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 I207 R1
|
218 |
45.0 |
2482936 |
97.1% |
2410930 |
86.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
2,396,099 |
G→C |
A413G (GCC→GGC) |
nuoC ← |
NADH‑quinone oxidoreductase subunit C/D |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 2,396,099 | 0 | G | C | 100.0%
| 110.3
/ NA
| 33 | A413G (GCC→GGC) | nuoC | NADH‑quinone oxidoreductase subunit C/D |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base C (23/10); total (23/10) |
GCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGACGCCAGACGTTTC > NZ_CP009273/2396013‑2396173
|
gcgcCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAgccgg > 2:1104794/1‑90 (MQ=255)
gcgcCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAgccgg > 1:784550/1‑90 (MQ=255)
gcgcCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAgccgg > 2:758577/1‑90 (MQ=255)
cGCACGTCGAAGTCGTTCCCGGTAGCACGGAGGCGCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAATGctc < 1:1003037/90‑3 (MQ=255)
cGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTggg > 1:833923/1‑90 (MQ=255)
gTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGa > 2:74625/1‑90 (MQ=255)
gATCCCGGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCaa > 2:307871/1‑71 (MQ=255)
gATCCCGGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCaa < 1:307871/71‑1 (MQ=255)
gATCCCGGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCttt > 1:649849/1‑90 (MQ=255)
ccGGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGa > 1:329116/1‑90 (MQ=255)
ggTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAAt < 1:1092093/90‑1 (MQ=255)
ggTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAAt < 1:64394/90‑1 (MQ=255)
gTAGCACGCAGGCCCGCGCCAGTGGGGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATg > 1:660728/1‑90 (MQ=255)
cACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGgtgt < 1:453020/90‑1 (MQ=255)
cACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGgtgt > 1:308424/1‑90 (MQ=255)
cAGGCCCGCGCCTGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTg > 1:1202405/1‑90 (MQ=255)
cAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTg > 1:794570/1‑90 (MQ=255)
cAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTg > 2:122280/1‑90 (MQ=255)
cccGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAgc < 2:408153/90‑1 (MQ=255)
ccGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAgcg > 2:1241264/1‑90 (MQ=255)
gcCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGcgccgc < 2:794570/90‑1 (MQ=255)
aGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCttt > 2:619978/1‑90 (MQ=255)
ggtgCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAAc < 2:1103807/42‑1 (MQ=255)
ggtgCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAAc > 1:1103807/1‑42 (MQ=255)
aCTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGACg > 2:975808/1‑90 (MQ=255)
aCTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGACg > 2:1052124/1‑90 (MQ=255)
aCTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGACg > 1:416378/1‑90 (MQ=255)
ccAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGACGCCa > 2:171075/1‑90 (MQ=255)
ccAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGACGCCa > 1:1106725/1‑90 (MQ=255)
gcgcCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGACGCCAGAc < 1:742521/90‑1 (MQ=255)
gcCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGACGCCAGACGt > 2:1214546/1‑90 (MQ=255)
ctctTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGACGCCAGACGttt > 2:213382/1‑90 (MQ=255)
tctTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGACGCCAGACGTTTc > 2:1042690/1‑90 (MQ=255)
tctTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGACGCCAGACGTTTc > 2:705161/1‑90 (MQ=255)
aTAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGACGCCAGACGTTTc < 2:675247/79‑1 (MQ=255)
aTAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGACGCCAGACGTTTc > 1:675247/1‑79 (MQ=255)
|
GCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGACGCCAGACGTTTC > NZ_CP009273/2396013‑2396173
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ 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
GAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGACGCCAGACGTTTCGGCATCCAGTCGAGGAACT > NZ_CP009273/2396003‑2396192
|
GAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGG > SRR3722089.795279/1‑100 (MQ=60)
GACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCC < SRR3722089.261842/100‑1 (MQ=60)
GCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGG > SRR3722089.845710/1‑100 (MQ=60)
aagagacagCGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGA < SRR3722089.311775/91‑1 (MQ=60)
CGCACGTCGAAGTCGTTCCCGGTAGCACGGAGGCGCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAATGCTCTGGGAACGAC < SRR3722089.1017952/100‑1 (MQ=60)
CGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTT > SRR3722089.658181/1‑100 (MQ=60)
GAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGA > SRR3722089.333241/1‑100 (MQ=60)
GTCGATCCCGGTAGCACGCAGGCCCGCGCCAGTGGGGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATG > SRR3722089.669248/1‑100 (MQ=60)
ATCCCGGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGT > SRR3722089.312333/1‑100 (MQ=60)
CGGTAGCACGCAGGCCCGCGCCTGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTG > SRR3722089.1220690/1‑100 (MQ=60)
CGGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTG > SRR3722089.805518/1‑100 (MQ=60)
GGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGC < SRR3722089.1108577/100‑1 (MQ=60)
GGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGC < SRR3722089.65177/100‑1 (MQ=60)
CACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGC < SRR3722089.458454/100‑1 (MQ=60)
CCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACtgtctcttatacacatctgacgctgccgacgaccatc > SRR3722089.1120499/1‑63 (MQ=60)
GTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGACG > SRR3722089.421413/1‑100 (MQ=60)
GTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGACGCCA > SRR3722089.1123460/1‑100 (MQ=60)
CTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCctgtctcttatacacatctgacgctgccgacgaccatcttagtgtagatctc > SRR3722089.671757/1‑48 (MQ=60)
GCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGACGCCAGACGTTTCGGCAT < SRR3722089.752282/100‑1 (MQ=60)
CTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGACGCCAGACGTTTCGGCATCCAGTC > SRR3722089.684003/1‑100 (MQ=60)
CCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGACGCCAGACGTTTCGGCATCCAGTCGAGGAACT > SRR3722089.664375/1‑100 (MQ=60)
|
GAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGACGCCAGACGTTTCGGCATCCAGTCGAGGAACT > NZ_CP009273/2396003‑2396192
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ 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: ‑ |
