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 |
676,968 |
A→G |
D434G (GAT→GGT) |
djlC → |
co‑chaperone DjlC |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 676,968 | 0 | A | G | 100.0%
| 111.6
/ NA
| 30 | D434G (GAT→GGT) | djlC | co‑chaperone DjlC |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (15/15); total (15/15) |
AATACAAGGCTGGAAGGCGGAGATGCTCATCCATTAGAGGCCATTGTCACCCGGATGCTTTTGACGAAAGTGAAACTCGAGCCGGAGGATGAAGATGTCGATGAGCCAACACCTGAAAATCATGAAGAAAAAAATGATGAGGGTGAAAAACCACAGAGCATTACCAGCAT > NZ_CP009273/676880‑677049
|
aaTACAAGGCTGGAAGGCGGAGATGCTCATCCATTAGAGGCCATTGTCACCCGGATGCTTTTGACCAAAGTGAAACTCGAGCCGGAGGGTg > 1:77848/1‑91 (MQ=255)
aaGGCTGGAAGGCGGAGATGCTCATCCATTAGAGGCCATTGTCACCCGGATGCTTTTGACGAAAGTGAAACTCGAGCCGGAGGGTGAAGAt < 2:600609/91‑1 (MQ=255)
aaGGCTGGAAGGCGGAGATGCTCATCCATTAGAGGCCATTGTCACCCGGATGCTTTTGACGAAAGTGAAACTCGAGCCGGAGGGTGAAGAt > 1:328145/1‑91 (MQ=255)
aaGGCTGGAAGGCGGAGATGCTCATCCATTAGAGGCCATTGTCACCCGGATGCTTTTGACGAAAGTGAAACTCGAGCCGGAGGGTGAAGAt > 1:47495/1‑91 (MQ=255)
aGGCTGGAAGGCGGGGATGCTCATCCATTAGAGGCCATTGTCACCCGGATGCTTTTGACGAAAGTGAAACTCGAGCCGGAGGGTGAAGATg > 1:745897/1‑91 (MQ=255)
aGGCTGGAAGGCGGAGATGCTCATCCATTAGAGGCCATTGTCACCCGGATGCTTTTGACGAAAGTGAAACTCGAGCCGGAGGGTGAAGATg > 1:499646/1‑91 (MQ=255)
aGGCTGGAAGGCGGAGATGCTCATCCATTAGAGGCCATTGTCACCCGGATGCTTTTGACGAAAGTGAAACTCGAGCCGGAGGGTGAAGATg > 2:33694/1‑91 (MQ=255)
aGGCTGGAAGGCGGAGATGCTCATCCATTAGAGGCCATTGTCACCCGGATGCTTTTGACGAAAGTGAAACTCGAGCCGGAGGGTGAAGATg > 1:412761/1‑91 (MQ=255)
aGGCTGGAAGGCGGAGATGCTCATCCATTAGAGGCCATTGCCACCCGGATGCTTTTGACGAAAGTGAAACTCGAGCCGGAGGGTGAAGATg > 2:366239/1‑91 (MQ=255)
ggAAGGCGGAGATGCTCATCCATTAGAGGCCATTGTCACCCGGATGCTTTTGACGAAAGTGAAACTCGAGCCGGAGGGTGAAGATGTCGAt > 2:367029/1‑91 (MQ=255)
tCATCCATTAGAGGCCATTGTCACCCGGATGCTTTTGACGAAAGTGAAACTCGAGCCGGAGGGTGAAGATGTCGATGAGCCAACACCTGaa < 1:547021/91‑1 (MQ=255)
aTTAGAGGCCATTGTCACCCGGATGCTTTTGACGAAAGTGAAACTCGAGCCGGAGGGTGAAGATGTCGATGAGCCAACACCTGAAAATCAt > 1:493106/1‑91 (MQ=255)
ccATTGTCACCCGGATGCTTTTGACGAAAGTGAAACTCGAGCCGGAGGGTGAAGATGTCGATGAGCCAACACCTGAAAATCATGAAGaaaa > 1:820878/1‑91 (MQ=255)
cATTGTCACCCGGATGCTTTTGACGAAAGTGAAACTCGAGCCGGAGGGTGAAGATGTCGATGAGCCAACACCTGAAAATCATGAAGaaaaa > 2:785708/1‑91 (MQ=255)
aCCCGGATGCTTTTGACGAAAGTGAAACTCGAGCCGGAGGGTGAAGATGTCGATGAGCCAACACCTGAAAATCATGAAGAAAAAAatgatg < 1:443828/91‑1 (MQ=255)
aCCCGGATGCTTTTGACGAAAGTGAAACTCGAGCCGGAGGGTGAAGATGTCGATGAGCCAACACCTGAAAATCATGAAGAAAAAAatgatg > 1:56483/1‑91 (MQ=255)
aCCCGGATGCTTTTGACGAAAGTGAAACTCGAGCCGGAGGGTGAAGATGTCGATGAGCCAACACCTGAAAATCATGAAGAAAAAAatgatg < 2:493106/91‑1 (MQ=255)
gATGCTTTTGACGAAAGTGAAACTCGAGCCGGAGGGTGAAGATGTCGATGAGCCAACACCTGAAAATCATGAAGAAAAAAATGATGAGGGt < 1:203111/91‑1 (MQ=255)
gATGCTTTTGACGAAAGTGAAACTCGAGCCGGAGGGTGAAGATGTCGATGAGCCAACACCTGAAAATCATGAAGAAAAAAATGATGAGGGt > 2:628766/1‑91 (MQ=255)
aCGAAAGTGAAACTCGAGCCGGAGGGTGAAGATGTCGATGAGCCAACACCTGAAAATCATGAAGAAAAAAATGATGAGGGTGAAAAACcac < 2:685359/91‑1 (MQ=255)
aCGAAAGTGAAACTCGAGCCGGAGGGTGAAGATGTCGATGAGCCAACACCTGAAAATCATGAAGAAAAAAATGATGAGGGTGAAAAACcac < 1:423937/91‑1 (MQ=255)
cGAAAGTGAAACTCGAGCCGGAGGGTGAAGATGTCGATGAGCCAACACCTGAAAATCATGAAGAAAAAAATGATGAGGGTGAAAAACcaca < 1:366239/91‑1 (MQ=255)
cGAAAGTGAAACTCGAGCCGGAGGGTGAAGATGTCGATGAGCCAACACCTGAAAATCATGAAGAAAAAAATGATGAGGGTGAAAAACcaca < 2:56483/91‑1 (MQ=255)
aaGTGAAACTCGAGCCGGAGGGTGAAGATGTCGATGAGCCAACACCTGAAAATCATGAAGAAAAAAATGATGAGGGTGAAAAACCACagag > 2:82620/1‑91 (MQ=255)
aGTGAAACTCGAGCCGGAGGGTGAAGATGTCGATGAGCCAACACCTGAAAATCATGAAGAAAAAAATGATGAGGGTGAAAAACCACAGAGc < 2:499646/91‑1 (MQ=255)
aGTGAAACTCGAGCCGGAGGGTGAAGATGTCGATGAGCCAACACCTGAAAATCATGAAGAAAAAAATGATGAGGGTGAAAAACCACAGAGc < 2:479390/91‑1 (MQ=255)
aGTGAAACTCGAGCCGGAGGGTGAAGATGTCGATGAGCCAACACCTGAAAATCATGAAGAAAAAAATGATGAGGGTGAAAAACCACAGAGc < 2:248320/91‑1 (MQ=255)
aaCTCGAGCCGGAGGGTGAAGATGTCGATGAGCCAACACCTGAAAATCATGAAGAAAAAAATGATGAGGGTGAAAAACCACAGAGCATTAc < 1:255814/91‑1 (MQ=255)
aCTCGAGCCGGAGGGTGAAGATGTCGATGAGCCAACACCTGAAAATCATGAAGAAAAAAATGATGAGGGTGAAAAACCACAGAGCATTAcc < 1:628766/91‑1 (MQ=255)
aGCCGGAGGGTGAAGATGTCGATGAGCCAACACCTGAAAATCATGAAGAAAAAAATGATGAGGGTGAAAAACCACAGAGCATTACCAGCAt < 2:77848/91‑1 (MQ=255)
|
AATACAAGGCTGGAAGGCGGAGATGCTCATCCATTAGAGGCCATTGTCACCCGGATGCTTTTGACGAAAGTGAAACTCGAGCCGGAGGATGAAGATGTCGATGAGCCAACACCTGAAAATCATGAAGAAAAAAATGATGAGGGTGAAAAACCACAGAGCATTACCAGCAT > NZ_CP009273/676880‑677049
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ 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
CTGGCCCGTCTTAATACAAGGCTGGAAGGCGGAGATGCTCATCCATTAGAGGCCATTGTCACCCGGATGCTTTTGACGAAAGTGAAACTCGAGCCGGAGGATGAAGATGTCGATGAGCCAACACCTGAAAATCATGAAGAAAAAAATGATGAGGGTGAAAAACCACAGAGCATTACCAGCATTATCA > NZ_CP009273/676868‑677054
|
gatgtgtataagagacagAGGCTGGAAGGCGGAGATGCTCATCCATTAGAGGCCATTGTCGCCCGGATGCTTTTGACGAAAGTGAAACTCGAGCCGGAGGG < SRR3722118.129350/83‑1 (MQ=60)
GGCCCGTCTTAATACAAGGCTGGAAGGCGGAGATGCTCATCCATTAGAGGCCATTGTCACCCGGATGCTTTTGACCAAAGTGAAACTCGAGCCGGAGGGTG > SRR3722118.79292/1‑101 (MQ=60)
GCCCGTCTTAATACAAGGCTGGAAGGCGGAGATGCTCATCCATTAGAGGCCATTGTCACCCGGATGCTTTTGACGAAAGTGAAACTCGAGCCGGAGGGTGA < SRR3722118.332576/101‑1 (MQ=60)
GTCTTAATACAAGGCTGGAAGGCGGAGATGCTCATCCATTAGAGGCCATTGTCACCCGGATGCTTTTGACGAAAGTGAAACTCGAGCCGGAGGGTGAAGAT > SRR3722118.334894/1‑101 (MQ=60)
GTCTTAATACAAGGCTGGAAGGCGGAGATGCTCATCCATTAGAGGCCATTGTCACCCGGATGCTTTTGACGAAAGTGAAACTCGAGCCGGAGGGTGAAGAT > SRR3722118.48371/1‑101 (MQ=60)
TCTTAATACAAGGCTGGAAGGCGGGGATGCTCATCCATTAGAGGCCATTGTCACCCGGATGCTTTTGACGAAAGTGAAACTCGAGCCGGAGGGTGAAGATG > SRR3722118.762291/1‑101 (MQ=60)
TCTTAATACAAGGCTGGAAGGCGGAGATGCTCATCCATTAGAGGCCATTGTCACCCGGATGCTTTTGACGAAAGTGAAACTCGAGCCGGAGGGTGAAGATG > SRR3722118.421446/1‑101 (MQ=60)
TCTTAATACAAGGCTGGAAGGCGGAGATGCTCATCCATTAGAGGCCATTGTCACCCGGATGCTTTTGACGAAAGTGAAACTCGAGCCGGAGGGTGAAGATG > SRR3722118.510247/1‑101 (MQ=60)
ATGCTCATCCATTAGAGGCCATTGTCACCCGGATGCTTTTGACGAAAGTGAAACTCGAGCCGGAGGGTGAAGATGTCGATGAGCCAACACCTGAAAATCAT > SRR3722118.503558/1‑101 (MQ=60)
TCATCCATTAGAGGCCATTGTCACCCGGATGCTTTTGACGAAAGTGAAACTCGAGCCGGAGGGTGAAGATGTCGATGAGCCAACACCTGAAAATCATGAAG < SRR3722118.558624/101‑1 (MQ=60)
CCATTAGAGGCCATTGTCACCCGGATGCTTTTGACGAAAGTGAAACTCGAGCCGGAGGGTGAAGATGTCGATGAGCCAACACCTGAAAATCATGAAGAAAA > SRR3722118.838936/1‑101 (MQ=60)
GGCCATTGTCACCCGGATGCTTTTGACGAAAGTGAAACTCGAGCCGGAGGGTGAAGATGTCGATGAGCCAACACCTGAAAATCATGAAGAAAAAAATGATG > SRR3722118.57529/1‑101 (MQ=60)
ACCCGGATGCTTTTGACGAAAGTGAAACTCGAGCCGGAGGGTGAAGATGTCGATGAGCCAACACCTGAAAATCATGAAGAAAAAAATGATGAGGGTGAAAA < SRR3722118.453183/101‑1 (MQ=60)
GATGCTTTTGACGAAAGTGAAACTCGAGCCGGAGGGTGAAGATGTCGATGAGCCAACACCTGAAAATCATGAAGAAAAAAATGATGAGGGTGAAAAACCAC < SRR3722118.207168/101‑1 (MQ=60)
ACGAAAGTGAAACTCGAGCCGGAGGGTGAAGATGTCGATGAGCCAACACCTGAAAATCATGAAGAAAAAAATGATGAGGGTGAAAAACCACAGAGCATTAC < SRR3722118.432899/101‑1 (MQ=60)
CGAAAGTGAAACTCGAGCCGGAGGGTGAAGATGTCGATGAGCCAACACCTGAAAATCATGAAGAAAAAAATGATGAGGGTGAAAAACCACAGAGCATTACC < SRR3722118.373865/101‑1 (MQ=60)
AACTCGAGCCGGAGGGTGAAGATGTCGATGAGCCAACACCTGAAAATCATGAAGAAAAAAATGATGAGGGTGAAAAACCACAGAGCATTACCAGCATTATC < SRR3722118.261017/101‑1 (MQ=60)
ACTCGAGCCGGAGGGTGAAGATGTCGATGAGCCAACACCTGAAAATCATGAAGAAAAAAATGATGAGGGTGAAAAACCACAGAGCATTACCACCATTATCA < SRR3722118.642290/101‑1 (MQ=60)
|
CTGGCCCGTCTTAATACAAGGCTGGAAGGCGGAGATGCTCATCCATTAGAGGCCATTGTCACCCGGATGCTTTTGACGAAAGTGAAACTCGAGCCGGAGGATGAAGATGTCGATGAGCCAACACCTGAAAATCATGAAGAAAAAAATGATGAGGGTGAAAAACCACAGAGCATTACCAGCATTATCA > NZ_CP009273/676868‑677054
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
