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 I129 R1
|
10 |
20.4 |
1208620 |
95.3% |
1151814 |
84.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
3,754,231 |
G→T |
R127S (CGC→AGC) |
selA ← |
L‑seryl‑tRNA(Sec) selenium transferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 3,754,231 | 0 | G | T | 100.0%
| 140.0
/ NA
| 36 | R127S (CGC→AGC) | selA | L‑seryl‑tRNA(Sec) selenium transferase |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base T (19/17); total (19/17) |
CATTGTTATTGACGATACAGGCATCTTCCGCCCCCGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCGTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAACGCATAGCCTGCGCAACGGCTTCCACCGCGGCTTCCGCCTGTAAA > NZ_CP009273/3754150‑3754316
|
cATTGTTATTGACGATACAGGCATCTTCCGCCCCCGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGcgt < 2:328700/90‑1 (MQ=255)
tGACGATACAGGCATCTTCCGCCCCCGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTcc < 2:161997/86‑1 (MQ=255)
tGACGATACAGGCATCTTCCGCCCCCGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTcc > 1:161997/1‑86 (MQ=255)
aTACAGGCATCTTCCGCCCCCGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCgg < 1:191669/73‑1 (MQ=255)
aTACAGGCATCTTCCGCCCCCGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCgg > 2:191669/1‑73 (MQ=255)
aTACAGGCATCTTCCGCCCCCGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATAc > 1:66653/1‑90 (MQ=255)
aTACAGGCATCTTCCGCCCCCGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATAc > 2:284545/1‑90 (MQ=255)
aTCTTCCGCCCCCGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGAGGGt > 1:425525/1‑90 (MQ=255)
aTCTTCCGCCCCCGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGAGGGt > 2:245025/1‑90 (MQ=255)
tCTTCCGCCCCCGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGAGGGTc < 1:618/90‑1 (MQ=255)
cTTCCGCCCCCGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTcc > 1:555922/1‑71 (MQ=255)
cTTCCGCCCCCGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTcc < 2:555922/71‑1 (MQ=255)
ttCCGCCCCCGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGAGGGTCAc < 2:505389/90‑1 (MQ=255)
ccccGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGa < 2:419846/90‑1 (MQ=255)
ccccGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGa < 2:513164/90‑1 (MQ=255)
ccccGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGa < 2:238575/90‑1 (MQ=255)
ccccGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGa < 1:191387/90‑1 (MQ=255)
tACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAACGCATAg < 1:256627/90‑1 (MQ=255)
ggCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAACGCATAGCCt > 1:456404/1‑90 (MQ=255)
gCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTcc > 2:568809/1‑52 (MQ=255)
gCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTcc < 1:568809/52‑1 (MQ=255)
gCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGa > 1:453265/1‑65 (MQ=255)
gCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGa < 2:453265/65‑1 (MQ=255)
gCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGCGGGTCACTGGCGAACGCATAGCCTg > 1:372961/1‑90 (MQ=255)
gCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAACGCATAGCCTg > 2:113552/1‑90 (MQ=255)
gCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAACGCATAGCCTg > 1:335936/1‑90 (MQ=255)
gcagcTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAACGCATAGCCTGCGCaa < 1:539408/90‑1 (MQ=255)
gcagcTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAACGCATAGCCTGCGCaa > 2:45543/1‑90 (MQ=255)
gcCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAACGCATAGCCTGCGCAACGGCTTcc > 2:525895/1‑90 (MQ=255)
cAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCAAACGCATAGCCTGCGCAACGGCTTCCAc > 2:470693/1‑90 (MQ=255)
cgcCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAACGCATAGCCTGCGCAACGGCTTCCACcgc < 1:367273/90‑1 (MQ=255)
cgcCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAACGCATAGCCTGCGCAACGGCTTCCACcgc < 2:425525/90‑1 (MQ=255)
cgcgATGTCCGCTTCCGGCGTCGTCCAGATCATCCTCGAGGGTCACTGGCGAACGCATAGCCTGCGCAACGGCTTCCACCGCGGCTTCCg < 2:372961/90‑1 (MQ=255)
gcgATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAACGCATAGCCTGCGCAACGGCTTCCACCGCGGCTTCCGc > 1:259542/1‑90 (MQ=255)
aTGTCCGCTTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAACGCATAGCCTGCGCAACGGCTTCCACCGCGGCTTCCGCCTg > 1:33208/1‑90 (MQ=255)
ccGCTTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAACGCATAGCCTGCGCAACGGCTTCCACCGCGGCTTCCGCCTGTaaa > 1:196935/1‑90 (MQ=255)
|
CATTGTTATTGACGATACAGGCATCTTCCGCCCCCGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCGTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAACGCATAGCCTGCGCAACGGCTTCCACCGCGGCTTCCGCCTGTAAA > NZ_CP009273/3754150‑3754316
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 19 ≤ ATCG/ATCG < 29 ≤ 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
CACCGCCGCCGCATTGTTATTGACGATACAGGCATCTTCCGCCCCCGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCGTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAACGCATAGCCTGCGCAACGGCTTCCACCGCGGCTTCCGCCTGTAAA > NZ_CP009273/3754139‑3754316
|
CACCGCCGCCGCATTGTTATTGACGATACAGGCATCTTCCGCCCCCGTAATACGGCACAGCAGCTGCGCCAGCCCCCGATCGCGATGTCCGCTTCCGGCG < SRR3721996.551271/100‑1 (MQ=60)
gagacagGTTATTGACGATACAGGCATCTTCCGCCCCCGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAG < SRR3721996.194842/93‑1 (MQ=60)
GCATTGTTATTGACGATACAGGCATCTTCCGCCCCCGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGAT > SRR3721996.164708/1‑100 (MQ=60)
GTTATTGACGATACAGGCATCTTCCGCCCCCGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATAC > SRR3721996.67776/1‑100 (MQ=60)
ggcagcgtcagatgtgtataagagacagCCGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACT < SRR3721996.579887/72‑1 (MQ=60)
CGATACAGGCATCTTCCGCCCCCGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGAGGGT > SRR3721996.433515/1‑100 (MQ=60)
ATACAGGCATCTTCCGCCCCCGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCtgtctctt > SRR3721996.566760/1‑92 (MQ=60)
TCTTCCGCCCCCGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAAC < SRR3721996.632/100‑1 (MQ=60)
CCCCGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAACGCATAGCC < SRR3721996.194557/100‑1 (MQ=60)
CCCGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAACGCATAGCCT > SRR3721996.465074/1‑100 (MQ=60)
CCGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGCGGGTCACTGGCGAACGCATAGCCTG > SRR3721996.379669/1‑100 (MQ=60)
CCGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCtgtctcttatacac > SRR3721996.461861/1‑86 (MQ=60)
CCGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAACGCATAGCCTG > SRR3721996.341699/1‑100 (MQ=60)
TACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAACGCATAGCCTGCGCAAC < SRR3721996.260786/100‑1 (MQ=60)
GCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAACGCATAGCCTGCGCAACGGCTTCCAC < SRR3721996.549891/100‑1 (MQ=60)
GCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAACGCATAGCCTGCGCAACGGCTTCCACCGCGGCTTCCGC > SRR3721996.263763/1‑100 (MQ=60)
CGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAACGCATAGCCTGCGCAACGGCTTCCACCGCGGCTTCCGCC < SRR3721996.373838/100‑1 (MQ=60)
CCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAACGCATAGCCTGCGCAACGGCTTCCACCGCGGCTTCCGCCTG > SRR3721996.33789/1‑100 (MQ=60)
ATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAACGCATAGCCTGCGCAACGGCTTCCACCGCGGCTTCCGCCTGTAAA > SRR3721996.200192/1‑100 (MQ=60)
|
CACCGCCGCCGCATTGTTATTGACGATACAGGCATCTTCCGCCCCCGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCGTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAACGCATAGCCTGCGCAACGGCTTCCACCGCGGCTTCCGCCTGTAAA > NZ_CP009273/3754139‑3754316
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
