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 I199 R1
|
220 |
57.5 |
3163680 |
97.0% |
3068769 |
86.1 |
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%
| 101.2
/ NA
| 32 | N430D (AAT→GAT) | pepN | aminopeptidase N |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (15/17); total (15/17) |
GGATGCAGCTTTATTTCGAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGAATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGAAAC > NZ_CP009273/987285‑987450
|
ggATGCAGCTTTATTTCGAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGAtc < 2:1451357/90‑1 (MQ=255)
tttATTTCGAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCAtt > 1:713085/1‑90 (MQ=255)
tttCGAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTccg < 1:283280/90‑1 (MQ=255)
gAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGt > 2:358325/1‑90 (MQ=255)
tCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTa > 2:1237266/1‑90 (MQ=255)
tgatgGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAg < 1:220415/90‑1 (MQ=255)
ggTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAg < 2:970915/90‑1 (MQ=255)
ggTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAg > 2:339451/1‑90 (MQ=255)
ggTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAg < 1:358325/90‑1 (MQ=255)
gTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGt > 2:965933/1‑90 (MQ=255)
aGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTcc > 2:944541/1‑90 (MQ=255)
gCAGCGCCCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGt < 2:1147742/90‑1 (MQ=255)
aGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTac < 1:1149316/90‑1 (MQ=255)
gCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTc < 2:119966/83‑1 (MQ=255)
gCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTc > 1:119966/1‑83 (MQ=255)
gCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTaca > 1:634661/1‑90 (MQ=255)
gCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTaca > 1:528847/1‑90 (MQ=255)
cGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTacac < 2:1279597/90‑1 (MQ=255)
gACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACAcc > 1:646597/1‑90 (MQ=255)
cgacTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGAc < 2:229399/90‑1 (MQ=255)
tgtgCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCaa > 1:51314/1‑90 (MQ=255)
tgtgCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCaa < 1:1434613/90‑1 (MQ=255)
tgtgCAGGCGATGGAAGATGCGTCGGATGTCGACCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCaa < 2:1562983/90‑1 (MQ=255)
ggCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGt > 2:1540072/1‑64 (MQ=255)
ggCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGt < 1:1540072/64‑1 (MQ=255)
tGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACa < 1:346742/90‑1 (MQ=255)
gATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCg < 2:1392677/90‑1 (MQ=255)
gATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCg < 2:416423/90‑1 (MQ=255)
gATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCg > 2:606403/1‑90 (MQ=255)
cGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGaaa > 2:831837/1‑90 (MQ=255)
cGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGaaa > 1:82632/1‑90 (MQ=255)
gTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGAAAc < 1:170557/90‑1 (MQ=255)
|
GGATGCAGCTTTATTTCGAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGAATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGAAAC > NZ_CP009273/987285‑987450
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 31 ≤ 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
GAAAACTTCCAGAAAGGGATGCAGCTTTATTTCGAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGAATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGAAACCGAGCAGTACACCC > NZ_CP009273/987269‑987464
|
GAAAACTTCCAGAAAGGGATGCAGCTTTATTTCGAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATG < SRR3722078.392875/100‑1 (MQ=60)
GGGATGCAGCTTTATTTCGAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATT > SRR3722078.721830/1‑100 (MQ=60)
TTTCGAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTAC < SRR3722078.286741/100‑1 (MQ=60)
TGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGT < SRR3722078.223085/100‑1 (MQ=60)
TGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACA > SRR3722078.121371/1‑100 (MQ=60)
TGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACA > SRR3722078.641954/1‑100 (MQ=60)
TGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACA > SRR3722078.535096/1‑100 (MQ=60)
GGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACAC < SRR3722078.362693/100‑1 (MQ=60)
GTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACC > SRR3722078.654032/1‑100 (MQ=60)
tgtgtataagagacaGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTG < SRR3722078.1565178/85‑1 (MQ=60)
AGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTG < SRR3722078.1167033/100‑1 (MQ=60)
GTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAA > SRR3722078.51915/1‑100 (MQ=60)
TGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTAC < SRR3722078.1457956/100‑1 (MQ=60)
ATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGAAA > SRR3722078.83598/1‑100 (MQ=60)
TGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGAAAC < SRR3722078.350988/100‑1 (MQ=60)
CGTTGAATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGAAACCGAGCAGTA > SRR3722078.803053/1‑100 (MQ=60)
GTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGAAACCGAGCAGTAC < SRR3722078.172546/100‑1 (MQ=60)
GATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGAAACCGAGCAGTACACCC < SRR3722078.1021505/100‑1 (MQ=60)
GATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGAAACCGAGCAGTACACCC < SRR3722078.86432/100‑1 (MQ=60)
|
GAAAACTTCCAGAAAGGGATGCAGCTTTATTTCGAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGAATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGAAACCGAGCAGTACACCC > NZ_CP009273/987269‑987464
|
| 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: ‑ |
