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 I96 R1
|
172 |
34.7 |
2005794 |
96.2% |
1929573 |
85.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
1,662,649 |
T→G |
H58P (CAC→CCC) |
mlc ← |
DNA‑binding transcriptional repressor Mlc |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 1,662,649 | 0 | T | G | 100.0%
| 104.3
/ NA
| 31 | H58P (CAC→CCC) | mlc | DNA‑binding transcriptional repressor Mlc |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base G (14/17); total (14/17) |
GTGCCAGGCTTCAGTTTCAACCACCAGCCCCACCGCCGGACGGCCACGGTTCCCCGCTTCTTTGATTTCCAGCTCTTGCACCAGGTGTGCTTCGAGCATCTCACGGACAATTTTAGTGATACTGGCAGGAGCCAGTTGCGCCAGACGGGAAAGATCGATACGCGAGACTGGA > NZ_CP009273/1662564‑1662735
|
gTGCCAGGCTTCAGTTTCAACCACCAGCCCCACCGCCGGACGGCCACGGTTCCCCGCTTCTTTGATTTCCAGCTCTTGCACCAGGGGTGc > 1:24975/1‑90 (MQ=255)
gTGCCAGGCTTCAGTTTCAACCACCAGCCCCACCGCCGGACGGCCACGGTTCCCCGCTTCTTTGATTTCCAGCTCTTGCACCAGGGGTGc > 1:548153/1‑90 (MQ=255)
gCCAGGCTTCAGTTTCAACCACCAGCCCCACCGCCGGACGGCCACGGTTCCCCGCTTCTTTGATTTCCAGCTCTTGCACCAGGGGTGCtt > 2:666216/1‑90 (MQ=255)
gCCAGGCTTCAGTTTCAACCACCAGCCCCACCGCCGGACGGCCACGGTTCCCCGCTTCTTTGATTTCCAGCTCTTGCACCAGGGGTGCtt > 1:693530/1‑90 (MQ=255)
gCCAGGCTTCAGTTTCAACCACCAGCCCCACCGCCGGACGGCCACGGTTCCCCGCTTCTTTGATTTCCAGCTCTTGCACCAGGGGTGCtt < 2:465759/90‑1 (MQ=255)
aGGCTTCAGTTTCAACCACCAGCCCCACCGCCGGACGGCCACGGTTCCCCGCTTCTTTGATTTCCAGCTCTTGCACCAGGGGTGCTTCGa > 2:78299/1‑90 (MQ=255)
ggCTTCAGTTTCAACCACCAGCCCCACCGCCGGACGGCCACGGTTCCCCGCTTCTTTGATTTCCAGCTCTTGCACCAGGGGTGCTTCGAg > 2:319541/1‑90 (MQ=255)
cTTCAGTTTCAACCCCCAGCCCCACCGCCGGACGGCCACGGTTCCCCGCTTCTTTGATTTCCAGCTCTTGCACCAGGGGTGCTTCGAGCa < 1:989840/90‑1 (MQ=255)
cTTCAGTTTCAACCACCAGCCCCACCGCCGGACGGCCACGGTTCCCCGCTTCTTTGATTTCCAGCTCTTGCACCAGGGGTGCTTCGAGCa < 2:455404/90‑1 (MQ=255)
tCAGTTTCAACCACCAGCCCCACCGCCGGACGGCCACGGTTCCCCGCTTCTTTGATTTCCAGCTCTTGCACCAGGGGTGCTTCGAGCAtc > 2:320027/1‑90 (MQ=255)
aaCCACCAGCCCCACCGCCGGACGGCCACGGTTCCCCGCTTCTTTGATTTCCAGCTCTTGCACCAGGGGTGCTTCGAGCATCTCACGGAc < 2:71914/90‑1 (MQ=255)
ccaGCCCCACCGCCGGACGGCCACGGTTCCCCGCTTCTTTGATTTCCAGCTCTTGCACCAGGGGTGCTTCGAGCATCTCACGGACAAttt > 1:961770/1‑90 (MQ=255)
gCCCCCCCGCCGGACGGCCACGGTTCCCCGCTTCTTTGATTTCCAGCTCTTGCACCAGGGGTGCTTCGAGCATCTCACGGACAATTTTAg < 2:17725/90‑1 (MQ=255)
ccACCGCCGGACGGCCACGGTTCCCCGCTTCTTTGATTTCCAGCTCTTGCACCAGGGGTGCTTCGAGCATCTCACGGACAATTTTAGTGa < 1:200484/90‑1 (MQ=255)
cACCGCCGGACGGCCACGGTTCCCCGCTTCTTTGATTTCCAGCTCTTGCACCAGGGGTGCTTCGAGCATCTCACGGa < 1:701833/77‑1 (MQ=255)
cACCGCCGGACGGCCACGGTTCCCCGCTTCTTTGATTTCCAGCTCTTGCACCAGGGGTGCTTCGAGCATCTCACGGa > 2:701833/1‑77 (MQ=255)
cACCGCCGGACGGCCACGGTTCCCCGCTTCTTTGATTTCCAGCTCTTGCACCAGGGGTGCTTCGAGCATCTCACGGACAATTTTAGTGAt > 2:44596/1‑90 (MQ=255)
gTTCCCCGCTTCTTTGATTTCCAGCTCTTGCACCAGGGGTGCTTCGAGCATCTCACGGACAATTTTAGTGATACTGGCAGGAGCCAGTTg > 2:991542/1‑90 (MQ=255)
cccGCTTCTTTGATTTCCAGCTCTTGCACCAGGGGTGCTTCGAGCATCTCACGGACAATTTTAGTGATACTGGCAGGAGCCAGTTGCGcc > 2:805921/1‑90 (MQ=255)
cttcttTGATTTCCAGCTCTTGCACCAGGGGTGCTTCGAGCATCTCACGGACAATTTTAGTGATACTGGCAGGAGCCAGTTGCGCCAGAc < 1:862752/90‑1 (MQ=255)
cttcttTGATTTCCAGCTCTTGCACCAGGGGTGCTTCGAGCATCTCACGGACAATTTTAGTGATACTGGCAGGAGCCAGTTGCGCCAGAc < 2:803604/90‑1 (MQ=255)
ttCCAGCTCTTGCACCAGGGGTGCTTCGAGCATCTCACGGACAATTTTAGTGATACTGGCAGGAGCCAGTTGCGCCAGACGGGAAAGATc < 2:974650/90‑1 (MQ=255)
ccAGCTCTTGCACCAGGGGTGCTTCGAGCATCTCACGGACAATTTTAGTGATACTGGCAGGAGCCAGTTGCGCCAGACGGGAAAGATCGa > 2:584487/1‑90 (MQ=255)
ccAGCTCTTGCACCAGGGGTGCTTCGAGCATCTCACGGACAATTTTAGTGATACTGGCAGGAGCCAGTTGCGCCAGACGGGAAAGATCGa < 1:584487/90‑1 (MQ=255)
tctTGCACCAGGGGTGCTTCGAGCATCTCACGGACAATTTTAGTGATACTGGCATGAGCCAGTTGCGCCAGACGGGAAAGATCGATAcgc < 2:467151/90‑1 (MQ=255)
tctTGCACCAGGGGTGCTTCGAGCATCTCACGGACAATTTTAGTGATACTGGCAGGAGCCAGTTGCGCCAGACGGGAAAGATCGATAcgc < 2:548153/90‑1 (MQ=255)
tctTGCACCAGGGGTGCTTCGAGCATCTCACGGACAATTTTAGTGATACTGGCAGGAGCCAGTTGCGCCAGACGGGAAAGATCGATAcgc < 1:304831/90‑1 (MQ=255)
tctTGCACCAGGGGTGCTTCGAGCATCTCACGGACAATTTTAGTGATACTGGCAGGAGCCAGTTGCGCCAGACGGGAAAGATCGATAcgc < 2:355663/90‑1 (MQ=255)
tctTGCACCAGGGGTGCTTCGAGCATCTCACGGACAATTTTAGTGATACTGGCAGGAGCCAGTTGCGCCAGACGGGAAAGATCGATAcgc < 2:305798/90‑1 (MQ=255)
ctTGCACCAGGGGTGCTTCGAGCATCTCACGGACAATTTTAGTGATACTGGCAGGAGCCAGTTGCGCCAGACGGGAAAGATCGATAcgcg < 1:991542/90‑1 (MQ=255)
aGGGGTGCTTCGAGCATCTCACGGACAATTTTAGTGATACTGGCAGGAGACCGTTGGGCCAGACGGGCAAGATCGCAACGCGCGACTGGa > 1:994568/1‑90 (MQ=255)
|
GTGCCAGGCTTCAGTTTCAACCACCAGCCCCACCGCCGGACGGCCACGGTTCCCCGCTTCTTTGATTTCCAGCTCTTGCACCAGGTGTGCTTCGAGCATCTCACGGACAATTTTAGTGATACTGGCAGGAGCCAGTTGCGCCAGACGGGAAAGATCGATACGCGAGACTGGA > NZ_CP009273/1662564‑1662735
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 26 ≤ 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
GCAGAGAAAGATAGTGCCAGGCTTCAGTTTCAACCACCAGCCCCACCGCCGGACGGCCACGGTTCCCCGCTTCTTTGATTTCCAGCTCTTGCACCAGGTGTGCTTCGAGCATCTCACGGACAATTTTAGTGATACTGGCAGGAGCCAGTTGCGCCAGACGGGAAAGATCGATACGCGAGACTGGACCAAGCTGATCAA > NZ_CP009273/1662551‑1662748
|
gtataagagacagGTGCCAGGCTTCAGTTTCAACCACCAGCCCCACCGCCGGACGGCCACGGTTCCCCGCTTCTTTGATTTCCAGCTCTTGCACCAGGGG < SRR3722236.768932/87‑1 (MQ=60)
cagGAGAAAGATAGTGCCAGGCTTCAGTTTCAACCACCAGCCCCACCGCCGGACGGCCACGGTTCCCCGCTTCTTTGATTTCCAGCTCTTGCACCAGGGG < SRR3722236.673654/97‑1 (MQ=60)
GCAGAGAAAGATAGTGCCAGGCTTCAGTTTCAACCACCAGCCCCACCGCCGGACGGCCACGGTTCCCCGCTTCTTTGATTTCCAGCTCTTGCACCAGGGG < SRR3722236.972624/100‑1 (MQ=60)
GAGAAAGATAGTGCCAGGCTTCAGTTTCAACCACCAGCCCCACCGCCGGACGGCCACGGTTCCCCGCTTCTTTGATTTCCAGCTCTTGCACCAGGGGTGC > SRR3722236.25335/1‑100 (MQ=60)
GAGAAAGATAGTGCCAGGCTTCAGTTTCAACCACCAGCCCCACCGCCGGACGGCCACGGTTCCCCGCTTCTTTGATTTCCAGCTCTTGCACCAGGGGTGC > SRR3722236.556603/1‑100 (MQ=60)
GAGAAAGATAGTGCCAGGCTTCAGTTTCAACCACCAGCCCCACCGCCGGACGGCCACGGTTCCCCGCTTCTTTGATTTCCAGCTCTTGCACCAGGGGTGC > SRR3722236.492189/1‑100 (MQ=60)
GAAAGATAGTGCCAGGCTTCAGTTTCAACCACCAGCCCCACCGCCGGACGGCCACGGTTCCCCGCTTCTTTGATTTCCAGCTCTTGCACCAGGGGTGCTT > SRR3722236.705214/1‑100 (MQ=60)
GAAAGATAGTGCCAGGCTTCAGTTTCAACCACCAGCCCCACCGCCGGACGGCCACGGTTCCCCGCTTCTTTGATTTCCAGCTCTTGCACCAGGGGTGCTT < SRR3722236.404579/100‑1 (MQ=60)
CTTCAGTTTCAACCCCCAGCCCCACCGCCGGACGGCCACGGTTCCCCGCTTCTTTGATTTCCAGCTCTTGCACCAGGGGTGCTTCGAGCATCTCACGGAC < SRR3722236.1007279/100‑1 (MQ=60)
GTTTCAACCACCAGCCCCACCGCCGGACGGCCACGGTTCCCCGCTTCTTTGATTTCCAGCTCTTGCACCAGGGGTGCTTCGAGCATCTCACGGACAATTT > SRR3722236.978740/1‑100 (MQ=60)
CAGCCACCAGCCCCACCGCCGGACGGCCACGGTTCCCCGCTTCTTTGATTTCCAGCTCTTGCACCAGGGGTGCTTCGAGCATCTCACGGACAATTTTAGT < SRR3722236.713699/100‑1 (MQ=60)
CCACCGCCGGACGGCCACGGTTCCCCGCTTCTTTGATTTCCAGCTCTTGCACCAGGGGTGCTTCGAGCATCTCACGGACAATTTTAGTGATACTGGCAGG < SRR3722236.203472/100‑1 (MQ=60)
CTTCTTTGATTTCCAGCTCTTGCACCAGGGGTGCTTCGAGCATCTCACGGACAATTTTAGTGATACTGGCAGGAGCCAGTTGCGCCAGACGGGAAAGATC < SRR3722236.877883/100‑1 (MQ=60)
CCAGCTCTTGCACCAGGGGTGCTTCGAGCATCTCACGGACAATTTTAGTGATACTGGCAGGAGCCAGTTGCGCCAGACGGGAAAGATCGATACGCGAGAC < SRR3722236.593591/100‑1 (MQ=60)
CTCTTGCACCAGGGGTGCTTCGAGCATCTCACGGACAATTTTAGTGATACTGGCAGGAGACCGTTGGGCCAGACGGGCAAGATCGCAACGCGCGACTGGA > SRR3722236.1012080/1‑100 (MQ=60)
TCTTGCACCAGGGGTGCTTCGAGCATCTCACGGACAATTTTAGTGATACTGGCAGGAGCCAGTTGCGCCAGACGGGAAAGATCGATACGCGAGACTGGAC < SRR3722236.309226/100‑1 (MQ=60)
CTTGCACCAGGGGTGCTTCGAGCATCTCACGGACAATTTTAGTGATACTGGCAGGAGCCAGTTGCGCCAGACGGGAAAGATCGATACGCGAGACTGGACC < SRR3722236.1009005/100‑1 (MQ=60)
TGCACCAGGGGTGCTTCGAGCATCTCACGGACAATTTTAGTGATACTGGCAGGAGCCAGTTGCGCCAGACGGGAAAGATCGATACGCGAGACTGGACCAA > SRR3722236.26586/1‑100 (MQ=60)
CACCAGGGGTGCTTCGAGCATCTCACGGACAATTTTAGTGATACTGGCAGGAGCCAGTTGCGCCAGACGGGAAAGATCGATACGCGAGACTGGACCAAGC > SRR3722236.944624/1‑100 (MQ=60)
GGGGTGCTTCGAGCATCTCACGGACAATTTTAGTGATACTGGCAGGAGCCAGTTGCGCCAGACGGGAAAGATCGATACGCGAGACTGGACCAAGCTGATC > SRR3722236.914262/1‑100 (MQ=60)
GGTGCTTCGAGCATCTCACGGACAATTTTAGTGATACTGGCAGGAGCCAGTTGCGCCAGACGGGAAAGATCGATACGCGAGACTGGACCAAGCTGATCAA < SRR3722236.420397/100‑1 (MQ=60)
|
GCAGAGAAAGATAGTGCCAGGCTTCAGTTTCAACCACCAGCCCCACCGCCGGACGGCCACGGTTCCCCGCTTCTTTGATTTCCAGCTCTTGCACCAGGTGTGCTTCGAGCATCTCACGGACAATTTTAGTGATACTGGCAGGAGCCAGTTGCGCCAGACGGGAAAGATCGATACGCGAGACTGGACCAAGCTGATCAA > NZ_CP009273/1662551‑1662748
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
