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 I208 R1
|
222 |
13.1 |
731276 |
96.6% |
706412 |
85.9 |
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%
| 28.0
/ NA
| 9 | N430D (AAT→GAT) | pepN | aminopeptidase N |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (5/4); total (5/4) |
GGATGCAGCTTTATTTCGAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGAATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGAAAC > NZ_CP009273/987285‑987450
|
ggATGCAGCTTTATTTCGAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGAtc < 1:156983/90‑1 (MQ=255)
gAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGt < 2:157931/90‑1 (MQ=255)
gTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCg > 1:171872/1‑90 (MQ=255)
gCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTaca > 2:182744/1‑90 (MQ=255)
gACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACAcc > 2:345740/1‑90 (MQ=255)
tgtgCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCaa < 1:81695/90‑1 (MQ=255)
gATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCg > 2:134735/1‑90 (MQ=255)
tGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGa > 1:347525/1‑90 (MQ=255)
gTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGAAAc < 2:347525/90‑1 (MQ=255)
|
GGATGCAGCTTTATTTCGAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGAATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGAAAC > NZ_CP009273/987285‑987450
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 33 ≤ 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
GGATGCAGCTTTATTTCGAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGAATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGA > NZ_CP009273/987285‑987447
|
GGATGCAGCTTTATTTCGAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTT < SRR3722090.158570/100‑1 (MQ=60)
CATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCG > SRR3722090.173670/1‑100 (MQ=60)
TGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTAC < SRR3722090.82593/100‑1 (MQ=60)
CGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGA > SRR3722090.352046/1‑100 (MQ=60)
|
GGATGCAGCTTTATTTCGAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGAATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGA > NZ_CP009273/987285‑987447
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ 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: ‑ |
