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 F3 I96 R1
|
172 |
34.7 |
2005794 |
96.2% |
1929573 |
85.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
4,306,692 |
A→T |
I115N (ATC→AAC) |
phnM ← |
alpha‑D‑ribose 1‑methylphosphonate 5‑triphosphate diphosphatase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 4,306,692 | 0 | A | T | 100.0%
| 97.1
/ NA
| 27 | I115N (ATC→AAC) | phnM | alpha‑D‑ribose 1‑methylphosphonate 5‑triphosphate diphosphatase |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base T (13/14); total (13/14) |
GTGGTGTGATGCGGCAGTTCGCAGCGCAGATGCAGACGGTGCTCGGCGCGGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGATCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTCGCGCACGTCGCCAATTGCCACGGCATCCAGTACGGTGGTGATGCCGCT > NZ_CP009273/4306605‑4306777
|
gtggtgTGATGCGGCAGTTCGCAGCGCAGATGCAGACGGTGCTCGGCGCGGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGttc > 2:850380/1‑90 (MQ=255)
gtgtGATGCGGCAGTTCGCAGCGCAGATGCAGACGGTGCTCGGCGCGGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGttcatc < 1:567969/90‑1 (MQ=255)
aTGCGGCAGTTCGCAGCGCAGATGCAGACGGTGCTCGGCGCGGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGTTCATCTtctc > 2:671553/1‑90 (MQ=255)
gCGGCAGTTCGCAGCGCAGATGCAGACGGTGCTCGGCGCGGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGTTCAtct > 2:927810/1‑84 (MQ=255)
gCGGCAGTTCGCAGCGCAGATGCAGACGGTGCTCGGCGCGGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGTTCAtct < 1:927810/84‑1 (MQ=255)
cGGCAGTTCGCAGCGCAGATGCAGACGGTGCTCGGCGCGGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGTTCATCTTCTCCAg < 1:850380/90‑1 (MQ=255)
agcgcagATGCAGACGGTGCTCGGCGCGGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGTTCATCTTCTCCAGATTCTCCAGcc < 2:93442/90‑1 (MQ=255)
aGACGGTGCTCGGCGCGGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGccgccg > 2:691518/1‑90 (MQ=255)
aGACGGTGCTCGGCGCGGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGccgccg > 2:729854/1‑90 (MQ=255)
ggTGCTCGGCGCGGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTcgc < 2:341964/90‑1 (MQ=255)
gTGCTCGGCGCGGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTcgcg > 2:480798/1‑90 (MQ=255)
gTGCTCGGCGCGGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTcgcg > 1:444210/1‑90 (MQ=255)
gTGCTCGGCGCGGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTcgcg > 1:697375/1‑90 (MQ=255)
gTGCTCGGCGCGGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTcgcg > 2:872183/1‑90 (MQ=255)
gTGCTCGGCGCGGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTcgcg > 1:862692/1‑90 (MQ=255)
gCTCGGCGCGGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTCGCGCa < 1:800006/90‑1 (MQ=255)
cTCGGCGCGGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTCGCGCAc < 1:325015/90‑1 (MQ=255)
cGGCGCGGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTCGCGCACGt > 1:198005/1‑90 (MQ=255)
cgGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTCGCGCACGTCGCCa < 1:405935/90‑1 (MQ=255)
cgGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTCGCGCACGTCGCCa < 2:290494/90‑1 (MQ=255)
cgGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTCGCGCACGTCGCCa > 2:982394/1‑90 (MQ=255)
gTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTCGCGCACGTCGCCAAt > 1:297751/1‑90 (MQ=255)
gccgcGTTTCTGCGTCTCTTCGATGGCGTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTCGCGCACGTCGCCAATTGCCAc < 1:858371/90‑1 (MQ=255)
cgcgTTTCTGCGTCTCTTCGATGGCGTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTCGCGCACGTCGCCAATTGCCACgg < 1:691518/90‑1 (MQ=255)
cgTTTCTGCGTCTCTTCGATGGCGTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTCGCGCACGTCGCCAATTGCCACGGCa < 1:575792/90‑1 (MQ=255)
ttCTGCGTCTCTTCGATGGCGTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTCGCGCACGTCGCCAATTGCCACGGCATcc < 2:239013/90‑1 (MQ=255)
gTCTCTTCGATGGCGTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTCGCGCACGTCGCCAATTGCCACGGCATCCAGTACg < 1:729854/90‑1 (MQ=255)
gATGGCGTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTCGCGCACGTCGCCAATTGCCACGGCATcc > 2:321156/1‑76 (MQ=255)
gATGGCGTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTCGCGCACGTCGCCAATTGCCACGGCATcc < 1:321156/76‑1 (MQ=255)
gttgttCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTCGCGCACGTCGCCAATTGCCACGGCATCCAGTACGGTGGTGATGCCGCt > 1:894489/1‑90 (MQ=255)
|
GTGGTGTGATGCGGCAGTTCGCAGCGCAGATGCAGACGGTGCTCGGCGCGGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGATCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTCGCGCACGTCGCCAATTGCCACGGCATCCAGTACGGTGGTGATGCCGCT > NZ_CP009273/4306605‑4306777
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 31 ≤ 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
CAGCGGCAGCGTGGTGTGATGCGGCAGTTCGCAGCGCAGATGCAGACGGTGCTCGGCGCGGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGATCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTCGCGCACGTCGCCAATTGCCACGGCATCCAGTACGGTGGTGATGCCGCTCGCCACCATC > NZ_CP009273/4306595‑4306787
|
caccacgctgccgctgtttgaaaaactggtGCAGCGCAGATGCAGACGGTGCTCGGCGCGGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGTTC < SRR3722236.303248/70‑1 (MQ=60)
GCAGCGTGGTGTGATGCGGCAGTTCGCAGCGCAGATGCAGACGGTGCTCGGCGCGGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGTTCATCTT < SRR3722236.120746/100‑1 (MQ=60)
tcgtcggcagcgtcagatgtgtataagagaCAGATGCAGACGGTGCTCGGCGCGGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGTTCATCTTC < SRR3722236.139174/70‑1 (MQ=60)
GTGTGATGCGGCAGTTCGCAGCGCAGATGCAGACGGTGCTCGGCGCGGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGTTCATCTTCTCCAGAT < SRR3722236.576711/100‑1 (MQ=60)
TGTGATGCGGCAGTTCGCAGCGCAGATGCAGACGGTGCTCGGCGCGGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGTTCATCTTCTCCAGATT < SRR3722236.944193/100‑1 (MQ=60)
CGGCAGTTCGCAGCGCAGATGCAGACGGTGCTCGGCGCGGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGTTCATCTTCTCCAGATTCTCCAGC < SRR3722236.865257/100‑1 (MQ=60)
GATGCAGACGGTGCTCGGCGCGGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTCGCG > SRR3722236.877822/1‑100 (MQ=60)
GATGCAGACGGTGCTCGGCGCGGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTCGCG > SRR3722236.450578/1‑100 (MQ=60)
GATGCAGACGGTGCTCGGCGCGGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTCGCG > SRR3722236.709132/1‑100 (MQ=60)
AGACGGTGCTCGGCGCGGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTCGCGCACGT > SRR3722236.200953/1‑100 (MQ=60)
GCTCGGCGCGGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTCGCGCACGTCGCCAAT > SRR3722236.302059/1‑100 (MQ=60)
GCTCGGCGCGGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTCGCGCACGTCGCCAAT < SRR3722236.813894/100‑1 (MQ=60)
CTCGGCGCGGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTCGCGCACGTCGCCAATT < SRR3722236.329658/100‑1 (MQ=60)
CGGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTCGCGCACGTCGCCAATTGCCACGG < SRR3722236.411615/100‑1 (MQ=60)
GCCGCGTTTCTGCGTCTCTTCGATGGCGTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTCGCGCACGTCGCCAATTGCCACGGCATCCAGT < SRR3722236.873415/100‑1 (MQ=60)
CGCGTTTCTGCGTCTCTTCGATGGCGTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTCGCGCACGTCGCCAATTGCCACGGCATCCAGTAC < SRR3722236.703158/100‑1 (MQ=60)
CGTTTCTGCGTCTCTTCGATGGCGTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTCGCGCACGTCGCCAATTGCCACGGCATCCAGTACGG < SRR3722236.584665/100‑1 (MQ=60)
acagGCGTCTCTTCGATGGCGTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTCGCGCACGTCGCCAATTGCCACGGCATCCAGTACGGTGG < SRR3722236.325750/96‑1 (MQ=60)
GTCTCTTCGATGGCGTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTCGCGCACGTCGCCAATTGCCACGGCATCCAGTACGGTGGTGATGC < SRR3722236.742258/100‑1 (MQ=60)
CTTCGATGGCGTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTCGCGCACGTCGCCAATTGCCACGGCATCCAGTACGGTGGTGATGCCGCT > SRR3722236.910240/1‑100 (MQ=60)
GCGTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTCGCGCACGTCGCCAATTGCCACGGCATCCAGTACctgtctcttatacacatctgacg > SRR3722236.817640/1‑77 (MQ=60)
GTTGTTCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTCGCGCACGTCGCCAATTGCCACGGCATCCAGTACGGTGGTGATGCCGCTCGCCACCATC > SRR3722236.769216/1‑100 (MQ=60)
|
CAGCGGCAGCGTGGTGTGATGCGGCAGTTCGCAGCGCAGATGCAGACGGTGCTCGGCGCGGTTGACGCCGCGTTTCTGCGTCTCTTCGATGGCGTTGATCATCTTCTCCAGATTCTCCAGCCGATCGCCGCCGTCGCGCACGTCGCCAATTGCCACGGCATCCAGTACGGTGGTGATGCCGCTCGCCACCATC > NZ_CP009273/4306595‑4306787
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
