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 I228 R1
|
214 |
26.5 |
1448192 |
97.1% |
1406194 |
86.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
987,365 |
A→G |
N430D (AAT→GAT) |
pepN → |
aminopeptidase N |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 987,365 | 0 | A | G | 100.0%
| 65.9
/ NA
| 21 | N430D (AAT→GAT) | pepN | aminopeptidase N |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (10/11); total (10/11) |
AAGGGATGCAGCTTTATTTCGAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGAATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCG > NZ_CP009273/987282‑987445
|
aaGGGATGCAGCTTTATTTCGAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCg < 2:649625/90‑1 (MQ=255)
gATGCAGCTTTATTTCGAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGAtct < 2:586262/90‑1 (MQ=255)
gCTTTATTTCGAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCa > 2:179399/1‑90 (MQ=255)
gAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGt < 1:297150/90‑1 (MQ=255)
gAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGt > 1:340546/1‑90 (MQ=255)
gAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCACTTCCGCCGt > 2:680548/1‑90 (MQ=255)
gTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGt < 1:94600/90‑1 (MQ=255)
atgGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGcc < 2:340546/90‑1 (MQ=255)
ggTAGTGCAGCGACCTGTGACGATTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAg < 1:111245/90‑1 (MQ=255)
tAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTc > 1:329392/1‑90 (MQ=255)
tAGGGCCGCGCCCTGTGCCGTTTTTGGCCGGGGGATGAAAGAGGGGTGGGATGTCGACCCCCCCCATCCCCGCCGTTGGTACAGCCAGTc < 1:497596/90‑1 (MQ=255)
gCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGt > 2:424840/1‑90 (MQ=255)
gACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACAcc > 2:554664/1‑90 (MQ=255)
acgacTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGa < 1:554664/90‑1 (MQ=255)
tgtgCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCaa > 1:664431/1‑90 (MQ=255)
tgtgCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCaa < 1:423577/90‑1 (MQ=255)
aGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAgacg < 2:329392/90‑1 (MQ=255)
ggCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAgacga > 2:562222/1‑90 (MQ=255)
tGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCaa < 2:26286/79‑1 (MQ=255)
tGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCaa > 1:26286/1‑79 (MQ=255)
gATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCg > 2:485795/1‑90 (MQ=255)
|
AAGGGATGCAGCTTTATTTCGAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGAATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCG > NZ_CP009273/987282‑987445
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 11 ≤ ATCG/ATCG < 30 ≤ 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
ACTTCCAGAAAGGGATGCAGCTTTATTTCGAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGAATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGAAACCGAGCAGTACACCC > NZ_CP009273/987273‑987464
|
ttgacattcgtcggcagcgtcagatgtgtataagagacagTGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGA < SRR3722112.184681/60‑1 (MQ=60)
GCTTTATTTCGAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGT > SRR3722112.344746/1‑100 (MQ=60)
GAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCC < SRR3722112.300577/100‑1 (MQ=60)
GTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTC > SRR3722112.333340/1‑100 (MQ=60)
GTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTC < SRR3722112.95780/100‑1 (MQ=60)
GGTAGTGCAGCGACCTGTGACGATTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACAC < SRR3722112.112631/100‑1 (MQ=60)
GTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAA > SRR3722112.674792/1‑100 (MQ=60)
ACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGA < SRR3722112.563072/100‑1 (MQ=60)
TGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTAC < SRR3722112.429226/100‑1 (MQ=60)
GTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACC > SRR3722112.26619/1‑100 (MQ=60)
CGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCAATTGTGACCGTCAAAGACGACTACAATCCGGAAACCGAGCAGTACAC < SRR3722112.196813/100‑1 (MQ=60)
GATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGAAACCGAGCAGTACACCC < SRR3722112.614319/100‑1 (MQ=60)
GATGTCGATCTCTCCCACTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGAAACCGAGCAGTACACCC < SRR3722112.691192/100‑1 (MQ=60)
|
ACTTCCAGAAAGGGATGCAGCTTTATTTCGAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGAATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGAAACCGAGCAGTACACCC > NZ_CP009273/987273‑987464
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
