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 |
2,594,082 |
T→C |
Q124Q (CAA→CAG) |
cR ← |
Recombinational DNA repair protein (RecF pathway) |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 2,594,082 | 0 | T | C | 100.0%
| 70.1
/ NA
| 19 | Q124Q (CAA→CAG) | cR | Recombinational DNA repair protein (RecF pathway) |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (8/11); total (8/11) |
CGCCGCGCAGCGCATCGCCCAGCTTGCGCGCGCCCTCGCGGTCGTGCTGCAGCAGGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCTTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACGCGCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATCGAGCCCATCTTTTCCTGCGAGGTGGCTTCGGCCTTGCGCA > AM260479/2593958‑2594209
|
cgccgcgcAGCGCATCGCCCAGCTTGCGCGCGCCCTCGCGGTCGTGCTGCAGCAGGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAg < 1:1018994/134‑1 (MQ=255)
cagcgcaTCGCCCAGCTTGCGCGCGCCCTCGCGGTCGTGCTGCAGCAGGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCgggg < 2:390012/134‑1 (MQ=255)
tGCGCGCGCCCTCGCGGTCGTGCTGCAGCAGGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACg > 1:404157/1‑120 (MQ=255)
tGCGCGCGCCCTCGCGGTCGTGCTGCAGCAGGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACg < 2:404157/120‑1 (MQ=255)
cTCGCGGTCGTGCTGCAGCAGGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGaa < 1:593547/134‑1 (MQ=255)
aTGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCGCAGTGGCGTTCAGAACG‑GCAGCTTGAAGCCCGGGGGCAGCGGCAgg < 2:325566/134‑1 (MQ=255)
cTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCgg > 1:443436/1‑69 (MQ=255)
cTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCgg < 2:443436/69‑1 (MQ=255)
gACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACG‑GCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATc > 1:985952/1‑134 (MQ=255)
gggCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACG‑GCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATCGAGcc > 2:476172/1‑134 (MQ=255)
cGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTc > 1:624914/1‑50 (MQ=255)
cGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTc < 2:624914/50‑1 (MQ=255)
cGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAAcggca < 1:1103376/86‑4 (MQ=255)
cGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAAcggca > 2:1103376/1‑83 (MQ=255)
cGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACG‑GCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAgg < 2:1000837/119‑1 (MQ=255)
cGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACG‑GCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAgg > 1:1000837/1‑119 (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)
|
CGCCGCGCAGCGCATCGCCCAGCTTGCGCGCGCCCTCGCGGTCGTGCTGCAGCAGGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCTTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACGCGCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATCGAGCCCATCTTTTCCTGCGAGGTGGCTTCGGCCTTGCGCA > AM260479/2593958‑2594209
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ 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
ATGGCGGATATGGTCCGCCGCGCCGCGCAGCGCATCGCCCAGCTTGCGCGCGCCCTCGCGGTCGTGCTGCAGCAGGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCTTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACGCGCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATCGAGCCCATCTTTTCCTGCGAGGTGGCTTCGGCCTTGCGCACGGCGTCATTGAAGGCGGC > AM260479/2593938‑2594228
|
AGGGCGGATATGGTCCGCCGCGCCGCGCAGCGCATCGCCCAGCTTGCGCGCGCCCTCGCGGTCGTGCTGCAGCAGGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAG < GWNJ‑0478:712:GW2002102894th:2:2213:4359:63989/150‑1 (MQ=60)
ttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagaCAGGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAG < GWNJ‑0478:712:GW2002102894th:2:2211:8806:52817/78‑1 (MQ=60)
GATATGGTCCGCCGCGCCGCGCAGCGCATCGCCCAGCTTGCGCGCGCCCTCGCGGTCGTGCTGCAGCAGGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGT < GWNJ‑0478:712:GW2002102894th:2:1108:8273:33543/150‑1 (MQ=60)
GATATGGTCCGCCGCGCCGCGCAGCGCATCGCCCAGCTTGCGCGCGCCCTCGCGGTCGTGCTGCAGCAGGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGT < GWNJ‑0478:712:GW2002102894th:2:2203:21006:79119/150‑1 (MQ=60)
GCGCCGCGCAGCGCATCGCCCAGCTTGCGCGCGCCCTCGCGGTCGTGCTGCAGCAGGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCC < GWNJ‑0478:712:GW2002102894th:2:2211:5224:79708/150‑1 (MQ=60)
GCGCATCGCCCAGCTTGCGCGCGCCCTCGCGGTCGTGCTGCAGCAGGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGG > GWNJ‑0478:712:GW2002102894th:2:1208:1368:37653/1‑150 (MQ=60)
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)
GTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtat > GWNJ‑0478:712:GW2002102894th:2:1211:8895:48196/1‑99 (MQ=60)
GCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACG‑GCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATCG > GWNJ‑0478:712:GW2002102894th:2:2207:14416:95363/1‑150 (MQ=60)
GGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaa > GWNJ‑0478:712:GW2002102894th:2:2105:9417:32170/1‑80 (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)
|
ATGGCGGATATGGTCCGCCGCGCCGCGCAGCGCATCGCCCAGCTTGCGCGCGCCCTCGCGGTCGTGCTGCAGCAGGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCTTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACGCGCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATCGAGCCCATCTTTTCCTGCGAGGTGGCTTCGGCCTTGCGCACGGCGTCATTGAAGGCGGC > AM260479/2593938‑2594228
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
