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 I211 R1
|
223 |
18.0 |
1007644 |
96.3% |
970361 |
85.7 |
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%
| 45.4
/ NA
| 15 | A413G (GCC→GGC) | nuoC | NADH‑quinone oxidoreductase subunit C/D |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base C (11/4); total (11/4) |
GCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGACGCCAGACGTTTCGGCATCC > NZ_CP009273/2396013‑2396180
|
gcgcCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAgccgg > 2:46791/1‑90 (MQ=255)
gcgcCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAgccgg > 1:166119/1‑90 (MQ=255)
gcgcCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAgccgg > 2:408283/1‑90 (MQ=255)
gcCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCa < 1:89850/90‑1 (MQ=255)
tACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCTACGc > 1:414015/1‑90 (MQ=255)
ggTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAAt < 2:91474/90‑1 (MQ=255)
ggTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAAt < 1:57608/90‑1 (MQ=255)
cAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTg > 2:348287/1‑90 (MQ=255)
cAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTg > 2:52294/1‑90 (MQ=255)
ggCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCa > 1:259145/1‑90 (MQ=255)
aGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCttt > 2:302589/1‑90 (MQ=255)
gCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTa > 1:379155/1‑90 (MQ=255)
gCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTa > 2:263234/1‑90 (MQ=255)
aCTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGACg > 1:15372/1‑90 (MQ=255)
tCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGACGcc > 2:343077/1‑90 (MQ=255)
gcCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGACGCCAGACGt > 1:152898/1‑90 (MQ=255)
ctctTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGACGCCAGACGttt > 1:502880/1‑90 (MQ=255)
cgcCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGGGTTTTGCAGCGCCGCTTTCTCGTAAGACGCCAGACGTTTCGGCATcc < 1:75154/90‑1 (MQ=255)
|
GCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGACGCCAGACGTTTCGGCATCC > NZ_CP009273/2396013‑2396180
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 31 ≤ 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
GAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGACGCCAGACGTTTCGGCATCCAGTCGAGGAA > NZ_CP009273/2396003‑2396190
|
GAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGG > SRR3722094.168440/1‑100 (MQ=60)
GGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCTACGC > SRR3722094.421221/1‑100 (MQ=60)
GCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGG < SRR3722094.91157/100‑1 (MQ=60)
GGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGC < SRR3722094.58409/100‑1 (MQ=60)
GTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCA > SRR3722094.262976/1‑100 (MQ=60)
CGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTA > SRR3722094.385609/1‑100 (MQ=60)
GTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGACG > SRR3722094.15605/1‑100 (MQ=60)
CCACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGACGCCAGACGT > SRR3722094.155030/1‑100 (MQ=60)
ACTCCAGCGCCTCTTTCGCGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGACGCCAGACGTTT > SRR3722094.511741/1‑100 (MQ=60)
CGCCATAGCCGGCAACGCCCTGGGAACGACCTTTCAGAATGGGGTTTTGCAGCGCCGCTTTCTCGTAAGACGCCAGACGTTTCGGCATCCAGTCGAGGAA < SRR3722094.76230/100‑1 (MQ=60)
|
GAATAAGGACGCGCCTTACGCACGTCGAAGTCGATCCCGGTAGCACGCAGGCCCGCGCCAGTGGTGCCCCACTCCAGCGCCTCTTTCGCGCCATAGGCGGCAACGCCCTGGGAACGACCTTTCAGAATGGTGTTTTGCAGCGCCGCTTTCTCGTAAGACGCCAGACGTTTCGGCATCCAGTCGAGGAA > NZ_CP009273/2396003‑2396190
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
