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 |
1,803,201 |
A→G |
V97A (GTC→GCC) |
yniB ← |
YniB family protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 1,803,201 | 0 | A | G | 100.0%
| 101.0
/ NA
| 29 | V97A (GTC→GCC) | yniB | YniB family protein |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (10/19); total (10/19) |
ATGAGTTGATCTTCAACACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGACAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACCAGAATAGAT > NZ_CP009273/1803120‑1803285
|
aTGAGTTGATCTTCAACACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATc < 1:318/90‑1 (MQ=255)
aGTTGATCTTCAACACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAgg > 2:610380/1‑90 (MQ=255)
tGATCTTCAACACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATg < 1:300370/90‑1 (MQ=255)
tCAACACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATc > 2:131856/1‑90 (MQ=255)
cacCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCAccc < 1:308370/90‑1 (MQ=255)
cacCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCAccc < 1:317559/90‑1 (MQ=255)
acCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCa < 1:128657/90‑1 (MQ=255)
ccTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAg > 1:403222/1‑90 (MQ=255)
ttCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGaa > 2:767460/1‑90 (MQ=255)
cccGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACa > 2:419706/1‑90 (MQ=255)
cGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATa < 2:771929/90‑1 (MQ=255)
agaagCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGt > 1:752433/1‑90 (MQ=255)
ggCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCAt > 2:220274/1‑90 (MQ=255)
tCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAAt < 2:81034/90‑1 (MQ=255)
tCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAAt < 2:14233/90‑1 (MQ=255)
cATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGa > 2:82744/1‑62 (MQ=255)
cATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGa < 1:82744/62‑1 (MQ=255)
aTCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTg < 1:459837/90‑1 (MQ=255)
aCCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCgg < 1:632616/90‑1 (MQ=255)
ccGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCggg > 2:167069/1‑90 (MQ=255)
ccGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCggg < 2:403222/90‑1 (MQ=255)
ccGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCggg < 1:480438/90‑1 (MQ=255)
ccGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCggg < 1:425633/90‑1 (MQ=255)
aTCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGtt < 1:672557/90‑1 (MQ=255)
ccTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTtat < 2:116172/90‑1 (MQ=255)
aGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACCAGAATAGa > 2:335120/1‑90 (MQ=255)
gTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACCAGAATAGAt < 2:2972/90‑1 (MQ=255)
gTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACCAGAATAGAt < 2:364181/90‑1 (MQ=255)
gTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACCAGAATAGAt < 1:677781/90‑1 (MQ=255)
|
ATGAGTTGATCTTCAACACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGACAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACCAGAATAGAT > NZ_CP009273/1803120‑1803285
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ 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
ATGAGTTGATCTTCAACACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGACAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACCAGAATAGATTCAAAAAAGGCGTAT > NZ_CP009273/1803120‑1803300
|
ATGAGTTGATCTTCAACACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAA < SRR3722073.332/100‑1 (MQ=60)
TGATCTTCAACACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCC < SRR3722073.306721/100‑1 (MQ=60)
ATCTTCAACACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAG > SRR3722073.411821/1‑100 (MQ=60)
CACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAAC < SRR3722073.314904/100‑1 (MQ=60)
CACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAAC < SRR3722073.324291/100‑1 (MQ=60)
ACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACG < SRR3722073.131355/100‑1 (MQ=60)
CCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGT > SRR3722073.767663/1‑100 (MQ=60)
gatgtgtataagagacaGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAGCATAACGTT < SRR3722073.84611/83‑1 (MQ=60)
ATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGG < SRR3722073.469651/100‑1 (MQ=60)
ACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATAC < SRR3722073.645699/100‑1 (MQ=60)
CCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACC < SRR3722073.434739/100‑1 (MQ=60)
CCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACC < SRR3722073.490654/100‑1 (MQ=60)
ATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACCAGAAT < SRR3722073.686307/100‑1 (MQ=60)
GTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACCAGAATAGATTCAAAAAAGG < SRR3722073.691632/100‑1 (MQ=60)
GCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACCAGAATctgtctcttatacacatct > SRR3722073.31156/1‑81 (MQ=60)
GCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACCAGAATAGATTCAAAAAAGGCGTAT > SRR3722073.744531/1‑100 (MQ=60)
|
ATGAGTTGATCTTCAACACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGACAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACCAGAATAGATTCAAAAAAGGCGTAT > NZ_CP009273/1803120‑1803300
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
