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 I208 R1
|
222 |
13.1 |
731276 |
96.6% |
706412 |
85.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
475,878 |
T→C |
D96G (GAT→GGT) |
tomB ← |
Hha toxicity modulator TomB |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 475,878 | 0 | T | C | 100.0%
| 44.1
/ NA
| 13 | D96G (GAT→GGT) | tomB | Hha toxicity modulator TomB |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (4/9); total (4/9) |
CAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCATAACTACTGAACAACATAAAGGTGTCATCCAGATATTCGTCGATCTGCTCAATGAGCTTAT > NZ_CP009273/475794‑475956
|
cAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGACCCTGc < 2:66275/90‑1 (MQ=255)
aGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGACCCTGCat < 2:64406/90‑1 (MQ=255)
cTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGCCCCTGCATATTAATa < 1:87301/90‑1 (MQ=255)
gCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGACCCTGCATATTAATACCa > 1:104724/1‑90 (MQ=255)
aGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGACCCTGCATATTAATACCATa < 2:45531/90‑1 (MQ=255)
ttCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGACCCTGCATATTAATACCATAACTACTGaac < 1:113391/90‑1 (MQ=255)
ttCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGACCCTGCATATTAATACCATAACTACTGaac < 1:258943/90‑1 (MQ=255)
gtcgCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGACCCTGCATATTAATACCATAACTACTGaacaac > 2:210517/1‑90 (MQ=255)
caacGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGACCCTGCATATTAATACCATAACTACTGAACAACATAAAGGTGTCATcc < 1:285181/90‑1 (MQ=255)
gATTACCTGACTTCCGCCATTTCTGAAGACCCTGCATATTAATACCATAACTACTGAACAACATAAAGGTGTCATCCAGATATTCGTCGa > 2:355302/1‑90 (MQ=255)
cTTCCGCCATTTCTGAAGACCCTGCATATTAATACCATAACTACTGAACAACATAAAGGTGTCATCCAGATATTCGTCGATCTGCTCAAt < 2:104724/90‑1 (MQ=255)
tCCGCCATTTCTGAAGACCCTGCATATTAATACCATAACTACTGAACAACATAAAGGTGTCATCCAGATATTCGTCGATCTGCTCAATGa > 2:8191/1‑90 (MQ=255)
aTTTCTGAAGACCCTGCATATTAATACCATAACTACTGAACAACATAAAGGTGTCATCCAGATATTCGTCGATCTGCTCAATGAGCTTAt < 1:210517/90‑1 (MQ=255)
|
CAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCATAACTACTGAACAACATAAAGGTGTCATCCAGATATTCGTCGATCTGCTCAATGAGCTTAT > NZ_CP009273/475794‑475956
|
| 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
ATTCTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCATAACTACTGAACAACATAAAGGTGTCATCCAGATATTCGTCGATCTGCTCAATGAGCTTATTGTCTTCATTATA > NZ_CP009273/475787‑475969
|
ATTCTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGACCCTGCATA < SRR3722090.94865/100‑1 (MQ=60)
TCTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGACCCTGCATATT < SRR3722090.64724/100‑1 (MQ=60)
AGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGACCCTGCATATTAATACCA > SRR3722090.105848/1‑100 (MQ=60)
CTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTTCCTGACTTCCGCCCTTTCTGAAGCCCCTGCATATTAATACCATAACTAC < SRR3722090.88257/100‑1 (MQ=60)
TTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGACCCTGCATATTAATACCATAACTACTGAACAACATAAAGG < SRR3722090.114599/100‑1 (MQ=60)
TTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGACCCTGCATATTAATACCATAACTACTGAACAACATAAAGG < SRR3722090.262121/100‑1 (MQ=60)
CAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGACCCTGCATATTAATACCATAACTACTGAACAACATAAAGGTGTCATCCAGATATTCGT < SRR3722090.288747/100‑1 (MQ=60)
ATTTCTGAAGACCCTGCATATTAATACCATAACTACTGAACAACATAAAGGTGTCATCCAGATATTCGTCGATCTGCTCAATGAGCTTATTGTCTTCATT < SRR3722090.212859/100‑1 (MQ=60)
TTCTGAAGACCCTGCATATTAATACCATAACTACTGAACAACATAAAGGTGTCATCCAGATATTCGTCGATCTGCTCAATGAGCTTATTGTCTTCATTAT > SRR3722090.101647/1‑100 (MQ=60)
TCTGAAGACCCTGCATATTAATACCATAACTACTGAACAACATAAAGGTGctgtctcttatacacatctccgagcccacgagactcctgagcatctcgta > SRR3722090.160513/1‑50 (MQ=60)
TCTGAAGACCCTGCATATTAATACCATAACTACTGAACAACATAAAGGTGTCATCCAGATATTCGTCGATCTGCTCAATGAGCTTATTGTCTTCATTATA > SRR3722090.100571/1‑100 (MQ=60)
|
ATTCTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCATAACTACTGAACAACATAAAGGTGTCATCCAGATATTCGTCGATCTGCTCAATGAGCTTATTGTCTTCATTATA > NZ_CP009273/475787‑475969
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
