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 I210 R1
|
226 |
19.6 |
1130256 |
95.4% |
1078264 |
84.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
874,237 |
C→T |
L14F (CTT→TTT) |
yliI → |
aldose sugar dehydrogenase YliI |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 874,237 | 0 | C | T | 100.0%
| 94.7
/ NA
| 25 | L14F (CTT→TTT) | yliI | aldose sugar dehydrogenase YliI |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (13/12); total (13/12) |
TCCACTGACTACGCTTTAAGCCAGAGTCAATCCGGAGGCGTTATGCATCGACAATCCTTTTTCCTTGTGCCCCTTATTTGTCTTTCTTCCGCTCTCTGGGCGGCTCCTGCAACGGTAAATGTCGAAGTACTGCAAGACAAACTCGACCATCCCTGGGCACTG > NZ_CP009273/874156‑874317
|
tccACTGACTACGCTTTAAGCCAGAGTCAATCCGGAGGCGTTATGCATTGACAATCCTTTTTCCTTGTGCCCCTTATTTGTTTTTCTTcc > 2:429833/1‑90 (MQ=255)
ccACTGACTACGCTTTAAGCCAGAGTCAATCCGGAGGCGTTATGCATCGACAATCCTTTTTCCTTGTGCCCCTTATTTGTTTTTCTTCCg > 2:514451/1‑90 (MQ=255)
cACTGACTACGCTTTAAGCCAGAGTCAATCCGGAGGCGTTATGCATCGACAATCCTTTTTCCTTGTGCCCCTTATTTGTTTTTCTTCCGc < 1:429833/90‑1 (MQ=255)
cTGACTACGCTTTAAGCCAGAGTCAATCCGGAGGCGTTATGCATCGACAATCCTTTTTCCTTGTGCCCCTTATTTGTTTTTCTTCCGctc < 1:277378/90‑1 (MQ=255)
gACTACGCTTTAAGCCAGAGTCAATCCGGAGGCGTTATGCATCGACAATCCTTTTTCCTTGTGCCCCTTATTTGTTTTTCTTCCGctctc > 2:74029/1‑90 (MQ=255)
gACTACGCTTTAAGCCAGAGTCAATCCGGAGGCGTTATGCATCGACAATCCTTTTTCCTTGTGCCCCTTATTTGTTTTTCTTCCGctctc > 2:438262/1‑90 (MQ=255)
cTACGCTTTAAGCCAGAGTCAATCCGGAGGCGTTATGCATCGACAATCCTTTTTCCTTGTGCCCCTTATTTGTTTTTCTTCCGCTCTCTg > 2:88440/1‑90 (MQ=255)
gCTTTAAGCCAGAGTCAATCCGGAGGCGTTATGCATCGACAATCCTTTTTCCTTGTGCCCCTTATTTGTTTTTCTTCCGCTCTCTGggcg < 2:559557/90‑1 (MQ=255)
tAAGCCAGAGTCAATCCGGAGGCGTTATGCATCGACAATCCTTTTTCCTTGTGCCCCTTATTTGTTTTTCTTCCGCTCTCTGGGCGGCTc > 1:335979/1‑90 (MQ=255)
tAAGCCAGAGTCAATCCGGAGGCGTTATGCATCGACAATCCTTTTTCCTTGTGCCCCTTATTTGTTTTTCTTCCGCTCTCTGGGCGGCTc > 2:153250/1‑90 (MQ=255)
agagTCAATCCGGAGGCGTTATGCATCGACAATCCTTTTTCCTTGTGCCCCTTATTTGTTTTTCTTCCGCTCTCTGGGCGGCTCCTGCaa < 2:315841/90‑1 (MQ=255)
cAATCCGGAGGCGTTATGCATCGACAATCCTTTTTCCTTGTGCCCCTTATTTGTTTTTCTTCCGCTCTCTGGGCGGCTCCTGCAACGGTa > 1:261406/1‑90 (MQ=255)
gTTATGCATCGACAATCCTTTTTCCTTGTGCCCCTTATTTGTTTTTCTTCCGCTCTCTGGGCGGCTCCTGCAACGGTAAATGTCGAAGTa > 1:421217/1‑90 (MQ=255)
aTCGACAATCCTTTTTCCTTGTGCCCCTTATTTGTTTTTCTTCCGCTCTCTGGGCGGCTCCTGCAACGGTAAATGTCGAAGTACTGCAAg > 2:225494/1‑90 (MQ=255)
aTCCTTTTTCCTTGTGCCCCTTATTTGTTTTTCTTCCGCTCTCTGGGCGGCTCCTGCAACGGTAAATGTCGAAGTACTGCAAGACAAACt < 2:393035/90‑1 (MQ=255)
aTCCTTTTTCCTTGTGCCCCTTATTTGTTTTTCTTCCGCTCTCTGGGCGGCTCCTGCAACGGTAAATGTCGAAGTACTGCAAGACAAACt > 1:425614/1‑90 (MQ=255)
ttttCCTTGTGCCCCTTATTTGTTTTTCTTCCGCTCTCTGGGCGGCTCCTGCAACGGTAAATGTCGAAGTACTGCAAGACAAACTCGAcc < 1:88440/90‑1 (MQ=255)
ttttCCTTGTGCCCCTTATTTGTTTTTCTTCCGCTCTCTGGGCGGCTCCTGCAACGGTAAATGTCGAAGTACTGCAAGACAAACTCGAcc < 2:438312/90‑1 (MQ=255)
tttCCTTGTGCCCCTTATTTGTTTTTCTTCCGCTCTCTGGGCGGCTCCTGCAACGGTAAATGTCGAAGTACTGCAAGACAAACTCGAcc < 2:332619/89‑1 (MQ=255)
tttCCTTGTGCCCCTTATTTGTTTTTCTTCCGCTCTCTGGGCGGCTCCTGCAACGGTAAATGTCGAAGTACTGCAAGACAAACTCGAcc > 1:332619/1‑89 (MQ=255)
ttCCTTGTGCCCCTTATTTGTTTTTCTTCCGCTCTCTGGGCGGCTCCTGCAACGGTAAATGTCGAAGTACTGCAAGACAAACTCGACCAt < 1:279399/90‑1 (MQ=255)
ttGTGCCCCTTATTTGTTTTTCTTCCGCTCTCTGGGCGGCTCCTGCAACGGTaa < 2:212721/54‑1 (MQ=255)
ttGTGCCCCTTATTTGTTTTTCTTCCGCTCTCTGGGCGGCTCCTGCAACGGTaa > 1:212721/1‑54 (MQ=255)
tgtgCCCCTTATTTGTTTTTCTTCCGCTCTCTGGGCGGCTCCTGCAACGGTAAATGTCGAAGTACTGCAAGACAAACTCGACCATCCCTg < 1:370563/90‑1 (MQ=255)
cTTATTTGTTTTTCTTCCGCTCTCTGGGCGGCTCCTGCAACGGTAAATGTCGAAGTACTGCAAGACAAACTCGACCATCCCTGGGCACTg < 2:483723/90‑1 (MQ=255)
|
TCCACTGACTACGCTTTAAGCCAGAGTCAATCCGGAGGCGTTATGCATCGACAATCCTTTTTCCTTGTGCCCCTTATTTGTCTTTCTTCCGCTCTCTGGGCGGCTCCTGCAACGGTAAATGTCGAAGTACTGCAAGACAAACTCGACCATCCCTGGGCACTG > NZ_CP009273/874156‑874317
|
| 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
CACTGACTACGCTTTAAGCCAGAGTCAATCCGGAGGCGTTATGCATCGACAATCCTTTTTCCTTGTGCCCCTTATTTGTCTTTCTTCCGCTCTCTGGGCGGCTCCTGCAACGGTAAATGTCGAAGTACTGCAAGACAAACTCGACCATCCCTGGGCACTGGCC > NZ_CP009273/874158‑874320
|
CACTGACTACGCTTTAAGCCAGAGTCAATCCGGAGGCGTTATGCATCGACAATCCTTTTTCCTTGTGCCCCTTATTTGTTTTTCTTCCGCTCTCTGGGCG < SRR3722092.438183/100‑1 (MQ=60)
CTGACTACGCTTTAAGCCAGAGTCAATCCGGAGGCGTTATGCATCGACAATCCTTTTTCCTTGTGCCCCTTATTTGTTTTTCTTCCGCTCTCTGGGCGGC < SRR3722092.282107/100‑1 (MQ=60)
GACTACGCTTTAAGCCAGAGTCAATCCGGAGGCGTTATGCATCGACAATCCTTTTTCCTTGTGCCCCTTATTTGTTTTTCTTCCGCTCTCTGGGCGGCTC > SRR3722092.341935/1‑100 (MQ=60)
AAGCCAGAGTCAATCCGGAGGCGTTATGCATCGACAATCCTTTTTCCTTGTGCCCCTTATTTGTTTTTCTTCCGCTCTCTGGGCGGCTCCTGCAACGGTA > SRR3722092.265713/1‑100 (MQ=60)
ATCCGGAGGCGTTATGCATCGACAATCCTTTTTCCTTGTGCCCCTTATTTGTTTTTCTTCCGCTCTCTGGGCGGCTCCTGCAACGGTAAATGTCGAAGTA > SRR3722092.429373/1‑100 (MQ=60)
TGCATCGACAATCCTTTTTCCTTGTGCCCCTTATTTGTTTTTCTTCCGCTCTCTGGGCGGCTCCTGCAACGGTAAATGTCGAAGTACTGCAAGACAAACT > SRR3722092.433869/1‑100 (MQ=60)
GACAATCCTTTTTCCTTGTGCCCCTTATTTGTTTTTCTTCCGCTCTCTGGGCGGCTCCTGCAACGGTAAATGTCGAAGTACTGCAAGACAAACTCGACCA > SRR3722092.338502/1‑100 (MQ=60)
TCCTTTTTCCTTGTGCCCCTTATTTGTTTTTCTTCCGCTCTCTGGGCGGCTCCTGCAACGGTAAATGTCGAAGTctgtctcttatacacatctgacgctg > SRR3722092.216226/1‑74 (MQ=60)
TTTTCCTTGTGCCCCTTATTTGTTTTTCTTCCGCTCTCTGGGCGGCTCCTGCAACGGTAAATGTCGAAGTACTGCAAGACAAACTCGACCATCCCTGGGC < SRR3722092.89952/100‑1 (MQ=60)
TTCCTTGTGCCCCTTATTTGTTTTTCTTCCGCTCTCTGGGCGGCTCCTGCAACGGTAAATGTCGAAGTACTGCAAGACAAACTCGACCATCCCTGGGCAC < SRR3722092.284187/100‑1 (MQ=60)
TGTGCCCCTTATTTGTTTTTCTTCCGCTCTCTGGGCGGCTCCTGCAACGGTAAATGTCGAAGTACTGCAAGACAAACTCGACCATCCCTGGGCACTGGCC < SRR3722092.377534/100‑1 (MQ=60)
|
CACTGACTACGCTTTAAGCCAGAGTCAATCCGGAGGCGTTATGCATCGACAATCCTTTTTCCTTGTGCCCCTTATTTGTCTTTCTTCCGCTCTCTGGGCGGCTCCTGCAACGGTAAATGTCGAAGTACTGCAAGACAAACTCGACCATCCCTGGGCACTGGCC > NZ_CP009273/874158‑874320
|
| 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: ‑ |
