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
|
155 |
25.8 |
2285122 |
88.0% |
2010907 |
104.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
2,594,128 |
Δ1 bp |
coding (326/957 nt) |
cR ← |
Recombinational DNA repair protein (RecF pathway) |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 2,594,128 | 0 | C | . | 100.0%
| 40.1
/ NA
| 10 | coding (326/957 nt) | cR | Recombinational DNA repair protein (RecF pathway) |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base . (5/5); total (5/5) |
ATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCTTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACGCGCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATCGAGCCCATCTTTTCCTGCGAGGTGGCTTCGGCCTTGCGCACGGCGTCATTGAAGGCGGCG > AM260479/2594023‑2594229
|
aTGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCGCAGTGGCGTTCAGAACG‑GCAGCTTGAAGCCCGGGGGCAGCGGCAgg < 2:325566/134‑1 (MQ=255)
gACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACG‑GCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATc > 1:985952/1‑134 (MQ=255)
gggCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACG‑GCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATCGAGcc > 2:476172/1‑134 (MQ=255)
cGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACG‑GCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAgg > 1:1000837/1‑119 (MQ=255)
cGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACG‑GCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAgg < 2:1000837/119‑1 (MQ=255)
ccGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACG‑GCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATCGAGCCCATCTTTTcc > 1:663743/1‑134 (MQ=255)
ccGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACG‑GCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATCGAGCCCATCTTTTCCTGCGAGGTGGc < 2:1010051/134‑1 (MQ=255)
ccAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACG‑GCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATCGAGCCCATCTTTTCCTGCGAGGTGGCTTCGGCCTTGCGCa < 2:985952/134‑1 (MQ=255)
tCGGGGACGATGCCTTCACAGTGGCGTTCAGAACG‑GCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATCGAGCCCATCTTTTCCTGCGAGGTGGCTTCGGCCTTGCGCACGGCGTCATTGAAggcgg > 1:159560/1‑134 (MQ=255)
ggggACGATGCCTTCACAGTGGCGTTCAGAACG‑GCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATCGAGCCCATCTTTTCCTGCGAGGTGGCTTCGGCCTTGCGCACGGCGTCATTGAAggcggcg < 2:663743/134‑1 (MQ=255)
|
ATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCTTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACGCGCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATCGAGCCCATCTTTTCCTGCGAGGTGGCTTCGGCCTTGCGCACGGCGTCATTGAAGGCGGCG > AM260479/2594023‑2594229
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
CCTCGCGGTCGTGCTGCAGCAGGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCTTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACGCGCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATCGAGCCCATCTTTTCCTGCGAGGTGGCTTCGGCCTTGCGCACGGCGTCATTGAAGGCGGCGGCGACCAGGTCTTCCAGCAGGTCCTTGTCTTCGCCCTCGGCC > AM260479/2593991‑2594271
|
CCTCGCGGTCGTGCTGCAGCAGGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACG‑GCAGCTTGAAGCC < GWNJ‑0478:712:GW2002102894th:2:2103:13215:30225/150‑1 (MQ=60)
gtctcgtgggctggagatgtgtataagagacagGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACG‑GCAGCTTGAAGCCCGGGG < GWNJ‑0478:712:GW2002102894th:2:2215:15097:12317/116‑1 (MQ=60)
GCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACG‑GCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATCG > GWNJ‑0478:712:GW2002102894th:2:2207:14416:95363/1‑150 (MQ=60)
GGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACG‑GCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATCGAGCCCATCTC > GWNJ‑0478:712:GW2002102894th:2:2208:18698:80234/1‑150 (MQ=60)
GACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACG‑GCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATCGAGCCCATCTTTTCCT > GWNJ‑0478:712:GW2002102894th:2:2107:3702:69762/1‑150 (MQ=60)
GTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACG‑GCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATCGAGCCCATCTTTTCCTGCGAGGTGGCTTCGGCCTTGCGCACGGCGTCATTGAAGGCGGC > GWNJ‑0478:712:GW2002102894th:2:1111:4946:56695/1‑150 (MQ=60)
GTGGCGTTCAGAACG‑GCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATCGAGCCCATCTTTTCCTGCGAGGTGGCTTCGGCCTTGCGCACGGCGTCATTGAAGGCGGCGGCGACCAGGTCTTCCAGCAGGTCCTTGTCTTCGC > GWNJ‑0478:712:GW2002102894th:2:2203:2118:10220/1‑150 (MQ=60)
GTTCAGAACG‑GCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATCGAGCCCATCTTTTCCTGCGAGGTGGCTTCGGCCTTGCGCACGGCGTCATTGAAGGCGGCGGCGACCAGGTCTTCCAGCAGGTCCTgtctcttatacac > GWNJ‑0478:712:GW2002102894th:2:1113:13909:51328/1‑136 (MQ=60)
GAACG‑GCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATCGAGCCCATCTTTTCCTGCGAGGTGGCTTCGGCCTTGCGCACGGCGTCATTGAAGGCGGCGGCGACCAGGTCTTCCAGCAGGTCCTTGTCTTCGCCCTCGGCC > GWNJ‑0478:712:GW2002102894th:2:2215:5733:6103/1‑148 (MQ=60)
|
CCTCGCGGTCGTGCTGCAGCAGGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCTTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACGCGCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATCGAGCCCATCTTTTCCTGCGAGGTGGCTTCGGCCTTGCGCACGGCGTCATTGAAGGCGGCGGCGACCAGGTCTTCCAGCAGGTCCTTGTCTTCGCCCTCGGCC > AM260479/2593991‑2594271
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
