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 I210 R1
|
226 |
19.6 |
1130256 |
95.4% |
1078264 |
84.4 |
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%
| 63.6
/ NA
| 20 | 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 (6/14); total (6/14) |
GGTTTTATATTCATTATTAGTCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGAAAATATTATGAAATTACGCTCTGTAACCTACGCATTATTCATTGCTGGCCTGGCTGCATTCAGCACATCTTCTCTGGCGGCAC > NZ_CP009273/3739366‑3739529
|
ggTTTTATATTCATTATTAGTCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAAtattat < 2:414471/90‑1 (MQ=255)
atTCATTATTAGTCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTAc < 2:5908/90‑1 (MQ=255)
atTCATTATTAGTCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTAc < 2:15150/90‑1 (MQ=255)
atTCATTATTAGTCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTAc < 2:4179/90‑1 (MQ=255)
tCATTATTAGTCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTACGc < 1:322761/90‑1 (MQ=255)
attaGTCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTACGCTCTGt < 1:510440/90‑1 (MQ=255)
tCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTACGCTCTGTAACCt > 2:182646/1‑90 (MQ=255)
tATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTACGCTCTGTAACCTACg > 1:486599/1‑90 (MQ=255)
tATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTACGCTCTGTAACCTACg > 2:442715/1‑90 (MQ=255)
tttATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTACGCTCTGTAACCTACGCATTATTc < 2:513959/90‑1 (MQ=255)
tcctccCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTACGCTCTGTAACCTACGCATTATTCATTGCTGGCCTGGCTGCAt < 2:351099/90‑1 (MQ=255)
tcctccCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTACGCTCTGTAACCTACGCATTATTCATTGCTGGCCTGGCTGCAt < 1:272711/90‑1 (MQ=255)
tccCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTACGCTCTGTAACCTa > 2:491216/1‑58 (MQ=255)
tccCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTACGCTCTGTAACCTa < 1:491216/58‑1 (MQ=255)
ccTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTACGCTCTGTAACCTACGCATTATTCATTGCTGGCCTGGCTGCATTCAGc < 2:483553/90‑1 (MQ=255)
ttGAAATGGATTAATTAAAAGGGAAATATTATGAAATTACGCTCTGTAACCTACGCATTATTCATTGCTGGCCTGGCTGCATTCAGcaca > 1:7756/1‑90 (MQ=255)
taattaaAAGGGAAATATTATGAAATTACGCTCTGTAACCTACGCATTATTCATTGCTGGCCTGGCTGCATTCAGCACATCTTCTCTggc < 2:96324/90‑1 (MQ=255)
aattaaAAGGGAAATATTATGAAATTACGCTCTGTAACCTACGCATTATTCATTGCTGGCCTGGCTGCATTCAGCACATCTTCTCTggcg > 2:483518/1‑90 (MQ=255)
aaaaGGGAAATATTATGAAATTACGCTCTGTAACCTACGCATTATTCATTGCTGGCCTGGCTGCATTCAGCACATCTTCTCTGGCGGcac < 2:278717/90‑1 (MQ=255)
aaaaGGGAAATATTATGAAATTACGCTCTGTAACCTACACATTATTCATTGCTGGCCTGGCTGCATTCAGCACATCTTCTCTGGCGGcac < 2:111402/90‑1 (MQ=255)
|
GGTTTTATATTCATTATTAGTCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGAAAATATTATGAAATTACGCTCTGTAACCTACGCATTATTCATTGCTGGCCTGGCTGCATTCAGCACATCTTCTCTGGCGGCAC > NZ_CP009273/3739366‑3739529
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
TACGTCCTGGTTTTATATTCATTATTAGTCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGAAAATATTATGAAATTACGCTCTGTAACCTACGCATTATTCATTGCTGGCCTGGCTGCATTCAGCACATCTTCTCTGGCGGCACAATCTT > NZ_CP009273/3739358‑3739535
|
TACGTCCTGGTTTTATATTCATTATTAGTCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGA < SRR3722092.4652/100‑1 (MQ=60)
TCATTATTAGTCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTACGCTCTGTAACCT < SRR3722092.328479/100‑1 (MQ=60)
TTATTAGTCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTACGCTCTGTAACCTACG > SRR3722092.496261/1‑100 (MQ=60)
ATTAGTCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTACGCTCTGTAACATACGCA < SRR3722092.520680/100‑1 (MQ=60)
gtcagatgtgtataagagacagCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTACGCTCTGTAACCTACGCATTATTC < SRR3722092.500986/78‑1 (MQ=60)
CATCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTACGCTCTGTAACCTACGCATTATTCATTGCTGGCCTGGCTGCATTCAGCACA > SRR3722092.7904/1‑100 (MQ=60)
TCCTCCCTTTGAAATGGATTAATTAAAAGGGAAATATTATGAAATTACGCTCTGTAACCTACGCATTATTCATTGCTGGCCTGGCTGCATTCAGCACATC < SRR3722092.277299/100‑1 (MQ=60)
AATTAAAAGGGAAATATTATGAAATTACGCTCTGTAACCTACGCATTATTCATTGCTGGCCTGGCTGCATTCAGCACATCTTCTCTGGCGGCACAATCTT > SRR3722092.197959/1‑100 (MQ=60)
|
TACGTCCTGGTTTTATATTCATTATTAGTCGTATTTGTTTTTATTCCCGATCTCATCATCCTCCCTTTGAAATGGATTAATTAAAAGGAAAATATTATGAAATTACGCTCTGTAACCTACGCATTATTCATTGCTGGCCTGGCTGCATTCAGCACATCTTCTCTGGCGGCACAATCTT > NZ_CP009273/3739358‑3739535
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
