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 |
858,772 |
T→C |
I66V (ATT→GTT) |
ybiY ← |
glycyl‑radical enzyme activating protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 858,772 | 0 | T | C | 100.0%
| 116.2
/ NA
| 31 | I66V (ATT→GTT) | ybiY | glycyl‑radical enzyme activating protein |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (12/19); total (12/19) |
GTGTCGGACAGCAGTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGCAAACCATTCAGCGCGCGCTCAATCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGCGTCATACAGCAGATCCTGCGTGCGGGCGC > NZ_CP009273/858685‑858855
|
gtgtCGGACAGCAGTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGCAAACCATTCAGCGCGCGCTCAACCAc > 1:196604/1‑91 (MQ=255)
gtgtCGGACAGCAGTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGCAAACCATTCAGCGCGCGCTCAACCAc > 2:716535/1‑91 (MQ=255)
gtgtCGGACAGCAGTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGCAAACCATTCAGCGCGCGCTCAACCAc > 2:198065/1‑91 (MQ=255)
gtggCGGACAGCGGTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTCTTCCCGATGAATAAGCAAACCATTCAGCGCGCGCTCAACCAc > 1:813518/1‑91 (MQ=255)
cagcagTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGCAAACCATTCAGCGCGCGCTCAACCACTTCCGgcg < 2:442593/91‑1 (MQ=255)
cagcagTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGCAAACCATTCAGCGCGCGCTCAACCACTTCCGgcg < 2:229886/91‑1 (MQ=255)
agcagTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGCAAACCATTCAGCGCGCGCTCAACCACTTCCGgcgc < 2:512232/91‑1 (MQ=255)
agcagTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGCAAACCATTCAGCGCGCGCTCAACCACTTCCGgcgc < 2:374816/91‑1 (MQ=255)
agcagTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGCAAACCATTCAGCGCGCGCTCAACCACTTCCGgcgc < 1:96752/91‑1 (MQ=255)
gcagTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGCAAACCATTCAGCGCGCGCTCAACCACTTCCGGcgcg > 1:213454/1‑91 (MQ=255)
ttAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCCATGAATAAGCAAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAgc > 2:561235/1‑91 (MQ=255)
aTGCTCCGGGGTTAACTTTTCCCGATGAATAAGCAAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGc < 2:706677/89‑1 (MQ=255)
aTGCTCCGGGGTTAACTTTTCCCGATGAATAAGCAAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGc > 1:706677/1‑89 (MQ=255)
aTGCTCCGGGGTTAACTTTTCCCGATGAATAAGCAAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAg < 2:182491/91‑1 (MQ=255)
aTGCTCCGGGGTTAACTTTTCCCGATGAATAAGCAAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAg < 2:229728/91‑1 (MQ=255)
aTGCTCCGGGGTTAACTTTTCCCGATGAATAAGCAAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAg < 1:314476/91‑1 (MQ=255)
aTGCTCCGGGGTTAACTTTTCCCGATGAATAAGCAAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAg < 1:716535/91‑1 (MQ=255)
ccGGGGTTAACTTTTCCCGATGAATAAGCAAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTc > 2:169939/1‑91 (MQ=255)
tttCCCGATGAATAAGCAAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCg < 2:176564/91‑1 (MQ=255)
tttCCCGATGAATAAGCAAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCg < 2:815767/91‑1 (MQ=255)
cccGATGAATAAGCAAACCATTCGGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGc < 2:342238/91‑1 (MQ=255)
cccGATGAATAAGCAAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGc < 1:10781/91‑1 (MQ=255)
cccGATGAATAAGCAAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGc < 1:33124/91‑1 (MQ=255)
aCCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGCGTCATACAGCAGATcc < 2:202796/91‑1 (MQ=255)
cATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGCGTCATACAGCAGATCCtg > 2:661758/1‑91 (MQ=255)
gcgcgcgcTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAg > 1:787340/1‑47 (MQ=255)
gcgcgcgcTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAg < 2:787340/47‑1 (MQ=255)
gcgcgcTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGc > 1:562213/1‑65 (MQ=255)
gcgcgcTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGc < 2:562213/65‑1 (MQ=255)
cgcgcTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGCGTCATa < 2:426211/70‑1 (MQ=255)
cgcgcTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGCGTCATa > 1:426211/1‑70 (MQ=255)
cgcTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGCGTCATACAGCAGATCCTGCGTGCGGgcgc < 1:537557/91‑1 (MQ=255)
cgcTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGCGTCATACAGCAGATCCTGCGTGCGGgcgc > 1:322618/1‑91 (MQ=255)
|
GTGTCGGACAGCAGTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGCAAACCATTCAGCGCGCGCTCAATCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGCGTCATACAGCAGATCCTGCGTGCGGGCGC > NZ_CP009273/858685‑858855
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
CGGTTAATGCCTGTGTCGGACAGCAGTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGCAAACCATTCAGCGCGCGCTCAATCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGCGTCATACAGCAGATCCTGCGTGCGGGCGCGGCTTTCCGG > NZ_CP009273/858673‑858865
|
CGGTTAATGCCTGTGTCGGACAGCAGTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGCAAACCATTCAGCGCGCGCTCAACC > SRR3722118.206848/1‑101 (MQ=60)
CGGTTAATGCCTGTGTCGGACAGCAGTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGCAAACCATTCAGCGCGCGCTCAACC > SRR3722118.42430/1‑101 (MQ=60)
GTTAATGCCTGTGTCGGACAGCAGTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGCAAACCATTCAGCGCGCGCTCAACCAC > SRR3722118.200502/1‑101 (MQ=60)
GTTAATGCCTGTGGCGGACAGCGGTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTCTTCCCGATGAATAAGCAAACCATTCAGCGCGCGCTCAACCAC > SRR3722118.831413/1‑101 (MQ=60)
GTGTCGGACAGCAGTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGCAAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCG > SRR3722118.217745/1‑101 (MQ=60)
AGCAGTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGCAAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCG < SRR3722118.98520/101‑1 (MQ=60)
ACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGCAAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAG > SRR3722118.722116/1‑101 (MQ=60)
ATGCTCCGGGGTTAACTTTTCCCGATGAATAAGCAAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGAC < SRR3722118.320952/101‑1 (MQ=60)
ATGCTCCGGGGTTAACTTTTCCCGATGAATAAGCAAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCACAC < SRR3722118.732252/101‑1 (MQ=60)
CCCGATGAATAAGCAAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGCGTCATACAGC < SRR3722118.33718/101‑1 (MQ=60)
CCCGATGAATAAGCAAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGCGTCATACAGC < SRR3722118.10996/101‑1 (MQ=60)
AAACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACctgtctcttatacacatctccgagcccacgagac > SRR3722118.804624/1‑67 (MQ=60)
ACCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGCGTCATACAGCctgtctcttatacaca > SRR3722118.574133/1‑85 (MQ=60)
CCATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGCGTCATACAGCAGATCCctgtctcttat > SRR3722118.435206/1‑90 (MQ=60)
ATTCAGCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGCGTCATACAGCAGATCCTGCGTGCGGGCGC > SRR3722118.329261/1‑101 (MQ=60)
GCGCGCGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGCGTCATACAGCAGATCCTGCGTGCGGGCGCGGCTT > SRR3722118.393219/1‑101 (MQ=60)
CGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGCGTCATACAGCAGATCCTGCGTGCGGGCGCGGCTTTCCGG < SRR3722118.548963/101‑1 (MQ=60)
CGCTCAACCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGCGTCATACAGCAGATCCTGCGTGCGGGCGCGGCTTTCCGG > SRR3722118.107059/1‑101 (MQ=60)
|
CGGTTAATGCCTGTGTCGGACAGCAGTCGGTTAACGCCGTCAGATGCTCCGGGGTTAACTTTTCCCGATGAATAAGCAAACCATTCAGCGCGCGCTCAATCACTTCCGGCGCGGCCTTAGCGCACAGCTCGCAGCCTTCCAGACACAGTCGTGCGTCATACAGCAGATCCTGCGTGCGGGCGCGGCTTTCCGG > NZ_CP009273/858673‑858865
|
| 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: ‑ |
