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 I225 R1
|
227 |
21.4 |
1179702 |
97.1% |
1145490 |
86.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
3,739,446 |
A→G |
intergenic (+5/‑8) |
yiaN → / → yiaO |
2,3‑diketo‑L‑gulonate transporter large permease YiaN/2,3‑diketo‑L‑gulonate transporter substrate‑binding protein YiaO |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 3,739,446 | 0 | A | G | 100.0%
| 58.7
/ NA
| 19 | intergenic (+5/‑8) | yiaN/yiaO | 2,3‑diketo‑L‑gulonate transporter large permease YiaN/2,3‑diketo‑L‑gulonate transporter substrate‑binding protein YiaO |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (5/14); total (5/14) |
CCTGGTTTTATATTCATTATTAGTCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGAAAATATTATGAAATTACGCTCTGTAACCTACGCATTATTCATTGCTGGCCTGGCTGCATTCAGCACATCTTCTCTGGCGGCAC > NZ_CP009273/3739363‑3739529
|
ccTGGTTTTATATTCATTATTAGTCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAatat < 1:140540/90‑1 (MQ=255)
cTGGTTTTATATTCATTATTAGTCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAAtatt > 1:319074/1‑90 (MQ=255)
ggTTTTATATTCATTATTAGTCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAAtattat < 1:414751/90‑1 (MQ=255)
tataTTCATTATTAGTCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAAt > 2:289406/1‑90 (MQ=255)
ttCATTATTAGTCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTACg < 1:391762/90‑1 (MQ=255)
ttCATTATTAGTCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTACg < 1:435807/90‑1 (MQ=255)
tCATTATTAGTCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTACGc < 2:560484/90‑1 (MQ=255)
tCATTATTAGTCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTACGc < 1:13015/90‑1 (MQ=255)
tCATTATTAGTCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTACGc > 2:367664/1‑90 (MQ=255)
tattaGTCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTACGCTCTg < 1:576657/90‑1 (MQ=255)
gTCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTACGCTCTGTAAcc < 2:188623/90‑1 (MQ=255)
tATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTACGCTCTGTAACCTACg > 2:291758/1‑90 (MQ=255)
ttGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTACGCTCTGTAACCTACGCat < 1:289406/90‑1 (MQ=255)
tttATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTACGCTCTGTAACCTACGCATTATTc < 1:75633/90‑1 (MQ=255)
catcatCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTACGCTCTGTAACCTACGCATTATTCATTGctggcctggc > 1:559075/1‑90 (MQ=255)
aaaaGGGAAATATTATGAAATTACGCTCTGTAACCTACGCATTATTCATTGCTGGCCTGGCTGCATTCAGCACATCTTCTCTGGCGGcac < 1:99082/90‑1 (MQ=255)
aaaaGGGAAATATTATGAAATTACGCTCTGTAACCTACGCATTATTCATTGCTGGCCTGGCTGCATTCAGCACATCTTCTCTGGCGGcac < 1:554526/90‑1 (MQ=255)
aaaaGGGAAATATTATGAAATTACGCTCTGTAACCTACGCATTATTCATTGCTGGCCTGGCTGCATTCAGCACATCTTCTCTGGCGGcac < 1:420870/90‑1 (MQ=255)
aaaaGGGAAATATTATGAAATTACGCTCTGTAACCTACGCATTATTCATTGCTGGCCTGGCTGCATTCAGCACATCTTCTCTGGCGGcac < 2:382206/90‑1 (MQ=255)
|
CCTGGTTTTATATTCATTATTAGTCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGAAAATATTATGAAATTACGCTCTGTAACCTACGCATTATTCATTGCTGGCCTGGCTGCATTCAGCACATCTTCTCTGGCGGCAC > NZ_CP009273/3739363‑3739529
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ 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
CCCTTACGTCCTGGTTTTATATTCATTATTAGTCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGAAAATATTATGAAATTACGCTCTGTAACCTACGCATTATTCATTGCTGGCCTGGCTGCATTCAGCACATCTTCTCTGGCGGCACAATCTTTACG > NZ_CP009273/3739354‑3739539
|
CCCTTACGTCCTGGTTTTATATTCATTATTAGTCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATT > SRR3722109.323284/1‑100 (MQ=60)
CCTGGTTTTATATTCATTATTAGTCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTA < SRR3722109.142285/100‑1 (MQ=60)
GGTTTTATATTCATTATTAGTCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTACGC < SRR3722109.420817/100‑1 (MQ=60)
TTCATTATTAGTCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTACGCTCTGTAACC < SRR3722109.442253/100‑1 (MQ=60)
TTCATTATTAGTCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTACGCTCTGTAACC < SRR3722109.397382/100‑1 (MQ=60)
TCATTATTAGTCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTACGCTCTGTAACCT < SRR3722109.13195/100‑1 (MQ=60)
CATTATTAGTCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGActgtctcttatacacatct > SRR3722109.564713/1‑81 (MQ=60)
TATTAGTCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTACGCTCTGTAACCTACGC < SRR3722109.585391/100‑1 (MQ=60)
atctacacattgacattcgtcggcagcgtcagatgtgtataagagacagGGATTAATTAAAAGGGAAATATTATGAAATTACGCTCTGTAACCTACGCAT < SRR3722109.37288/51‑1 (MQ=60)
TTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTACGCTCTGTAACCTACGCATTATTCATTGC < SRR3722109.293103/100‑1 (MQ=60)
TTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTACGCTCTGTAACCTACGCATTATTCATTGCTGGCC < SRR3722109.76547/100‑1 (MQ=60)
TTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTACGCTCTGTAACCTACGCATTATTCATTGCTGGCCTGGC > SRR3722109.567554/1‑100 (MQ=60)
AATTAAAAGGGAAATATTATGAAATTACGCTCTGTAACCTACGCATTATTCATTGCTGGCCTGGCTGCATTCAGCACATCTTCTCTGGCGGCACAATCTT > SRR3722109.321233/1‑100 (MQ=60)
AATTAAAAGGGAAATATTATGAAATTACGCTCTGTAACCTACGCATTATTCATTGCTGGCCTGGCTGCATTCAGCACATCTTCTCTGGCGGCACAATCTT > SRR3722109.282069/1‑100 (MQ=60)
AAAAGGGAAATATTATGAAATTACGCTCTGTAACCTACGCATTATTCATTGCTGGCCTGGCTGCATTCAGCACATCTTCTCTGGCGGCACAATCTTTACG < SRR3722109.427047/100‑1 (MQ=60)
AAAAGGGAAATATTATGAAATTACGCTCTGTAACCTACGCATTATTCATTGCTGGCCTGGCTGCATTCAGCACATCTTCTCTGGCGGCACAATCTTTACG < SRR3722109.100308/100‑1 (MQ=60)
AAAAGGGAAATATTATGAAATTACGCTCTGTAACCTACGCATTATTCATTGCTGGCCTGGCTGCATTCAGCACATCTTCTCTGGCGGCACAATCTTTACG < SRR3722109.562950/100‑1 (MQ=60)
|
CCCTTACGTCCTGGTTTTATATTCATTATTAGTCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGAAAATATTATGAAATTACGCTCTGTAACCTACGCATTATTCATTGCTGGCCTGGCTGCATTCAGCACATCTTCTCTGGCGGCACAATCTTTACG > NZ_CP009273/3739354‑3739539
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
