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 F1 I188 R2
|
3 |
28.7 |
1681193 |
95.1% |
1598814 |
84.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
859,587 |
G→A |
A164T (GCA→ACA) |
fsa → |
fructose‑6‑phosphate aldolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 859,587 | 0 | G | A | 100.0%
| 122.3
/ NA
| 31 | A164T (GCA→ACA) | fsa | fructose‑6‑phosphate aldolase |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (10/21); total (10/21) |
ATGCTCAGGGCGGTAGCGGCATTCAGACTGTGACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGGCAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAATTACTCTGCCACTGGATGTGGCACA > NZ_CP009273/859504‑859672
|
aTGCTCAGGGCGGTAGCGGCATTCAGACTGTGACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGa < 1:63776/90‑1 (MQ=255)
tCAGGGCGGTAGCGGCATTCAGACTGTGACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGttt > 1:202759/1‑90 (MQ=255)
tCAGGGCGGTAGCGGCATTCAGACTGTGACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGttt > 1:717871/1‑90 (MQ=255)
gTAGCGGCATTCAGACTGTGACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAAccc > 2:291772/1‑90 (MQ=255)
ggCATTCAGACTGTGACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGt > 2:654070/1‑90 (MQ=255)
cATTCAGACTGTGACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCa < 1:19822/90‑1 (MQ=255)
aGACTGTGACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGgcgc < 1:686770/90‑1 (MQ=255)
tgtgACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGt < 2:180799/64‑1 (MQ=255)
tgtgACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGt > 1:180799/1‑64 (MQ=255)
gACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTg > 1:350367/1‑90 (MQ=255)
cacCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCa < 2:643584/90‑1 (MQ=255)
gTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGAtg > 1:78639/1‑90 (MQ=255)
gTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGAtg > 2:50279/1‑90 (MQ=255)
gTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGAtg < 1:291772/90‑1 (MQ=255)
tATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGAtgtg < 1:825940/90‑1 (MQ=255)
tATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGAtgtg < 2:56885/90‑1 (MQ=255)
ttGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGaa > 2:170640/1‑90 (MQ=255)
ttGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGaa < 1:50279/90‑1 (MQ=255)
atgcatgcGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAAtt > 1:523154/1‑90 (MQ=255)
atgcGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAATTActc < 2:626713/90‑1 (MQ=255)
atgcGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAATTActc < 2:548862/90‑1 (MQ=255)
gcgcCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAATTACTCTg < 1:368315/90‑1 (MQ=255)
cAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAATTACTCTGCTACTg < 1:326771/90‑1 (MQ=255)
cAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAATTACTCTGCCACTg < 1:750219/90‑1 (MQ=255)
cAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAATTACTCTGCCACTg < 1:655363/90‑1 (MQ=255)
gCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAATTACTCTGCCACTGGAt < 2:406344/90‑1 (MQ=255)
gCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAATTACTCTGCCACTGGAt < 2:202578/90‑1 (MQ=255)
gAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAATTACTCTGCCACTGGAtgt < 2:350367/90‑1 (MQ=255)
aGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAATTACTCTGCCACTGGATGTGGc < 2:717872/90‑1 (MQ=255)
tGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAATTACTCTGCCACTGGATGTGGcac < 1:654069/90‑1 (MQ=255)
gCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAATTACTCTGCCACTGGATGTGGcaca < 2:672274/90‑1 (MQ=255)
|
ATGCTCAGGGCGGTAGCGGCATTCAGACTGTGACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGGCAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAATTACTCTGCCACTGGATGTGGCACA > NZ_CP009273/859504‑859672
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GTATTGATGCTCAGGGCGGTAGCGGCATTCAGACTGTGACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGGCAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAATTACTCTGCCACTGGATGTGGCACAACAGATGATTAGC > NZ_CP009273/859498‑859685
|
GTATTGATGCTCAGGGCGGTAGCGGCATTCAGACTGTGACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTT > SRR3722064.206364/1‑100 (MQ=60)
GTATTGATGCTCAGGGCGGTAGCGGCATTCAGACTGTGACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTT > SRR3722064.732418/1‑100 (MQ=60)
ATGCTCAGGGCGGTAGCGGCATTCAGACTGTGACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAAC < SRR3722064.64890/100‑1 (MQ=60)
GCATTCAGACTGTGACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCtgtctcttatacaca > SRR3722064.184033/1‑85 (MQ=60)
CATTCAGACTGTGACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGAC < SRR3722064.20172/100‑1 (MQ=60)
TTCAGACTGTGACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTG > SRR3722064.356185/1‑100 (MQ=60)
AGACTGTGACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTT < SRR3722064.700670/100‑1 (MQ=60)
ACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATG > SRR3722064.80038/1‑100 (MQ=60)
GTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAATT < SRR3722064.296739/100‑1 (MQ=60)
GTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAATT > SRR3722064.533052/1‑100 (MQ=60)
TATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAATTAC < SRR3722064.842850/100‑1 (MQ=60)
TTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAATTACTC < SRR3722064.51176/100‑1 (MQ=60)
GCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAATTACTCTGCCACTGGATG < SRR3722064.374603/100‑1 (MQ=60)
CAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAATTACTCTGCTACTGGATGTGGCAC < SRR3722064.332228/100‑1 (MQ=60)
CAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAATTACTCTGCCACTGGATGTGGCAC < SRR3722064.668554/100‑1 (MQ=60)
CAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAATTACTCTGCCACTGGATGTGGCAC < SRR3722064.765519/100‑1 (MQ=60)
TGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAATTACTCTGCCACTGGATGTGGCACAACAGATGAT < SRR3722064.667231/100‑1 (MQ=60)
GACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAATTACTCTGCCACTGGATGTGGCACAACAGATGATTAGC < SRR3722064.605333/100‑1 (MQ=60)
|
GTATTGATGCTCAGGGCGGTAGCGGCATTCAGACTGTGACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGGCAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAATTACTCTGCCACTGGATGTGGCACAACAGATGATTAGC > NZ_CP009273/859498‑859685
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
