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 I195 R1
|
222 |
27.1 |
1551108 |
96.0% |
1489063 |
86.0 |
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%
| 50.2
/ NA
| 17 | N430D (AAT→GAT) | pepN | aminopeptidase N |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (7/10); total (7/10) |
GGGATGCAGCTTTATTTCGAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGAATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCG > NZ_CP009273/987284‑987445
|
gggATGCAGCTTTATTTCGAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGAt < 2:457293/90‑1 (MQ=255)
gATGCAGCTTTATTTCGAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGAtct < 2:80533/90‑1 (MQ=255)
gAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGt < 1:754566/90‑1 (MQ=255)
gAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGt > 2:361022/1‑90 (MQ=255)
gAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGt < 2:103093/90‑1 (MQ=255)
tCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTa > 2:324637/1‑90 (MQ=255)
ggTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAg < 2:194434/90‑1 (MQ=255)
ggTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAg < 1:421196/90‑1 (MQ=255)
agcgCAGCGACCTGTGACGACTTTTTGCAGGCGATGGAAGATGGGGCGGATGTCGATCTCCCCCATTTCCGCCGTTGGTACAGCCAGTcc < 1:361022/87‑1 (MQ=255)
aGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTcc > 1:653739/1‑90 (MQ=255)
gCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTaca > 1:720435/1‑90 (MQ=255)
cGACCTGTGCCGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTacac < 1:495264/90‑1 (MQ=255)
gACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACAcc > 1:731539/1‑90 (MQ=255)
gATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTa < 2:469239/90‑1 (MQ=255)
tGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACa > 1:51123/1‑90 (MQ=255)
tGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACa < 2:720435/90‑1 (MQ=255)
gATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCg > 1:718656/1‑90 (MQ=255)
|
GGGATGCAGCTTTATTTCGAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGAATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCG > NZ_CP009273/987284‑987445
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGAATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGAAACCGAGCAGTACACC > NZ_CP009273/987302‑987463
|
GAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCC < SRR3722073.769830/100‑1 (MQ=60)
TCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCC > SRR3722073.667164/1‑100 (MQ=60)
TGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACA > SRR3722073.734990/1‑100 (MQ=60)
GGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACAC < SRR3722073.430210/100‑1 (MQ=60)
GTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACC > SRR3722073.746329/1‑100 (MQ=60)
AGCGCAGCGACCTGTGACGACTTTTTGCAGGCGATGGAAGATGGGGCGGATGTCGATCTCCCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGA < SRR3722073.368669/100‑1 (MQ=60)
CGACCTGTGCCGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGAC < SRR3722073.505743/100‑1 (MQ=60)
GTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACA > SRR3722073.52327/1‑100 (MQ=60)
GGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCG > SRR3722073.733174/1‑100 (MQ=60)
GGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGAAACCGAGCAGTACACC < SRR3722073.101/100‑1 (MQ=60)
|
GAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGAATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGAAACCGAGCAGTACACC > NZ_CP009273/987302‑987463
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
