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 I206 R1
|
206 |
23.7 |
1314362 |
96.8% |
1272302 |
86.2 |
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%
| 73.2
/ NA
| 23 | N430D (AAT→GAT) | pepN | aminopeptidase N |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (10/13); total (10/13) |
AGGGATGCAGCTTTATTTCGAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGAATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAG > NZ_CP009273/987283‑987431
|
aGGGATGCAGCTTTATTTCGAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAG‑‑GCGTCGGATGTCGAtc < 2:541526/90‑1 (MQ=255)
aTGCAGCTTTATTTCGAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGAtctc > 2:226968/1‑90 (MQ=255)
gAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGCTCTCTCCCATTTCCGCCGt > 2:646655/1‑90 (MQ=255)
gAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGt < 2:320597/90‑1 (MQ=255)
gAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGt < 2:86124/90‑1 (MQ=255)
gAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGt > 1:252626/1‑90 (MQ=255)
ggTAGTGCAGCGACCTGTGACGACTTTGTGCGGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAg < 2:578764/90‑1 (MQ=255)
ggTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAg < 2:121585/90‑1 (MQ=255)
aGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTcc < 1:388763/90‑1 (MQ=255)
aGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTcc < 1:78722/90‑1 (MQ=255)
gTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAg > 1:564639/1‑86 (MQ=255)
gTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAg < 2:564639/86‑1 (MQ=255)
gCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTaca > 2:174141/1‑90 (MQ=255)
gACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACAcc > 2:334521/1‑90 (MQ=255)
gACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACAcc > 2:509635/1‑90 (MQ=255)
ttGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTacac < 2:503973/75‑1 (MQ=255)
ttGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTacac > 1:503973/1‑75 (MQ=255)
tgtgCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCaa < 2:474483/90‑1 (MQ=255)
tgCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAg < 2:33212/90‑1 (MQ=255)
gATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCaa < 2:28152/74‑1 (MQ=255)
gATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCaa > 1:28152/1‑74 (MQ=255)
cGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTacac > 2:584421/1‑54 (MQ=255)
cGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTacac < 1:584421/54‑1 (MQ=255)
|
AGGGATGCAGCTTTATTTCGAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGAATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAG > NZ_CP009273/987283‑987431
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GCTTTATTTCGAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGAATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACC‑GTCAAAGACGACTACAATCCG > NZ_CP009273/987292‑987445
|
GCTTTATTTCGAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGT > SRR3722088.255089/1‑100 (MQ=60)
CATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCG > SRR3722088.571565/1‑100 (MQ=60)
AGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGA < SRR3722088.392912/100‑1 (MQ=60)
AGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGA < SRR3722088.79520/100‑1 (MQ=60)
ggctcggagatgtgtataagagacaGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGAC < SRR3722088.591590/75‑1 (MQ=60)
TGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCTGTC > SRR3722088.510031/1‑100 (MQ=60)
GGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCtgtctcttatacacatctccgagcccacgagaccgtactagatctcgtatgccgtcttct > SRR3722088.182706/1‑40 (MQ=60)
GGCGATGGAAGATGCGTCGGATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACC‑GTCAAAGACGACTACctgtct > SRR3722088.28448/1‑94 (MQ=60)
|
GCTTTATTTCGAGCGTCATGATGGTAGTGCAGCGACCTGTGACGACTTTGTGCAGGCGATGGAAGATGCGTCGAATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACC‑GTCAAAGACGACTACAATCCG > NZ_CP009273/987292‑987445
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
