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 I228 R1
|
214 |
26.5 |
1448192 |
97.1% |
1406194 |
86.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
1,812,807 |
(C)7→8 |
intergenic (‑50/+55) |
celF ← / ← chbR |
6‑phospho‑beta‑glucosidase/transcriptional regulator ChbR |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 1,812,800 | 1 | . | C | 100.0%
| 81.3
/ NA
| 25 | intergenic (‑43/+62) | celF/chbR | 6‑phospho‑beta‑glucosidase/transcriptional regulator ChbR |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (15/10); total (15/10) |
TAGCTGCTCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTG‑‑CCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATTCAGTCAAT > NZ_CP009273/1812711‑1812883
|
taGCTGCTCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTg > 1:151054/1‑90 (MQ=255)
taGCTGCTCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTg > 2:532655/1‑90 (MQ=255)
gctCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTG‑‑ccccc > 1:136438/1‑90 (MQ=255)
gctCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTG‑‑ccccc > 2:11439/1‑90 (MQ=255)
gctCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTG‑‑ccccc > 1:230767/1‑90 (MQ=255)
cccGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTG‑‑cccccccc < 2:679901/90‑2 (MQ=255)
cccGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTG‑‑cccccccc < 1:699209/90‑2 (MQ=255)
cGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTG‑‑ccccccccgg > 1:18201/1‑87 (MQ=255)
caccaATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGC‑CCCCCCCGGACa > 2:140421/1‑90 (MQ=255)
acgacTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGC‑CCCCCCCGGACATAAATAATCCa > 2:84359/1‑90 (MQ=255)
acgacTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGC‑CCCCCCCGGACATAAATAATCCa < 2:624206/90‑1 (MQ=255)
ttttAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGC‑CCCCCCCGGACATAAATAATCCAGCAAc < 2:64243/90‑1 (MQ=255)
ttttAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGC‑CCCCCCCGGACATAAATAATCCAGCAAc < 2:122623/90‑1 (MQ=255)
ttttAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGC‑CCCCCCCGGACATAAATAATCCAGCAAc < 2:286740/90‑1 (MQ=255)
aaTTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGC‑CCCCCCCGGACATAAATAATCCAGCAACAGGa < 2:367935/90‑1 (MQ=255)
aTTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGC‑CCCCCCCGGACATAAATAATCCAGCAACAGGAc < 2:307372/90‑1 (MQ=255)
aTTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGC‑CCCCCCCGGACATAAATAATCCAGCAACAGGAc < 1:521021/90‑1 (MQ=255)
tAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGC‑CCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAAt < 2:352974/90‑1 (MQ=255)
ctcCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCa > 2:626461/1‑90 (MQ=255)
ctcCCTTCAGTACAGAATACTGATATCTGGCATATCTGC‑CCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAg > 2:422191/1‑90 (MQ=255)
gAATACTGATATCTGGCATATCTGC‑CCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTAc > 1:430912/1‑90 (MQ=255)
gAATACTGATATCTGGCATATCTGC‑CCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTAc > 1:359815/1‑90 (MQ=255)
aTACTGATATCTGGCATATCTGC‑CCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTg > 2:426771/1‑90 (MQ=255)
aTACTGATATCTGGCATATCTGC‑CCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTg > 1:350360/1‑90 (MQ=255)
cTGATATCTGGCATATCTGC‑CCCCCCCGGACATAAATAATCCAGCAACAGGACAGat > 2:156616/1‑57 (MQ=255)
cTGATATCTGGCATATCTGC‑CCCCCCCGGACATAAATAATCCAGCAACAGGACAGat < 1:156616/57‑1 (MQ=255)
cTGATATCTGGCATATCTGC‑CCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGAtt > 1:619810/1‑90 (MQ=255)
atCTGGCATATCTGC‑CCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAAtt > 2:400666/1‑90 (MQ=255)
atCTGGCATATCTGC‑CCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAAtt > 2:76726/1‑90 (MQ=255)
tCTGGCATATCTGC‑CCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAAttt > 2:75562/1‑89 (MQ=255)
ggCATATCTGC‑CCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATTCAGt > 1:358100/1‑90 (MQ=255)
atatCTGC‑CCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATTCAGTCaa > 2:18437/1‑90 (MQ=255)
tatCTGC‑CCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATTCAGTCAAt < 2:95848/90‑1 (MQ=255)
|
TAGCTGCTCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTG‑‑CCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATTCAGTCAAT > NZ_CP009273/1812711‑1812883
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ 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
TAGCTGCTCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTG‑CCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATTCAGTCAATTTCTTACGATAGCTCTTAGG > NZ_CP009273/1812711‑1812903
|
TAGCTGCTCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTG‑CCCCCCCcgg > SRR3722112.18430/1‑97 (MQ=60)
CCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAAT < SRR3722112.710135/100‑1 (MQ=60)
ATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGA < SRR3722112.528686/100‑1 (MQ=60)
cgtcagatgtgtataagagacagGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTG < SRR3722112.158534/77‑1 (MQ=60)
CTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTAC > SRR3722112.364410/1‑100 (MQ=60)
CTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTAC > SRR3722112.436761/1‑100 (MQ=60)
TCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTG > SRR3722112.354773/1‑100 (MQ=60)
GTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATT > SRR3722112.629377/1‑100 (MQ=60)
aaaacctaaaATCTGCCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATT < SRR3722112.435278/90‑1 (MQ=60)
ACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATTCAGT > SRR3722112.362672/1‑100 (MQ=60)
CCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATTCAGTCAATTTCTTACGATAGCTCTTAG < SRR3722112.427808/100‑1 (MQ=60)
CCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATTCAGTCAATTTCTTACGATAGCTCTTAGG < SRR3722112.457503/100‑1 (MQ=60)
CCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGCATAACGACTTACTGATTAAATTCAGTCAATTTCTTACGATAGCTCTTAGG > SRR3722112.835/1‑100 (MQ=60)
|
TAGCTGCTCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTG‑CCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATTCAGTCAATTTCTTACGATAGCTCTTAGG > NZ_CP009273/1812711‑1812903
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
