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 I229 R1
|
214 |
17.4 |
943020 |
97.5% |
919444 |
87.1 |
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%
| 52.6
/ NA
| 18 | V97A (GTC→GCC) | yniB | YniB family protein |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (11/7); total (11/7) |
CCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGACAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACC > NZ_CP009273/1803138‑1803276
|
ccTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAg > 1:352178/1‑90 (MQ=255)
ttCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGaa > 2:90882/1‑90 (MQ=255)
ttCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGaa > 2:88436/1‑90 (MQ=255)
ttCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGaa > 1:278630/1‑90 (MQ=255)
ttCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGaa > 2:53046/1‑90 (MQ=255)
ttCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGaa > 2:399134/1‑90 (MQ=255)
ttCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGaa > 2:342528/1‑90 (MQ=255)
tCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAAc > 2:164659/1‑90 (MQ=255)
agaagCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGt > 2:26623/1‑90 (MQ=255)
gcCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGcca < 2:189619/90‑1 (MQ=255)
cTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTaaaa > 2:123010/1‑90 (MQ=255)
cATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAAtt > 1:1806/1‑90 (MQ=255)
ccGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCggg < 1:53046/90‑1 (MQ=255)
ccGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCggg < 1:249956/90‑1 (MQ=255)
aTCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGtt < 1:90882/90‑1 (MQ=255)
aTCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGtt < 1:342528/90‑1 (MQ=255)
aTCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGtt < 1:26623/90‑1 (MQ=255)
gCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATAcc < 2:189822/90‑1 (MQ=255)
|
CCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGACAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACC > NZ_CP009273/1803138‑1803276
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
ATCTTCAACACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGACAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACCAGAAT > NZ_CP009273/1803128‑1803281
|
ATCTTCAACACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAG > SRR3722113.355769/1‑100 (MQ=60)
CTTCAACACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAA > SRR3722113.281105/1‑100 (MQ=60)
CCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATT > SRR3722113.1822/1‑100 (MQ=60)
tgtataagagacagACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATAC < SRR3722113.382659/86‑1 (MQ=60)
CCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACC < SRR3722113.252124/100‑1 (MQ=60)
CCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACC < SRR3722113.53495/100‑1 (MQ=60)
ATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACCAGAAT < SRR3722113.26848/100‑1 (MQ=60)
ATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACCAGAAT < SRR3722113.346019/100‑1 (MQ=60)
ATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACCAGAAT < SRR3722113.91701/100‑1 (MQ=60)
|
ATCTTCAACACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGACAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACCAGAAT > NZ_CP009273/1803128‑1803281
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
