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 I74 R1
|
158 |
13.7 |
815430 |
95.7% |
780366 |
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%
| 62.6
/ NA
| 19 | D18G (GAT→GGT) | yibB | protein YibB |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (9/10); total (9/10) |
AAGTGCGGCCAGACGCTCAAAGTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAATCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACTAATAAGACCATTAATATAAAAAAAGA > NZ_CP009273/3786906‑3787073
|
aaGTGCGGCCAGACGCTCAAAGTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACcccc < 1:192067/90‑1 (MQ=255)
tGCGGCCAGACGCTCAAAGTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCctct > 1:287053/1‑90 (MQ=255)
gCGGCCAGACGCTCAAAGTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTa > 2:271942/1‑90 (MQ=255)
gCCAGACGCTCAAAGTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCa < 2:205508/90‑1 (MQ=255)
ccAGACGCTCAAAGTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCaa < 1:370678/90‑1 (MQ=255)
tAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCa < 1:356500/90‑1 (MQ=255)
aaaaTAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTCTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGAt > 1:278616/1‑90 (MQ=255)
cTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGgatg < 2:266144/90‑1 (MQ=255)
gAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCa < 1:39452/60‑1 (MQ=255)
gAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCa > 2:39452/1‑60 (MQ=255)
gAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGgatgat > 2:283373/1‑90 (MQ=255)
aGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCAt < 1:68595/90‑1 (MQ=255)
cTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTa < 2:346165/90‑1 (MQ=255)
tCACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACTAATAAg > 1:29964/1‑90 (MQ=255)
cACGGAACCCTTTATTAGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACTAATAAGa < 2:4187/90‑1 (MQ=255)
ttaGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACTAATAAGACCATTAATATaaaa > 2:158802/1‑90 (MQ=255)
aGCAGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACTAATAAGACCATTAATATaaaaaa < 2:29964/90‑1 (MQ=255)
aGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACTAATAAGACCATTAATATAAAAAAAGa > 2:299307/1‑90 (MQ=255)
aGTCCAACCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACTAATAAGACCATTAATATAAAAAAAGa > 2:367519/1‑90 (MQ=255)
|
AAGTGCGGCCAGACGCTCAAAGTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAATCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACTAATAAGACCATTAATATAAAAAAAGA > NZ_CP009273/3786906‑3787073
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ 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
CATCTCATTTTCAAGTGCGGCCAGACGCTCAAAGTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAA‑TCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACTAATAAG > NZ_CP009273/3786894‑3787053
|
CATCTCATTTTCAAGTGCGGCCAGACGCTCAAAGTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAA‑CCC < SRR3722212.46507/100‑1 (MQ=60)
CATCTCATTTTCAAGTGCGGCCAGACGCTCAAAGTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAA‑CCC < SRR3722212.72395/100‑1 (MQ=60)
CATCTCATTTTCAAGTGCGGCCAGACGCTCAAAGTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAA‑CCC < SRR3722212.86546/100‑1 (MQ=60)
CATTTTCAAGTGCGGCCAGACGCTCAAAGTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAA‑CCCCCTCT > SRR3722212.290894/1‑100 (MQ=60)
TTTCAAGTGCGGCCAGACGCTCAAAGTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAA‑CCCCCTCTACC < SRR3722212.122702/100‑1 (MQ=60)
TTCAAGTGCGGCCAGACGCTCAAAGTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAACCCCCCTCTACC < SRR3722212.382560/100‑1 (MQ=60)
AAGTGCGGCCAGACGCTCAAAGTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAA‑CCCCCTCTACCAATG < SRR3722212.194261/100‑1 (MQ=60)
CCAGACGCTCAAAGTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAA‑CCCCCTCTACCAATGTCAAAATA < SRR3722212.375888/100‑1 (MQ=60)
gagatgtgtataagagacagAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAA‑CCCCCTCTACCAATGTCAAAATATGCAG < SRR3722212.39915/80‑1 (MQ=60)
CAAAGTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTCTATTAGCAGTCCAA‑CCCCCTCTACCAATGTCAAAATATGCAGTGAT > SRR3722212.282291/1‑100 (MQ=60)
TAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAA‑CCCCCTCTACCAATGTCAAAATATGCAGTGATAATTG < SRR3722212.361497/100‑1 (MQ=60)
AGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAA‑CCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACTAATAAG > SRR3722212.30318/1‑100 (MQ=60)
AGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAA‑CCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACTAATAAG < SRR3722212.69428/100‑1 (MQ=60)
|
CATCTCATTTTCAAGTGCGGCCAGACGCTCAAAGTAACTAAAATAAACATCAACTGAACGAGCTAGTTTTTCACGGAACCCTTTATTAGCAGTCCAA‑TCCCCTCTACCAATGTCAAAATATGCAGTGATAATTGTGGTGGATGATTTCATTACTAATAAG > NZ_CP009273/3786894‑3787053
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
