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 I195 R1
|
222 |
27.1 |
1551108 |
96.0% |
1489063 |
86.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
3,786,991 |
T→C |
D18G (GAT→GGT) |
yibB ← |
protein YibB |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 3,786,991 | 0 | T | C | 100.0%
| 141.3
/ NA
| 40 | D18G (GAT→GGT) | yibB | protein YibB |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (12/28); total (12/28) |
TCAAGTGCGGCCAGACGCTCAAAGTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAATCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACTAATAAGACCATTAATATAAAAAAAGA > NZ_CP009273/3786904‑3787073
|
tCAAGTGCGGCCAGACGCTCAAAGTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAAccc < 1:685758/90‑1 (MQ=255)
aaGTGCGGCCAGACGCTCAAAGTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACcccc < 2:523959/90‑1 (MQ=255)
gTGCGGCCAGACGCTCAAAGTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCctc < 1:156644/90‑1 (MQ=255)
tGCGGCAAGACGCTCAAAGTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCctct > 2:413122/1‑90 (MQ=255)
gCGGCCAGACGCTCAAAGTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTa > 1:253295/1‑90 (MQ=255)
cGGCCAGACGCTCAAAGTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTAc > 1:678118/1‑90 (MQ=255)
ggCCAGACGCTCAAAGTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTAcc > 2:118363/1‑90 (MQ=255)
ggCCAGACGCTCAAAGTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTAcc < 1:549253/90‑1 (MQ=255)
gACGCTCAAAGTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGt < 1:222674/90‑1 (MQ=255)
gTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGc < 1:288440/90‑1 (MQ=255)
gTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGc < 2:642508/90‑1 (MQ=255)
gTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTA‑CAATGTCAAAATATGCa < 2:462809/90‑1 (MQ=255)
tAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCa < 2:532209/90‑1 (MQ=255)
tAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCa < 2:253295/90‑1 (MQ=255)
tAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCa < 1:36199/90‑1 (MQ=255)
aaCTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAg > 2:526250/1‑90 (MQ=255)
cTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTg < 2:678118/90‑1 (MQ=255)
cTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTg < 2:430903/90‑1 (MQ=255)
cATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTgtgg < 1:301537/90‑1 (MQ=255)
aaCTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTg > 2:325020/1‑76 (MQ=255)
aaCTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTg < 1:325020/76‑1 (MQ=255)
cTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGgatg < 2:609121/90‑1 (MQ=255)
cTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGgatg < 2:748553/90‑1 (MQ=255)
cTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGgatg < 1:61624/90‑1 (MQ=255)
cTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGgatg < 1:451795/90‑1 (MQ=255)
cGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTc < 1:118363/90‑1 (MQ=255)
aGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCAt < 1:206517/90‑1 (MQ=255)
cTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTa < 1:68167/90‑1 (MQ=255)
gTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACta > 1:592351/1‑90 (MQ=255)
tttCACGGACCCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACtaata < 2:174479/90‑1 (MQ=255)
tttCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACtaata < 1:348074/90‑1 (MQ=255)
tttCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACtaata < 1:322529/90‑1 (MQ=255)
tCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACTAATAAg < 1:242552/90‑1 (MQ=255)
cACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACTCATAAGa < 2:413395/90‑1 (MQ=255)
cACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACTAATAAGa < 1:675495/90‑1 (MQ=255)
ggAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACTAATAAGACCa > 1:115140/1‑90 (MQ=255)
cAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACTAATAAGACCATTAATATAAAAAAAg > 1:602394/1‑90 (MQ=255)
cAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACTAATAAGACCATTAATATAAAAAAAg > 2:656039/1‑90 (MQ=255)
aGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACTAATAAGACCATTAatat < 1:260908/81‑1 (MQ=255)
aGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACTAATAAGACCATTAatat > 2:260908/1‑81 (MQ=255)
aGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACTAATAAGACCATTAATATAAAAAAAGa > 2:527262/1‑90 (MQ=255)
|
TCAAGTGCGGCCAGACGCTCAAAGTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAATCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACTAATAAGACCATTAATATAAAAAAAGA > NZ_CP009273/3786904‑3787073
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 24 ≤ 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
ATTTTCAAGTGCGGCCAGACGCTCAAAGTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAATCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACTAATAAGACCATTAATATAAAAAAAGAATTATATCATA > NZ_CP009273/3786900‑3787084
|
ATTTTCAAGTGCGGCCAGACGCTCAAAGTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTA > SRR3722073.258617/1‑100 (MQ=60)
TTTTCAAGTGCGGCCAGACGCTCAAAGTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTAC > SRR3722073.691976/1‑100 (MQ=60)
TCAAGTGCGGCCAGACGCTCAAAGTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAA < SRR3722073.699730/100‑1 (MQ=60)
GTGCGGCCAGACGCTCAAAGTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTC < SRR3722073.159815/100‑1 (MQ=60)
GGCCAGACGCTCAAAGTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAA < SRR3722073.560721/100‑1 (MQ=60)
GACGCTCAAAGTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGC < SRR3722073.227293/100‑1 (MQ=60)
GTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATT < SRR3722073.294543/100‑1 (MQ=60)
TAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTG < SRR3722073.37092/100‑1 (MQ=60)
acagAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGG < SRR3722073.331924/96‑1 (MQ=60)
CATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTT < SRR3722073.307912/100‑1 (MQ=60)
ACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATnnnnnnnnnnnnnnnnnnnn > SRR3722073.244851/1‑80 (MQ=60)
CTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTAC < SRR3722073.63069/100‑1 (MQ=60)
CTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTAC < SRR3722073.461452/100‑1 (MQ=60)
GAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACTA > SRR3722073.604718/1‑100 (MQ=60)
CGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACTAATA < SRR3722073.120879/100‑1 (MQ=60)
AGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACTAATAAN < SRR3722073.210733/100‑1 (MQ=60)
CTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACTAATAAGAC < SRR3722073.69763/100‑1 (MQ=60)
AGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACTAATAAGACCA > SRR3722073.117610/1‑100 (MQ=60)
TTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACTAATAAGACCATTAA < SRR3722073.355445/100‑1 (MQ=60)
TTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACTAATAAGACCATTAA < SRR3722073.329376/100‑1 (MQ=60)
TCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACTAATAAGACCATTAATA < SRR3722073.247640/100‑1 (MQ=60)
CACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACTAATAAGACCATTAATAT < SRR3722073.689308/100‑1 (MQ=60)
CCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACTAATAAGACCATTAATATAAAAAAAG > SRR3722073.614951/1‑100 (MQ=60)
TTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACTAATAAGACCATTAATATAAAAAAAGAA < SRR3722073.266409/100‑1 (MQ=60)
GTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACTAATActgtctcttatacacatctgacgctgccgacga > SRR3722073.705740/1‑67 (MQ=60)
|
ATTTTCAAGTGCGGCCAGACGCTCAAAGTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAATCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACTAATAAGACCATTAATATAAAAAAAGAATTATATCATA > NZ_CP009273/3786900‑3787084
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
