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 F4 I88 R1
|
217 |
30.5 |
1742422 |
95.9% |
1670982 |
87.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
834,220 |
A→G |
D148D (GAT→GAC) |
ybiX ← |
PKHD‑type hydroxylase YbiX |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 834,220 | 0 | A | G | 100.0%
| 112.4
/ NA
| 31 | D148D (GAT→GAC) | ybiX | PKHD‑type hydroxylase YbiX |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (17/14); total (17/14) |
ACTGGATCCACATAAATGATGCCACTCGTACGCCGCGGGTTACGGGTGTCACGCAATGCAGGCTGCTGGAGGGATACAACACGAGATCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGGTGTCATTAACGACCAGTTCGCCGCCGTCGTAGCTTTGTGGATCGCTTAAA > NZ_CP009273/834135‑834307
|
aCTGGATCCACATAAATGATGCCACTCGTACGCCGCGGGTTACGGGTGTCACGCAATGCAGGCTGCTGGAGGGATACAACACGAGGTCGcc < 2:187750/91‑1 (MQ=255)
tGGATCCACATAAATGATGCCACTCGTACGCCGCGGGTTACGGCTGTCACGCAATGCAGGCTGCTGGAGGGATACAACACGAGGTCGCCTg > 1:257886/1‑91 (MQ=255)
gATCCACATAAATGATGCCACTCGTACGCCGCGGGTTACGGGTGTCACGCAATGCAGGCTGCTGGAGGGATACAACACGAGGTCGCCTGcc > 1:119645/1‑91 (MQ=255)
gATCCACATAAATGATGCCACTCGTACGCCGCGGGTTACGGGTGTCACGCAATGCAGGCTGCTGGAGGGATACAACACGAGGTCGCCTGcc > 1:214722/1‑91 (MQ=255)
caTAAATGATGCCACTCGTACGCCGCGGGTTACGGGTGTCACGCAATGCAGGCTGCTGGAGGGATACAACACGAGGTCGCCTGCCGGGAGt > 1:507170/1‑91 (MQ=255)
caTAAATGATGCCACTCGTACGCCGCGGGTTAAGGGTGTCACGCAATGCAGGCTGCTGGAGGGATACAACACGAGGTCGCCTCACGGGAGt > 1:97647/1‑91 (MQ=255)
atgCCACTCGTACGCCGCGGGTTACGGGTGTCACGCAATGCAGGCTGCTGGAGGGATACAACACGAGGTCGCCTGCCGGGAGTTTTACCCg > 2:86713/1‑91 (MQ=255)
tgCCACTCGTACGCCGCGGGTTACGGGTGTCACGCAATGCAGGCTGCTGGAGGGATACAACACGAGGTCGCCTGCCGGGAGTTTTACCCGa > 1:581341/1‑91 (MQ=255)
tgCCACTCGTACGCCGCGGGTTACGGGTGTCACGCAATGCAGGCTGCTGGAGGGATACAACACGAGGTCGCCTGCCGGGAGTTTTACCCGa > 1:104762/1‑91 (MQ=255)
tgCCACTCGTACGCCGCGGGTTACGGGTGTCACGCAATGCAGGCTGCTGGAGGGATACAACACGAGGTCGCCTGCCGGGAGTTTTACCCGa > 1:116499/1‑91 (MQ=255)
cACTCGTACGCCGCGGGTTACGGGTGTCACGCAATGCAGGCTGCTGGAGGGATACAACACGAGGTCGCCTGCCGGGAGTTTTACCCGAtgt < 1:53065/91‑1 (MQ=255)
aCTCGTACGCCGCGGGTTACGGGTGTCACGCAATGCAGGCTGCTGGAGGGATACAACACGAGGTCGCCTGCCGGGAGTTTTACCCGAtgtt > 1:622973/1‑91 (MQ=255)
tACGCCGCGGGTTACGGGTGTCACGCAATGCAGGCTGCTGGAGGGATACAACACGAGGTCGCCTGCCGGGAGTTTTACCCGATGTTGTCCg > 1:228532/1‑91 (MQ=255)
gcgGGTTACGGGTGTCACGCAATGCAGGCTGCTGTAGGGATACAACACGAGGTCGCCTGCCGGGAGTTTTACCCGATGTTGGCCGAAGgtg < 2:49188/91‑1 (MQ=255)
gcgGGTTACGGGTGTCACGCAATGCAGGCTGCTGGAGGGATACAACACGAGGTCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGgtg > 1:423210/1‑91 (MQ=255)
tGCAGGCTGCTGGAGGGATACAACACGAGGTCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGGTGTCATTAACGACCAGTTcgccgc < 2:257886/91‑1 (MQ=255)
ctgctgGAGGGATACAACACGAGGTCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGGTGTCATTAACGACCAGTTCGCCGCcgtcgt > 1:320701/1‑91 (MQ=255)
ctgctgGAGGGATACAACACGAGGTCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGGTGTCATTAACGACCAGTTCGCCGCcgtcgt < 1:490672/91‑1 (MQ=255)
gctgGAGGGATACAACACGAGGTCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGGTGTCATTAACGACCAGTTCGCCGCCGTCGTAg < 1:267784/91‑1 (MQ=255)
gctgGAGGGATACAACACGAGGTCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGGTGTCATTAACGACCAGTTCGCCGCCGTCGTAg < 1:546867/91‑1 (MQ=255)
gctgGAGGGATACAACACGAGGTCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGGTGTCATTAACGACCAGTTCGCCGCCGTCGTAg < 1:718750/91‑1 (MQ=255)
gctgGAGGGATACAACACGAGGTCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGGTGTCATTAACGACCAGTTCGCCGCCGTCGTAg < 2:440981/91‑1 (MQ=255)
ctgGAGGGATACAACACGAGGTCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGGTGTCATTAACGACCAGTTCGCCGCCGTCGTAGc > 1:338443/1‑91 (MQ=255)
gATACAACACGAGGTCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGGTGTCATTAACGACCAGTTCGCCGCCGTCGTAGCTTTGTgg > 1:202837/1‑91 (MQ=255)
gATACAACACGAGGTCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGGTGTCATTAACGACCAGTTCGCCGCCGTCGTAGCTTTGTgg > 1:370110/1‑91 (MQ=255)
acaacaCGAGGTCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGGTGTCATTAACGACCAGTTCGCCGCCGTCGTAGCTTTGTGGATc < 2:19818/91‑1 (MQ=255)
acaacaCGAGGTCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGGTGTCATTAACGACCAGTTCGCCGCCGTCGTAGCTTTGTGGATc < 2:284169/91‑1 (MQ=255)
acaacaCGAGGTCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGGTGTCATTAACGACCAGTTCGCCGCCGTCGTAGCTTTGTGGATc < 2:423210/91‑1 (MQ=255)
acaacaCGAGGTCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGGTGTCATTAACGACCAGTTCGCCGCCGTCGTAGCTTTGTGGATc < 1:668995/91‑1 (MQ=255)
acaacaCGAGGTCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGGTGTCATTAACGACCAGTCCGCCGCCGTCGTAGCTTTGTGGATc < 2:214722/91‑1 (MQ=255)
acaacaCGAGGTCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGGTGTCATTAACGACCAGGTCGCCGCCGTCGTAGCTTTGTGGATc < 2:663562/91‑1 (MQ=255)
acacGAGGTCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGGTGTCATTAACGACCAGTTCGCCGCCGTCGTAGCTTTGTGGATCGCt > 1:166534/1‑91 (MQ=255)
cGAGGTCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGGTGTCATTAACGACCAGTTCGCCGCCGTCGTAGCTTTGTGGATCGCTTaa > 2:588146/1‑91 (MQ=255)
gaggTCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGGTGTCATTAACGACCAGTTCGCCGCCGTCGTAGCTTTGTGGATCGCTTaaa > 2:194270/1‑91 (MQ=255)
gaggTCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGGTGTCATTAACGACCAGTTCGCCGCCGTCGTAGCTTTGTGGATCGCTTaaa > 2:659513/1‑91 (MQ=255)
|
ACTGGATCCACATAAATGATGCCACTCGTACGCCGCGGGTTACGGGTGTCACGCAATGCAGGCTGCTGGAGGGATACAACACGAGATCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGGTGTCATTAACGACCAGTTCGCCGCCGTCGTAGCTTTGTGGATCGCTTAAA > NZ_CP009273/834135‑834307
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 24 ≤ 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
GATCATCGACTGGATCCACATAAATGATGCCACTCGTACGCCGCGGGTTACGGGTGTCACGCAATGCAGGCTGCTGGAGGGATACAACACGAGATCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGGTGTCATTAACGACCAGTTCGCCGCCGTCGTAGCTTTGTGGATCGCTTAAAAACAGCGTGGC > NZ_CP009273/834127‑834318
|
GATCATCGACTGGATCCACATAAATGATGCCACTCGTACGCCGCGGGTTACGGCTGTCACGCAATGCAGGCTGCTGGAGGGATACAACACGAGGTCGCCTG > SRR3722118.263125/1‑101 (MQ=60)
TCATCGACTGGATCCACATAAATGATGCCACTCGTACGCCGCGGGTTACGGGTGTCACGCAATGCAGGCTGCTGGAGGGATACAACACGAGGTCGCCTGCC > SRR3722118.121881/1‑101 (MQ=60)
TCATCGACTGGATCCACATAAATGATGCCACTCGTACGCCGCGGGTTACGGGTGTCACGCAATGCAGGCTGCTGGAGGGATACAACACGAGGTCGCCTGCC > SRR3722118.219032/1‑101 (MQ=60)
ACTGGATCCACATAAATGATGCCACTCGTACGCCGCGGGTTACGGGTGTCACGCAATGCAGGCTGCTGGAGGGATACAACACGAGGTCGCCTGCCGGGAGT > SRR3722118.517920/1‑101 (MQ=60)
ACTGGATCCACATAAATGATGCCACTCGTACGCCGCGGGTTAAGGGTGTCACGCAATGCAGGCTGCTGGAGGGATACAACACGAGGTCGCCTCACGGGAGT > SRR3722118.99437/1‑101 (MQ=60)
ACATAAATGATGCCACTCGTACGCCGCGGGTTACGGGTGTCACGCAATGCAGGCTGCTGGAGGGATACAACACGAGGTCGCCTGCCGGGAGTTTTACCCGA > SRR3722118.118662/1‑101 (MQ=60)
ACATAAATGATGCCACTCGTACGCCGCGGGTTACGGGTGTCACGCAATGCAGGCTGCTGGAGGGATACAACACGAGGTCGCCTGCCGGGAGTTTTACCCGA > SRR3722118.593664/1‑101 (MQ=60)
ACATAAATGATGCCACTCGTACGCCGCGGGTTACGGGTGTCACGCAATGCAGGCTGCTGGAGGGATACAACACGAGGTCGCCTGCCGGGAGTTTTACCCGA > SRR3722118.106689/1‑101 (MQ=60)
AAATGATGCCACTCGTACGCCGCGGGTTACGGGTGTCACGCAATGCAGGCTGCTGGAGGGATACAACACGAGGTCGCCTGCCGGGAGTTTTACCCGATGTT > SRR3722118.636357/1‑101 (MQ=60)
ATGCCACTCGTACGCCGCGGGTTACGGGTGTCACGCAATGCAGGCTGCTGGAGGGATACAACACGAGGTCGCCTGCCGGGAGTTTTACCCGATGTTGTCCG > SRR3722118.233149/1‑101 (MQ=60)
CACTCGTACGCCGCGGGTTACGGGTGTCACGCAATGCAGGCTGCTGGAGGGATACAACACGAGGTCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGG < SRR3722118.54038/101‑1 (MQ=60)
CTCGTACGCCGCGGGTTACGGGTGTCACGCAATGCAGGCTGCTGGAGGGATACAACACGAGGTCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGGTG > SRR3722118.432156/1‑101 (MQ=60)
GCAATGCAGGCTGCTGGAGGGATACAACACGAGGTCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGGTGTCATTAACGACCAGTTCGCCGCCGTCGT > SRR3722118.327289/1‑101 (MQ=60)
ATGCAGGCTGCTGGAGGGATACAACACGAGGTCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGGTGTCATTAACGACCAGTTCGCCGCCGTCGTAGC > SRR3722118.345414/1‑101 (MQ=60)
CTGCTGGAGGGATACAACACGAGGTCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGGTGTCATTAACGACCAGTTCGCCGCCGTCGTAGCTTTGTGG > SRR3722118.377832/1‑101 (MQ=60)
CTGCTGGAGGGATACAACACGAGGTCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGGTGTCATTAACGACCAGTTCGCCGCCGTCGTAGCTTTGTGG < SRR3722118.501074/101‑1 (MQ=60)
CTGCTGGAGGGATACAACACGAGGTCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGGTGTCATTAACGACCAGTTCGCCGCCGTCGTAGCTTTGTGG > SRR3722118.206891/1‑101 (MQ=60)
GCTGGAGGGATACAACACGAGGTCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGGTGTCATTAACGACCAGTTCGCCGCCGTCGTAGCTTTGTGGAT < SRR3722118.273229/101‑1 (MQ=60)
GCTGGAGGGATACAACACGAGGTCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGGTGTCATTAACGACCAGTTCGCCGCCGTCGTAGCTTTGTGGAT < SRR3722118.558465/101‑1 (MQ=60)
GCTGGAGGGATACAACACGAGGTCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGGTGTCATTAACGACCAGTTCGCCGCCGTCGTAGCTTTGTGGAT < SRR3722118.734522/101‑1 (MQ=60)
GAGGGATACAACACGAGGTCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGGTGTCATTAACGACCAGTTCGCCGCCGTCGTAGCTTTGTGGATCGCT > SRR3722118.169793/1‑101 (MQ=60)
ACAACACGAGGTCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGGTGTCATTAACGACCAGTTCGCCGCCGTCGTAGCTTTGTGGATCGCTTAAAAAC < SRR3722118.683492/101‑1 (MQ=60)
AGGTCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGGTGTCATTAACGACCAGTTCGCCGCCGTCGTAGCTTTGTGGATCGCTTAAAAACAGCGTGGC < SRR3722118.414240/101‑1 (MQ=60)
|
GATCATCGACTGGATCCACATAAATGATGCCACTCGTACGCCGCGGGTTACGGGTGTCACGCAATGCAGGCTGCTGGAGGGATACAACACGAGATCGCCTGCCGGGAGTTTTACCCGATGTTGTCCGAAGGTGTCATTAACGACCAGTTCGCCGCCGTCGTAGCTTTGTGGATCGCTTAAAAACAGCGTGGC > NZ_CP009273/834127‑834318
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
