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 I195 R1
|
222 |
27.1 |
1551108 |
96.0% |
1489063 |
86.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
2,849,816 |
T→C |
E117G (GAA→GGA) |
ygbA ← |
nitrous oxide‑stimulated promoter family protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 2,849,816 | 0 | T | C | 100.0%
| 85.4
/ NA
| 25 | E117G (GAA→GGA) | ygbA | nitrous oxide‑stimulated promoter family protein |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (10/15); total (10/15) |
TCACGGATGAAGCGGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATTCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCACGGTTAAGATCGG > NZ_CP009273/2849731‑2849901
|
tCACGGATGAAGCGGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATg < 1:232622/90‑1 (MQ=255)
cACGGATGAAGCGGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGa > 2:27037/1‑90 (MQ=255)
cACGGATGAAGCGGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGa > 1:534144/1‑90 (MQ=255)
ggCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGa < 1:604632/90‑1 (MQ=255)
aaaTCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCgg > 2:691103/1‑90 (MQ=255)
aaaTCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCgg < 2:579198/90‑1 (MQ=255)
aaTCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGc < 2:296048/90‑1 (MQ=255)
aTCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCa < 2:478538/90‑1 (MQ=255)
gCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTc < 1:74319/90‑1 (MQ=255)
gCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTc > 1:443210/1‑90 (MQ=255)
gCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTc < 1:254726/90‑1 (MQ=255)
tGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGc > 1:262816/1‑90 (MQ=255)
cAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCtt > 1:473136/1‑90 (MQ=255)
gACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCgatg < 1:774642/90‑1 (MQ=255)
gATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCgatgagat > 1:407664/1‑90 (MQ=255)
aTCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCgatgagatg < 2:573906/90‑1 (MQ=255)
tGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACg < 1:736123/90‑1 (MQ=255)
gCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGc < 2:676971/90‑1 (MQ=255)
ccTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCa < 2:262816/90‑1 (MQ=255)
ccTGTCCGGCATACTATCCATGAGGTTTCTTCGGACGATATTTTTCCGGCAGTTTTGGCACCGGACGCTTGTCATCGATGAGATGACGCa < 1:122135/90‑1 (MQ=255)
tCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGc > 1:656250/1‑85 (MQ=255)
tCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGc < 2:656250/85‑1 (MQ=255)
ccGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCACGGtt < 2:200897/90‑1 (MQ=255)
ggCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCACGGTTaa > 2:84463/1‑90 (MQ=255)
cTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTAGCACCGGACGCTTGTCATCGATGAGATGACGCACGGTTAAGATCgg > 1:42007/1‑90 (MQ=255)
|
TCACGGATGAAGCGGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATTCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCACGGTTAAGATCGG > NZ_CP009273/2849731‑2849901
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GCACGACCCTGCTGTCACGGATGAAGCGGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATTCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCACGGTTAAGATCGGATGACGCCACAGC > NZ_CP009273/2849717‑2849914
|
GCACGACCCTGCTGTCACGGATGAAGCGGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATC < SRR3722073.127588/100‑1 (MQ=60)
CACGACCCTGCTGTCACGGATGAAGCGGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCC < SRR3722073.48652/100‑1 (MQ=60)
CACGACCCTGCTGTCACGGATGAAGCGGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCC < SRR3722073.630312/100‑1 (MQ=60)
ACCCTGCTGTCACGGATGAAGCGGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGA > SRR3722073.545289/1‑100 (MQ=60)
ataagagacagCGGATGAAGCGGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAG < SRR3722073.13956/89‑1 (MQ=60)
TCACGGATGAAGCGGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTC < SRR3722073.237484/100‑1 (MQ=60)
GGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTC < SRR3722073.617218/100‑1 (MQ=60)
TGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTC > SRR3722073.452692/1‑100 (MQ=60)
GCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGA < SRR3722073.260075/100‑1 (MQ=60)
GCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGA < SRR3722073.76043/100‑1 (MQ=60)
TTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGC > SRR3722073.268361/1‑100 (MQ=60)
GATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTT > SRR3722073.483203/1‑100 (MQ=60)
TTGCCGGACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGAT > SRR3722073.416372/1‑100 (MQ=60)
GACAGATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCA < SRR3722073.790250/100‑1 (MQ=60)
GATCTGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCACGGT > SRR3722073.669711/1‑100 (MQ=60)
TGCCTGTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCACGGTTAAG < SRR3722073.751016/100‑1 (MQ=60)
CCTGTCCGGCATACTATCCATGAGGTTTCTTCGGACGATATTTTTCCGGCAGTTTTGGCACCGGACGCTTGTCATCGATGAGATGACGCACGGTTAAGAT < SRR3722073.124724/100‑1 (MQ=60)
GTCCGGCATACTATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTAGCACCGGACGCTTGTCATCGATGAGATGACGCACGGTTAAGATCGG > SRR3722073.43023/1‑100 (MQ=60)
ATCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCACGGTTAAGATCGGATGACGCCACAG < SRR3722073.772346/100‑1 (MQ=60)
TCCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCACGGTTAAGATCGGATGACGCCACAGC < SRR3722073.663054/100‑1 (MQ=60)
|
GCACGACCCTGCTGTCACGGATGAAGCGGCTGGGAATTGATAAATCGGCATTGATTTAACTGCAAATTGCCGGACAGATCTGCCTGTCCGGCATACTATTCATGAGGTTTTTTCGGACGATATTTTTCCGGCAGTTCTGGCACCGGACGCTTGTCATCGATGAGATGACGCACGGTTAAGATCGGATGACGCCACAGC > NZ_CP009273/2849717‑2849914
|
| 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: ‑ |
