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 |
|
A0 F0 I1 R1
|
149 |
26.7 |
2337422 |
87.5% |
2045244 |
105.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
452,997 |
Δ1 bp |
intergenic (‑22/+116) |
h16_A0432 ← / ← coxF |
Uncharacterized MobA‑related protein/xanthine and CO dehydrogenase, maturation factor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 452,994 | 0 | T | . | 100.0%
| 39.3
/ NA
| 10 | intergenic (‑19/+119) | h16_A0432/coxF | Uncharacterized MobA‑related protein/xanthine and CO dehydrogenase, maturation factor |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base . (4/6); total (4/6) |
CGATCGATTCCGGCAGCGCCGCGGCCAGCGTGCGGGCGCTGCGCCAGGCCACGGAGCGGCCGCCGGGCAGCACCTCCAGCAGCTTGTTGCGTTTTGCCGGCGGCGTCGAAGCGGCGGCCGTAGCCTGCGGCCAGCAGGATGCCGGTGGGCAGGTCGGTGCGGAGCAGGGGAGCGTTGGGGGCGGCAGTCATGGCGGCACT > AM260479/452903‑453102
|
cgatcgatTCCGGCAGCGCCGCGGCCAGCGTGCGGGCGCTGCGCCAGGCCACGGAGCGGCCGCCGGGCAGCACCTCCAGCAGCTTGTTGCG‑TTTGCCGGCGGCGTCGAAGCGGCGGCCGTAGCCTGCGGCcagc < 2:899119/134‑1 (MQ=255)
tcgatTCCGGCAGCGCCGCGGCCAGCGTGCGGGCGCTGCGCCAGGCCACGGAGCGGCCGCCGGGCAGCACCTCCAGCAGCTTGTTGCGtttg > 1:1069412/1‑91 (MQ=255)
tcgatTCCGGCAGCGCCGCGGCCAGCGTGCGGGCGCTGCGCCAGGCCACGGAGCGGCCGCCGGGCAGCACCTCCAGCAGCTTGTTGCGtttg < 2:1069412/92‑2 (MQ=255)
ttCCGGCAGCGCCGCGGCCAGCGTGCGGGCGCTGCGCCAGGCCACGGAGCGGCCGCCGGGCAGCACCTCCAGCAGCTTGTTGCG‑TTTGCCGGCGGCGTCGGAGCGGCGGCCGTAGCCTGCGGCCAGCAGGATGc > 2:316719/1‑134 (MQ=255)
gcgcCGCGGCCAGCGTGCGGGCGCTGCGCCAGGCCACGGAGCGGCCGCCGGGCAGCACCTCCAGCAGCTTGTTGCG‑TTTGCCGGCGGCGTCGGAGCGGCGGCCGTAGCCTGCGGCCAGCAGGATGCCGGTGGGc < 1:316719/134‑1 (MQ=255)
gcgcCGCGGCCAGCGTGCGGGCGCTGCGCCAGGCCACGGAGCGGCCGCCGGGCAGCACCTCCAGCAGCTTGTTGCG‑TTTGCCGGCGGCGTCGAAGCGGCGGCCGTAGCCTGCGGCCAGCAGGATGCCGGTGGGc < 2:1019492/134‑1 (MQ=255)
gcCAGGCCACGGAGCGGCCGCCGGGCAGCACCTCCAGCAGCTTGTTGCG‑TTTGCCGGCGGCGTCGAAGCGGCGGCCGTAGCCTGCGGCCAGCAGGATGCCGGTGGGCAGGTCGGTGCGGAGCAGGGGAGCGTTg < 2:84264/134‑1 (MQ=255)
cgGGCAGCACCTCCAGCAGCTTGTTGCG‑TTTGCCGGCGGCGTCGAAGCGGCGGCCGTAGCCTGCGGCCAGCAGGATGCTGGTGGGCAGGTc < 2:544262/91‑1 (MQ=255)
cgGGCAGCACCTCCAGCAGCTTGTTGCG‑TTTGCCGGCGGCGTCGAAGCGGCGGCCGTAGCCTGCGGCCAGCAGGATGCCGGTGGGCAGGTc > 1:544262/1‑91 (MQ=255)
ggCAGCACCTCCAGCAGCTTGTTGCG‑TTTGCCGGCGGCGTCGAAGCGGCGGCCGTAGCCTGCGGCCAGCAGGATGCCGGTGGGCAGGTCGGTGCGGAGCAGGGGAGCGTTGGGGGCGGCAGTCATGGCGGCACt > 1:568550/1‑134 (MQ=255)
cTCCAGCAGCTTGTTGCG‑TTTGCCGGCGGCGTCGAAGCGGCGGCCGTAGCCTGCGGCCAGCAGGATGCCGGTGGGCAGGTCGGTGCGGAGCa > 1:790258/1‑92 (MQ=255)
cTCCAGCAGCTTGTTGCG‑TTTGCCGGCGGCGTCGAAGCGGCGGCCGTAGCCTGCGGCCAGCAGGATGCCGGTGGGCAGGTCGGTGCGGAGCa < 2:790258/92‑1 (MQ=255)
|
CGATCGATTCCGGCAGCGCCGCGGCCAGCGTGCGGGCGCTGCGCCAGGCCACGGAGCGGCCGCCGGGCAGCACCTCCAGCAGCTTGTTGCGTTTTGCCGGCGGCGTCGAAGCGGCGGCCGTAGCCTGCGGCCAGCAGGATGCCGGTGGGCAGGTCGGTGCGGAGCAGGGGAGCGTTGGGGGCGGCAGTCATGGCGGCACT > AM260479/452903‑453102
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GCCGCCGCGGCGCAGTTCCTCCGCCAGTGCCGGGTTGCCCGGACGAATGACGGCGATCGATTCCGGCAGCGCCGCGGCCAGCGTGCGGGCGCTGCGCCAGGCCACGGAGCGGCCGCCGGGCAGCACCTCCAGCAGCTTGTTGCGTTTTGCCGGCGGCGTCGAAGCGGCGGCCGTAGCCTGCGGCCAGCAGGATGCCGGTGGGCAGGTCGGTGCGGAGCAGGGGAGCGTTGGGGGCGGCAGTCATGGCGGCACTTGCGAGGTCGTCAGGTGGGATCGG > AM260479/452850‑453126
|
aagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGATTCCGGCAGCGCCGCGGCCAGCGTGCGGGCGCTGCGCCAGGCCACGGAGCGGCCGCCGGGCAGCACCTCCAGCAGCTTGTTGCG‑TTTGCC < GWNJ‑0478:712:GW2002102894th:2:1212:3048:23973/92‑1 (MQ=60)
GACGAATGACGGCGATCGATTCCGGCAGCGCCGCGGCCAGCGTGCGGGCGCTGCGCCAGGCCACGGAGCGGCCGCCGGGCAGCACCTCCAGCAGCTTGTTGCG‑TTTGCCGGCGGCGTCGAAGCtgtctcttatacacatctccgagccc > GWNJ‑0478:712:GW2002102894th:2:2212:2632:46941/1‑123 (MQ=60)
AGCGCCGCGGCCAGCGTGCGGGCGCTGCGCCAGGCCACGGAGCGGCCGCCGGGCAGCACCTCCAGCAGCTTGTTGCG‑TTTGCCGGCGGCGTCGGAGCGGCGGCCGTAGCCTGCGGCCAGCAGGATGCCGGTGGGCAGGTCGGTGCGGAGC < GWNJ‑0478:712:GW2002102894th:2:1202:5514:8480/150‑1 (MQ=60)
CCACGGAGCGGCCGCCGGGCAGCACCTCCAGCAGCTTGTTGCG‑TTTGCCGGCGGCGTCGAAGCGGCGGCCGTAGCCTGCGGCCAGCAGGATGCCGGTGGGCAGGTCGGTGCGGAGCAGGGGctgtctcttatacacatctccgagcccac > GWNJ‑0478:712:GW2002102894th:2:1214:11242:56993/1‑121 (MQ=60)
gcttcgacGCCGCCGGGCAGCACCTCCAGCAGCTTGTTGCG‑TTTGCCGGCGGCGTCGAAGCGGCGGCCGTAGCCTGCGGCCAGCAGGATGCCGGTGGGCAGGTCGGTGCGGAGCAGGGGAGCGTTGGGGGCGGCAGTCATGGCGGCACTT > GWNJ‑0478:712:GW2002102894th:2:1216:3533:70272/9‑150 (MQ=60)
gtgtataagagacagCCTCCAGCAGCTTGTTGCG‑TTTGCCGGCGGCGTCGAAGCGGCGGCCGTAGCCTGCGGCCAGCAGGATGCCGGTGGGCAGGTCGGTGCGGAGCAGGGGAGCGTTGGGGGCGGCAGTCATGGCGGCACTTGCGAGG < GWNJ‑0478:712:GW2002102894th:2:1110:12968:12877/134‑1 (MQ=60)
GCCGCCGGGCAGCACCTCCAGCAGCTTGTTGCG‑TTTGCCGGCGGCGTCGAAGCGGCGGCCGTAGCCTGCGGCCAGCAGGATGCCGGTGGGCAGGTCGGTGCGGAGCAGGGGAGCGTTGGGGGCtgtctcttatacacatctccgagccc > GWNJ‑0478:712:GW2002102894th:2:2112:18662:26790/1‑123 (MQ=60)
CTCCAGCAGCTTGTTGCG‑TTTGCCGGCGGCGTCGAAGCGGCGGCCGTAGCCTGCGGCCAGCAGGATGCCGGTGGGCAGGTCGGTGCGGAGCAGGGGAGCGTTGGGGGCGGCAGTCATGGCGGCACTTGCGAGGTCGTCAGGTGctgtctc > GWNJ‑0478:712:GW2002102894th:2:2207:11239:43227/1‑143 (MQ=60)
|
GCCGCCGCGGCGCAGTTCCTCCGCCAGTGCCGGGTTGCCCGGACGAATGACGGCGATCGATTCCGGCAGCGCCGCGGCCAGCGTGCGGGCGCTGCGCCAGGCCACGGAGCGGCCGCCGGGCAGCACCTCCAGCAGCTTGTTGCGTTTTGCCGGCGGCGTCGAAGCGGCGGCCGTAGCCTGCGGCCAGCAGGATGCCGGTGGGCAGGTCGGTGCGGAGCAGGGGAGCGTTGGGGGCGGCAGTCATGGCGGCACTTGCGAGGTCGTCAGGTGGGATCGG > AM260479/452850‑453126
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
