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 I194 R1
|
197 |
32.2 |
1845014 |
95.2% |
1756453 |
85.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
2,196,055 |
T→C |
V766V (GTT→GTC) |
BW25113_RS11045 → |
DUF4132 domain‑containing protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 2,196,055 | 0 | T | C | 100.0%
| 81.3
/ NA
| 24 | V766V (GTT→GTC) | BW25113_RS11045 | DUF4132 domain‑containing protein |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (14/10); total (14/10) |
CCGGCACGCATTCCAAAAGCCCCTGATTTCTGGCATCCGCAAATGTGGTCCAGGCCGCGCCTTATCACTAATAATCAAACTGTTACCAATGACGCTCTGGAAATTATCGGCGAAATGCTGCGCTTTACCCAGGGGGGACGTTTTTATAGCGGGCTGGAACAACTGAA > NZ_CP009273/2195972‑2196138
|
ccGGCACGCATTCCAAAAGCCCCTGATTTCTGGCATCCGCAAATGTGGTCCAGGCCGCGCCTTATCACTAATAATCAAACTGTCACCAAt > 1:556613/1‑90 (MQ=255)
gCACGCATTCCAAAAGCCCCTGATTTCTGGCATCCGCAAATGTGGTCCAGGCCGCGCCTTATCACTAATAATCAAACTGTCACCAATGAc > 1:711515/1‑90 (MQ=255)
ccGCAAATGTGGTCCAGGCCGCGCCTTATCACTAATAATCAAACTGTCACCAATGACGCTCTGGAAATTATCGGCGAAATGCTGCGCttt < 2:596616/90‑1 (MQ=255)
ggTCCAGGCCGCGCCTTATCACTAATAATCAAACTGTCACCAATGACGCTCTGGAAATTATCGGCGAAATGCTGCGCTTTACCCAggggg > 2:370147/1‑90 (MQ=255)
gTCCAGGCCGCGCCTTATCACTAATAATCAAACTGTCACCAATGACGCTCTGGAAATTATCGGCGAAATGCTGCGCTTTACCCAgggggg < 1:820060/90‑1 (MQ=255)
ccAGGCCGCGCCTTATCACTAATAATCAAACTGTCACCAATGACGCTCTGGAAATTATCGGCGAAATGCTGCGCTTTACCCAGGGGGGAc < 2:556613/90‑1 (MQ=255)
ccAGGCCGCGCCTTATCACTAATAATCAAACTGTCACCAATGACGCTCTGGAAATTATCGGCGAAATGCTGCGCTTTACCCAGGGGGGAc < 1:887785/90‑1 (MQ=255)
ccAGGCCGCGCCTTATCACTAATAATCAAACTGTCACCAATGACGCTCTGGAAATTATCGGCGAAATGCTGCGCTTTACCCAGGGGGGAc < 1:630009/90‑1 (MQ=255)
ggCCGCGCCTTATCACTAATAATCAAACTGTCACCAATGACGCTCTGGAAATTATCGGCGAAATGCTGCGCTTTACCCAGGGGGGACGtt > 2:721702/1‑90 (MQ=255)
gcgcCTTATCACTAATAATCAAACTGTCACCAATGACGCTCTGGAAATTATCGGCGAAAtgct > 2:203123/1‑63 (MQ=255)
gcgcCTTATCACTAATAATCAAACTGTCACCAATGACGCTCTGGAAATTATCGGCGAAAtgct < 1:203123/63‑1 (MQ=255)
cTTATCACTAATAATCAAACTGTCACCAATGACGCTCTGGAAATTATCGGCGAAATGCTGCGCTTTACCCAGGGGGGACGTTTTTATAGc < 2:397018/90‑1 (MQ=255)
tATCACTAATAATCAAACTGTCACCAATGACGCTCTGGAAATTATCgg < 2:103820/48‑1 (MQ=255)
tATCACTAATAATCAAACTGTCACCAATGACGCTCTGGAAATTATCgg > 1:103820/1‑48 (MQ=255)
aataatCAAACTGTCACCAATGACGCTCTGGAAATTATCGGCGAAATGCTGCGCTTTAccc > 1:570993/1‑61 (MQ=255)
aataatCAAACTGTCACCAATGACGCTCTGGAAATTATCGGCGAAATGCTGCGCTTTAccc < 2:570993/61‑1 (MQ=255)
aataatCAAACTGTCACCAATGACGCTCTGGAAATTATCGGCGAAATGCTGCGCTTTACCCAGGGGGGAc > 2:236960/1‑70 (MQ=255)
aataatCAAACTGTCACCAATGACGCTCTGGAAATTATCGGCGAAATGCTGCGCTTTACCCAGGGGGGAc < 1:236960/70‑1 (MQ=255)
aataatCAAACTGTCACCAATGACGCTCTGGAAATTATCGGCGAAATGCTGCGCTTTACCCAGGGGGGACGTTTTTATAGCGGGCTGGaa > 2:908827/1‑90 (MQ=255)
aatCAAACTGTCACCAATGACGCTCTGGAAATTATCGGCGAAATGCTGCGCTTTACCCAGGGGGGACGTTTTTATAGCGGGCTGGaacaa > 2:486985/1‑90 (MQ=255)
aaCTGTCACCAATGACGCTCTGGAAATTATCGGCGAAATGCTGCGCTTTACCCAGGGGGGCCGTTTTTATAGCGGGCTGGAACAACTGaa > 2:914468/1‑90 (MQ=255)
aaCTGTCACCAATGACGCTCTGGAAATTATCGGCGAAATGCTGCGCTTTACCCAGGGGGGACGTTTTTATAGCGGGCTGGAACAACTGaa > 2:28870/1‑90 (MQ=255)
aaCTGTCACCAATGACGCTCTGGAAATTATCGGCGAAATGCTGCGCTTTACCCAGGGGGGACGTTTTTATAGCGGGCTGGAACAACTGaa > 1:861166/1‑90 (MQ=255)
aaCTGTCACCAATGACGCTCTGGAAATTATCGGCGAAATGCTGCGCTTTACCCAGGGGGGACGTTTTTATAGCGGGCTGGAACAACTGaa > 2:95872/1‑90 (MQ=255)
|
CCGGCACGCATTCCAAAAGCCCCTGATTTCTGGCATCCGCAAATGTGGTCCAGGCCGCGCCTTATCACTAATAATCAAACTGTTACCAATGACGCTCTGGAAATTATCGGCGAAATGCTGCGCTTTACCCAGGGGGGACGTTTTTATAGCGGGCTGGAACAACTGAA > NZ_CP009273/2195972‑2196138
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
AATGGACATTTACCCGGCACGCATTCCAAAAGCCCCTGATTTCTGGCATCCGCAAATGTGGTCCAGGCCGCGCCTTATCACTAATAATCAAACTGTTACCAATGACGCTCTGGAAATTATCGGCGAAATGCTGCGCTTTACCCAGGGGGGACGTTTTTATAGCGGGCTGGAACAACTGAAAACGTTCTGC > NZ_CP009273/2195959‑2196148
|
AATGGACATTTACCCGGCACGCATTCCAAAAGCCCCTGATTTCTGGCATCCGCAAATGTGGTCCAGGCCGCGCCTTATCACTAATAATCAAACTGTCACC < SRR3722072.892306/100‑1 (MQ=60)
GGACATTTACCCGGCACGCATTCCAAAAGCCCCTGATTTCTGGCATCCGCAAATGTGGTCCAGGCCGCGCCTTATCACTAATAATCAAACTGTCACCAAT > SRR3722072.566618/1‑100 (MQ=60)
CATTTACCCGGCACGCATTCCAAAAGCCCCTGATTTCTGGCATCCGCAAATGTGGTCCAGGCCGCGCCTTATCACTAATAATCAAACTGTCACCAATGAC > SRR3722072.724195/1‑100 (MQ=60)
TTTACCCGGCACGCATTCCAAAAGCCCCTGATTTCTGGCATCCGCAAATGTGGTCCAGGCCGCGCCTTATCACTAATAATCAAACTGTCACCAATGACGC < SRR3722072.411004/100‑1 (MQ=60)
gagataatcggacgtctcgtgggctcggagatgtgtataagagacagGGCCGCGCCTTATCACTAATAATCAAACTGTCACCAATGACGCTCTGGAAATT < SRR3722072.682529/53‑1 (MQ=60)
atgtgtataagagacagGGTCCAGGCCGCGCCTTATCACTAATAATCAAACTGTCACCAATGACGCTCTGGAAATTATCGGCGAAATGCTGCGCTTTACC < SRR3722072.206618/83‑1 (MQ=60)
GTCCAGGCCGCGCCTTATCACTAATAATCAAACTGTCACCAATGACGCTCTGGAAATTATCGGCGAAATGCTGCGCTTTACCCAGGGGGGACGCTTTTAT < SRR3722072.834339/100‑1 (MQ=60)
taagagacaGCCTTATCACTAATAATCAAACTGTCACCAATGACGCTCTGGAAATTATCGGCGAAATGCTGCGCTTTACCCAGGGGGGACGTTTTTATAG < SRR3722072.240914/91‑1 (MQ=60)
CCAGGCCGCGCCTTATCACTAATAATCAAACTGTCACCAATGACGCTCTGGAAATTATCGGCGAAATGCTGCGCTTTACCCAGGGGGGACGTTTTTATAG < SRR3722072.641265/100‑1 (MQ=60)
CCAGGCCGCGCCTTATCACTAATAATCAAACTGTCACCAATGACGCTCTGGAAATTATCGGCGAAATGCTGCGCTTTACCCAGGGGGGACGTTTTTATAG < SRR3722072.903052/100‑1 (MQ=60)
GGCCGCGCCTTATCACTAATAATCAAACTGTCACCAATGACGCTCTGGAAATTATCGGCGAAATGCTGCtgtctcttatacacatctccgagcccacgag > SRR3722072.105734/1‑69 (MQ=60)
CCTTATCACTAATAATCAAACTGTCACCAATGACGCTCTGGAAATTATCGGCGAAATGCTGCGCTTTACCCAGGGGGGACGctgtctcttatacacatct > SRR3722072.581197/1‑81 (MQ=60)
CTAATAATCAAACTGTCACCAATGACGCTCTGGAAATTATCGGCGAAATGCTGCGCTTTACCCAGGGGGGACGTTTTTATAGCGGGCTGGAACAACTGAA > SRR3722072.876025/1‑100 (MQ=60)
AACTGTCACCAATGACGCTCTGGAAATTATCGGCGAAATGCTGCGCTTTACCCAGGGGctgtctcttatacacatctccgagcccacgagacgtccgatt > SRR3722072.15458/1‑58 (MQ=60)
|
AATGGACATTTACCCGGCACGCATTCCAAAAGCCCCTGATTTCTGGCATCCGCAAATGTGGTCCAGGCCGCGCCTTATCACTAATAATCAAACTGTTACCAATGACGCTCTGGAAATTATCGGCGAAATGCTGCGCTTTACCCAGGGGGGACGTTTTTATAGCGGGCTGGAACAACTGAAAACGTTCTGC > NZ_CP009273/2195959‑2196148
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
