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 F5 I100 R1
|
10 |
30.5 |
2136404 |
85.7% |
1830898 |
81.3 |
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%
| 90.0
/ NA
| 24 | A164T (GCA→ACA) | fsa | fructose‑6‑phosphate aldolase |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (13/11); total (13/11) |
TATTGATGCTCAGGGCGGTAGCGGCATTCAGACTGTGACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGGCAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAATTACTCTGCCACTGGATGTGGC > NZ_CP009273/859499‑859669
|
tATTGATGCTCAGGGCGGTAGCGGCATTCAGACTGTGACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACa > 2:801225/1‑91 (MQ=255)
gTAGCGGCATTCAGACTGTGACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGt > 1:40721/1‑80 (MQ=255)
gTAGCGGCATTCAGACTGTGACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGt < 2:40721/80‑1 (MQ=255)
gTAGCGGCATTCAGACTGTGACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAAcccc > 2:933141/1‑91 (MQ=255)
ggCATTCAGACTGTGACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTc > 2:748798/1‑91 (MQ=255)
ggCATTCAGACTGTGACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTc > 1:866523/1‑91 (MQ=255)
aTTCAGACTGTGACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAgg > 2:95551/1‑91 (MQ=255)
aTTCAGACTGTGACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAgg > 1:467382/1‑91 (MQ=255)
tgtgACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGAc < 1:962110/91‑1 (MQ=255)
gtgACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACt > 1:532321/1‑91 (MQ=255)
gACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGc < 1:95551/91‑1 (MQ=255)
gACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGc < 1:140858/91‑1 (MQ=255)
gACTTACACCAATTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTAc > 1:1021695/1‑91 (MQ=255)
acacCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCa < 2:270896/91‑1 (MQ=255)
cacCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAg < 1:748798/91‑1 (MQ=255)
gTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGAtgt > 1:472499/1‑91 (MQ=255)
tGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATc > 2:810392/1‑91 (MQ=255)
gAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCa < 1:801225/91‑1 (MQ=255)
aaaTGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAAccc > 2:481164/1‑48 (MQ=255)
aaaTGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAAccc < 1:481164/48‑1 (MQ=255)
atgcatgcGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAATTa > 2:1036481/1‑91 (MQ=255)
ccgcAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAATTACTCTGCCAc < 1:665156/91‑1 (MQ=255)
ggCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAATTACTCTGCCACTGGAt < 1:706655/91‑1 (MQ=255)
aaGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAATTACTCTGCCACTGGATGTGGc < 2:440956/91‑1 (MQ=255)
|
TATTGATGCTCAGGGCGGTAGCGGCATTCAGACTGTGACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGGCAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAATTACTCTGCCACTGGATGTGGC > NZ_CP009273/859499‑859669
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 33 ≤ 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
TACGTTAATCGTATTGATGCTCAGGGCGGTAGCGGCATTCAGACTGTGACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGGCAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAATTACTCTGCCACTGGATGTGGCACAAC > NZ_CP009273/859488‑859674
|
ttcgtcggcagcgtcagatgtgtataagagacaGGCATTCAGACTGTGACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGAC < SRR3722123.459421/68‑1 (MQ=60)
GCTCAGGGCGGTAGCGGCATTCAGACTGTGACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCC > SRR3722123.42484/1‑101 (MQ=60)
GGGCGGTAGCGGCATTCAGACTGTGACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTC > SRR3722123.907931/1‑101 (MQ=60)
CGGTAGCGGCATTCAGACTGTGACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGG > SRR3722123.489528/1‑101 (MQ=60)
tcgtcggcagcgtcagatgtgtataagagacagCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGC < SRR3722123.503958/68‑1 (MQ=60)
CATTCAGACTGTGACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACT > SRR3722123.557650/1‑101 (MQ=60)
GACTGTGACCGACTTACACCAATTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTAC > SRR3722123.1070925/1‑101 (MQ=60)
TGTGACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGG < SRR3722123.1008464/101‑1 (MQ=60)
GACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAG < SRR3722123.147180/101‑1 (MQ=60)
GACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAG < SRR3722123.99714/101‑1 (MQ=60)
ACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGT > SRR3722123.494887/1‑101 (MQ=60)
CACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATC < SRR3722123.784437/101‑1 (MQ=60)
GAAAATGCATGCGCCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAATTACTCTGC < SRR3722123.839368/101‑1 (MQ=60)
CCGCAGGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAATTACTCTGCCACTGGATGTGGC < SRR3722123.696720/101‑1 (MQ=60)
GGCGAAAGTGCTGACAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAATTACTCTGCCACTGGATGTGGCACAAC < SRR3722123.740213/101‑1 (MQ=60)
|
TACGTTAATCGTATTGATGCTCAGGGCGGTAGCGGCATTCAGACTGTGACCGACTTACACCAGTTATTGAAAATGCATGCGCCGCAGGCGAAAGTGCTGGCAGCGAGTTTCAAAACCCCGCGTCAGGCGCTGGACTGCTTACTGGCAGGATGTGAATCAATTACTCTGCCACTGGATGTGGCACAAC > NZ_CP009273/859488‑859674
|
| 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: ‑ |
