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 |
1,276,251 |
Δ1 bp |
coding (932/3744 nt) |
narG → |
nitrate reductase subunit alpha |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 1,276,249 | 0 | G | . | 100.0%
| 80.8
/ NA
| 20 | coding (930/3744 nt) | narG | nitrate reductase subunit alpha |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base . (10/10); total (10/10) |
CACACCAGACTACGCTGAAATCGCCAAACTGTGCGATCTGTGGCTGGCACCGAAACAGGGCACCGATGCGGCAATGGCGCTGGCGATGGGCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGCCAGTATTTCACCGACTATGTGCGTCGCTACACCGAC > NZ_CP009273/1276162‑1276327
|
cacaCCAGACTACGCTGAAATCGCCAAACTGTGCGATCTGTGGCTGGCACCGAAACAGGGCACCGATGCGGCAATGGCGCTGGCGATggc < 2:834901/90‑2 (MQ=255)
cacaCCAGACTACGCTGAAATCGCCAAACTGTGCGATCTGTGGCTGGCACCGAAACAGGGCACCGATGCGGCAATGGCGCTGGCGATggc < 1:400946/90‑2 (MQ=255)
cacaCCAGACTACGCTGAAATCGCCAAACTGTGCGATCTGTGGCTGGCACCGAAACAGGGCACCGATGCGGCAATGGCGCTGGCGATggc < 1:970030/90‑2 (MQ=255)
gACTACGCTGAAATCGCCAAACTGTGCGATCTGTGGCTGGCACCGAAACAGGGCACCGATGCGGCAATGGCGCTGGCGAT‑GGCCACGTaa > 2:1345479/1‑90 (MQ=255)
aCGCTGAAATCGCCAAACTGTGCGATCTGTGGCTGGCACCGAAACAGGGCACCGATGCGGCAATGGCGCTGGCGAT‑GGCCACGTAAtgct < 1:1345479/90‑1 (MQ=255)
cTGAAATCGCCAAACTGTGCGATCTGTGGCTGGCACCGAAACAGGGCACCGATGCGGCAATGGCGCTGGCGAT‑GGCCACGTAATGCTGCg > 1:993800/1‑90 (MQ=255)
cGCCAAACTGTGCGATCTGTGGCTGGCACCGAAACAGGGCACCGATGCGGCAATGGCGCTGGCGAT‑GGCCACGTAATGCTGCGTGAATTc > 2:1244029/1‑90 (MQ=255)
ccAAACTGTGCGATCTGTGGCTGGCACCGAAACAGGGCACCGATGCGGCAATGGCGCTGGCGAT‑GGCCACGTAATGCTGCGTGAATTCCa < 2:1081606/90‑1 (MQ=255)
tgtgCGATCTGTGGCTGGCACCGAAACAGGGCACCGATGCGGCAATGGCGCTGGCGAT‑GGCCACGTAATGCTGCGTGAATTCCACCTCGa < 2:759765/90‑1 (MQ=255)
gtgCGATCTGTGGCTGGCACCGAAACAGGGCACCGATGCGGCAATGGCGCTGGCGATggc < 1:631181/60‑2 (MQ=255)
gtgCGATCTGTGGCTGGCACCGAAACAGGGCACCGATGCGGCAATGGCGCTGGCGATggc > 2:631181/1‑59 (MQ=255)
gtgCGATCTGTGGCTGGCACCGAAACAGGGCACCGATGCGGCAATGGCGCTGGCGAT‑GGCCACGTAATGCTGCGTGAATTCCACCTCGAc > 2:1219698/1‑90 (MQ=255)
tgtgGCTGGCACCGAAACAGGGCACCGATGCGGCAATGGCGCTGGCGAT‑GGCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAg > 1:516315/1‑90 (MQ=255)
tgtgGCTGGCACCGAAACAGGGCACCGATGCGGCAATGGCGCTGGCGAT‑GGCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAg > 1:590232/1‑90 (MQ=255)
tggctggcACCGAAACAGGGCACCGATGCGGCAATGGCGCTGGCGAT‑GGCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGcc < 1:1219698/90‑1 (MQ=255)
tggctggcACCGAAACAGGGCACCGATGCGGCAATGGCGCTGGCGAT‑GGCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGcc > 2:579971/1‑90 (MQ=255)
tggctggcACCGAAACAGGGCACCGATGCGGCAATGGCGCTGGCGAT‑GGCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGcc < 1:558171/90‑1 (MQ=255)
tggcACCGAAACAGGGCACCGATGCGGCAATGGCGCTGGCGAT‑GGCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGCCAGTa < 1:887651/90‑1 (MQ=255)
ggcACCGAAACAGGGCACCGATGCGGCAATGGCGCTGGCGAT‑GGCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGCCAGTAt > 1:9882/1‑90 (MQ=255)
aCCGAAACAGGGCACCGATGCGGCAATGGCGCTGGCGAT‑GGCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGCCAGTATTTc < 2:1533077/90‑1 (MQ=255)
cGAAACAGGGCACCGATGCGGCAATGGCGCTGGCGAT‑GGCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGCCAGTATTTCAc < 1:103535/90‑1 (MQ=255)
gAAACAGGGCACCGATGCGGCAATGGCGCTGGCGAT‑GGCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGCCAGTATTTCAcc > 2:188262/1‑90 (MQ=255)
ggCGCTGGCGAT‑GGCCACGTAATGCTGCGTGAATTCCCCCTCGACAACCCAAGCCAGTATTTCACCGACTATGTGCGTCGCTACACCGAc < 2:1371053/90‑1 (MQ=255)
gcTGGCGAT‑GGCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGCCAGTATTTCACCGACTATGTGCGTCGCTac > 1:91894/1‑81 (MQ=255)
gcTGGCGAT‑GGCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGCCAGTATTTCACCGACTATGTGCGTCGCTac < 2:91894/81‑1 (MQ=255)
|
CACACCAGACTACGCTGAAATCGCCAAACTGTGCGATCTGTGGCTGGCACCGAAACAGGGCACCGATGCGGCAATGGCGCTGGCGATGGGCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGCCAGTATTTCACCGACTATGTGCGTCGCTACACCGAC > NZ_CP009273/1276162‑1276327
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ 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
CCGTCACACCAGACTACGCTGAAATCGCCAAACTGTGCGATCTGTGGCTGGCACCGAAACAGGGCACCGATGCGGCAATGGCGCTGGCGATGGGCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGCCAGTATTTCACCGACTATGTGCGTCGCTACACCGACATGCCGATGCTGGTGATGCTGGA > NZ_CP009273/1276158‑1276350
|
CCGTCACACCAGACTACGCTGAAATCGCCAAACTGTGCGATCTGTGGCTGGCACCGAAACAGGGCACCGATGCGGCAATGGCGCTGGCGAT‑GGCCACGTA < SRR3722078.1289353/100‑1 (MQ=60)
cagatgtgtataagagacagTCGCCAAACTGTGCGATCTGTGGCTGGCACCGAAACAGGGCACCGATGCGGCAATGGCGCTGGCGAT‑GGCCACGTAATGC < SRR3722078.638443/80‑1 (MQ=60)
CACACCAGACTACGCTGAAATCGCCAAACTGTGCGATCTGTGGCTGGCACCGAAACAGGGCACCGATGCGGCAATGGCGCTGGCGAT‑GGCCACGTAATGC < SRR3722078.405810/100‑1 (MQ=60)
CACACCAGACTACGCTGAAATCGCCAAACTGTGCGATCTGTGGCTGGCACCGAAACAGGGCACCGATGCGGCAATGGCGCTGGCGAT‑GGCCACGTAATGC < SRR3722078.983893/100‑1 (MQ=60)
CCAGACTACGCTGAAATCGCCAAACTGTGCGATCTGTGGCTGGCACCGAAACAGGGCACCGATGCGGCAATGGCGCTGGCGAT‑GGCCACGTAATGCTGCG > SRR3722078.1008251/1‑100 (MQ=60)
ACGCTGAAATCGCCAAACTGTGCGATCTGTGGCTGGCACCGAAACAGGGCACCGATGCGGCAATGGCGCTGGCGAT‑GGCCACGTAATGCTGCGTGAATTC < SRR3722078.1367074/100‑1 (MQ=60)
CTGTGCGATCTGTGGCTGGCACCGAAACAGGGCACCGATGCGGCAATGGCGCTGGCGAT‑GGCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAG > SRR3722078.522424/1‑100 (MQ=60)
CTGTGCGATCTGTGGCTGGCACCGAAACAGGGCACCGATGCGGCAATGGCGCTGGCGAT‑GGCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAG > SRR3722078.597092/1‑100 (MQ=60)
ATCTGTGGCTGGCACCGAAACAGGGCACCGATGCGGCAATGGCGCTGGCGAT‑GGCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGCCAGTAT > SRR3722078.9988/1‑100 (MQ=60)
TGGCTGGCACCGAAACAGGGCCCCGATGCGGCAATGGCGCTGGCGAT‑GGCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGCCAGTATTTCAC < SRR3722078.1238895/100‑1 (MQ=60)
TGGCTGGCACCGAAACAGGGCACCGATGCGGCAATGGCGCTGGCGAT‑GGCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGCCAGTATTTCAC < SRR3722078.564745/100‑1 (MQ=60)
TGGCACCGAAACAGGGCACCGATGCGGCAATGGCGCTGGCGAT‑GGCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGCCAGTATTTCACCGAC < SRR3722078.899579/100‑1 (MQ=60)
CGAAACAGGGCACCGATGCGGCAATGGCGCTGGCGAT‑GGCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGCCAGTATTTCACCGACTATGTG < SRR3722078.104765/100‑1 (MQ=60)
CCGATGCGGCAATGGCGCTGGCGAT‑GGCCACGTAATGCTGCGTGAATTCCACCctgtctcttatacacatctgacgctgccgacgatggcggtcgtgtag > SRR3722078.535866/1‑53 (MQ=60)
CGGCAATGGCGCTGGCGAT‑GGCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGCCAGTATTTCACCGACTATGTGCGTCGCTACACCGACATG > SRR3722078.92974/1‑100 (MQ=60)
GCGCTGGCGAT‑GGCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGCCAGTATTTCACCGACTATGTGCGTCGCTACACCGACATGCCGATGCT > SRR3722078.5476/1‑100 (MQ=60)
GCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGCCAGTATTTCACCGACTATGTGCtgtctcttatacacatctgacgctgccgacgatggcg > SRR3722078.1274951/1‑63 (MQ=60)
|
CCGTCACACCAGACTACGCTGAAATCGCCAAACTGTGCGATCTGTGGCTGGCACCGAAACAGGGCACCGATGCGGCAATGGCGCTGGCGATGGGCCACGTAATGCTGCGTGAATTCCACCTCGACAACCCAAGCCAGTATTTCACCGACTATGTGCGTCGCTACACCGACATGCCGATGCTGGTGATGCTGGA > NZ_CP009273/1276158‑1276350
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
