609825
|
GCCCGGCATCTGGATGGCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACct > SRR3722114.200706/1‑98 (MQ=60)
CGGCATCTGGATGGCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCC < SRR3722114.315609/100‑1 (MQ=60)
GCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCtgtctcttatac > SRR3722114.377118/1‑88 (MQ=60)
GCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTG > SRR3722114.392330/1‑100 (MQ=60)
GAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATG < SRR3722114.515164/100‑1 (MQ=60)
CATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATGCGTTTTACGG < SRR3722114.164499/100‑1 (MQ=60)
CATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATGCGTTTTACGG < SRR3722114.268087/100‑1 (MQ=60)
CATTACGTTGAGTTAACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATGCGTTTTACGG < SRR3722114.287919/100‑1 (MQ=60)
ACCGGAGAGGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATGCGTTTTACGGAAGATAACGGCGAAG < SRR3722114.484401/100‑1 (MQ=60)
GGTTGGTTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATGCGTTTTACGGAAGATAACGGCGAAGTCTGGCAG > SRR3722114.506931/1‑100 (MQ=60)
|
GCCCGGCATCTGGATGGCAGAAAAACTGTCAGAATTACCCTCCGCCTGGAGCGTGGCGCATTACGTTGAGTTAACCGGAGAGGTTGATTCGCCATTACTGGCCCGCGCGGTGGTTGCCGGACTAGCGCAAGCAGATACGCTGCGGATGCGTTTTACGGAAGATAACGGCGAAGTCTGGCAG > NZ_CP009273/609645‑609825
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
