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 |
| MC JC |
AM260479 |
3,376,159 |
(CGGTGGCGCTCG)2→1 |
coding (378‑389/1146 nt) |
phcR ← |
signal transduction histidine kinase containing a receiver domain (hybrid) |
|
| | | | seq id |
start |
end |
size |
←reads |
reads→ |
gene |
description |
|---|
| * |
* |
÷ |
AM260479 |
3376140 |
3376151 |
12 |
25 [0] |
[0] 25 |
phcR |
signal transduction histidine kinase containing a receiver domain (hybrid) |
|
| |
seq id |
position |
reads (cov) |
reads (cov) |
score |
skew |
freq |
annotation |
gene |
product |
| * |
? |
AM260479 |
3376152 = | 0 (0.000) | 21 (1.010) |
17/168 |
0.2 |
100% |
coding (396/1146 nt) |
phcR |
signal transduction histidine kinase containing a receiver domain (hybrid) |
| ? | AM260479 |
= 3376139 |
0 (0.000) | coding (409/1146 nt) |
phcR |
signal transduction histidine kinase containing a receiver domain (hybrid) |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
ACACGTCCGCGGATGCCGTGGGCAAAGTTGGCGATGGCAGCCAGCGGGGTATTCAGCTCATGCGCCAGGAAGGCCAGGGTCTCGTCGATCGCCATCAGCCGGTGCTGGCGCAGGGTGCGCTCGCGGTGGCGCTCGCGGTGGCGCTCGGCGGCGCCTGCCAGCACCTCGCGCAGGTCGGCCACGCTCAGCGGCTTTTCCAGGATGCGGAAGACTTCGCCGCTGTTGACCGTTTCCAGCAGCACATCCTTGTCGGCATAGGCGGTGACCAGGATGCGCACGATCTGC > AM260479/3376024‑3376308
|
acggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagaCAGCTCATGCGCCAGGAAGGCCAGGGTCTCGTCGATCGCCATCAGCCGGTGCTGGCGCAGGGT‑‑‑‑‑‑‑‑‑‑‑‑GCGCTCGCGGTGGCGCTCGGCGGCGCCTGCCAGC < GWNJ‑0478:712:GW2002102894th:2:1107:8910:2747/97‑1 (MQ=60)
ACGTCCGCGGATGCCGTGGGCAAAGTTGGCGATGGCAGCCAGCGGGGTATTCAGCTCATGCGCCAGGAAGGCCAGGGTCTCGTCGATCGCCATCAGCCGGTGCTGGCGCAGGGT‑‑‑‑‑‑‑‑‑‑‑‑GCGCTCGCGGTGGCGCTCGGCGGCGCCTGCCAGCAC < GWNJ‑0478:712:GW2002102894th:2:1209:17330:17695/150‑1 (MQ=60)
ACGTCCGCGGATGCCGTGGGCAAAGTTGGCGATGGCAGCCAGCGGGGTATTCAGCTCATGCGCCAGGAAGGCCAGGGTCTCGTCGATCGCCATCAGCCGGTGCTGGCGCAGGGT‑‑‑‑‑‑‑‑‑‑‑‑GCGCTCGCGGTGGCGCTCGGCGGCGCCTGCCAGCAC < GWNJ‑0478:712:GW2002102894th:2:1204:2167:28667/150‑1 (MQ=60)
caagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaggagcgtggccgacctgcgcgaggtgctggcgcagggtGCGCTCGCGGTGGCGCTCGGCGGCGCCTGCCAGCACCggctgatgg < GWNJ‑0478:712:GW2002102894th:2:1211:20121:76000/46‑10 (MQ=9)
GTTGGCGATGGCAGCCAGCGGGGTATTCAGCTCATGCGCCAGGAAGGCCAGGGTCTCGTCGATCGCCATCAGCCGGTGCTGGCGCAGGGT‑‑‑‑‑‑‑‑‑‑‑‑GCGCTCGCGGTGGCGCTCGGCGGCGCCTGCCAGCACCTCGCGCAGGTCGGCCACGCTC > GWNJ‑0478:712:GW2002102894th:2:2214:8319:74000/1‑148 (MQ=60)
gtgtataagagacaGGTATTCAGCTCATGCGCCAGGAAGGCCAGGGTCTCGTCGATCGCCATCAGCCGGTGCTGGCGCAGGGT‑‑‑‑‑‑‑‑‑‑‑‑GCGCTCGCGGTGGCGCTCGGCGGCGCCTGCCAGCACCTCGCGCAGGTCGGCCACGCTCAGCGGCTT < GWNJ‑0478:712:GW2002102894th:2:2104:12302:9523/135‑1 (MQ=60)
GCAGCCAGCGGGGTATTCAGCTCATGCGCCAGGAAGGCCAGGGTCTCGTCGATCGCCATCAGCCGGTGCTGGCGCAGGGT‑‑‑‑‑‑‑‑‑‑‑‑GCGCTCGCGGTGGCGCTCGGCGGCGCCTGCCAGCACCTCGCGCAGGTCGGCCACGCTCAGCGGCTTTTCC < GWNJ‑0478:712:GW2002102894th:2:2210:18393:3306/150‑1 (MQ=60)
AGCCAGCGGGGTATTCAGCTCATGCGCCAGGAAGGCCAGGGTCTCGTCGATCGCCATCAGCCGGTGCTGGCGCAGGGT‑‑‑‑‑‑‑‑‑‑‑‑GCGCTCGCGGTGGCGCTCGGCGGCGCCTGCCAGCACCTCGCGCAGGTCGGCCACGCTCAGCGGCTTTTCCAG < GWNJ‑0478:712:GW2002102894th:2:1113:20521:85764/150‑1 (MQ=60)
GGGGTATTCAGCTCATGCGCCAGGAAGGCCAGGGTCTCGTCGATCGCCATCAGCCGGTGCTGGCGCAGGGT‑‑‑‑‑‑‑‑‑‑‑‑GCGCTCGCGGTGGCGCTCGGCGGCGCCTGCCAGCACCTgtctcttatacacatctccgagcccacgagacactcgcta > GWNJ‑0478:712:GW2002102894th:2:2111:3394:87806/1‑109 (MQ=60)
GGGTATTCAGCTCATGCGCCAGGAAGGCCAGGGTCTCGTCGATCGCCATCAGCCGGTGCTGGCGCAGGGT‑‑‑‑‑‑‑‑‑‑‑‑GCGCTCGCGGTGGCGCTCGGCGGCGCCTGCCAGCACCTCGCGCAGGTCGGCCACGCTCAGCGGCTTTTCCAGGATGCGGA < GWNJ‑0478:712:GW2002102894th:2:1108:12085:48261/150‑1 (MQ=60)
CGATCGCCATCAGCCGGTGCTGGCGCAGGGT‑‑‑‑‑‑‑‑‑‑‑‑GCGCTCGCGGTGGCGCTCGGCGGCGCCTGCCAGCACCTCGCGCAGGTCGGCCACGCTCAGCGGCTTTTCCAGGATGCGGAAGACTTCGCCGCTGTTGACCGTTTCCAGCAGCACATCCT < GWNJ‑0478:712:GW2002102894th:2:2202:20120:29723/150‑1 (MQ=60)
GCCGGTGCTGGCGCAGGGT‑‑‑‑‑‑‑‑‑‑‑‑GCGCTCGCGGTGGCGCTCGGCGGCGCCTGCCAGCACCTCGCGCAGGTCGGCCACGCTCAGCGGCTTTTCCAGGATGCGGAAGACTTCGCCGCTGTTGACCGTTTCCAGCAGCACATCCTTGTCGGCATAGG < GWNJ‑0478:712:GW2002102894th:2:1210:9163:97729/150‑1 (MQ=60)
TGCTGGCGCAGGGT‑‑‑‑‑‑‑‑‑‑‑‑GCGCTCGCGGTGGCGCTCGGCGGCGCCTGCCAGCACCTCGCGCAGGTCGGCCACGCTCAGCGGCTTTTCCAGctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgct > GWNJ‑0478:712:GW2002102894th:2:1109:17927:44831/1‑86 (MQ=60)
ggcgcagggtGCGCTCGCGGTGGCGCTCGGCGGCGCCTGCCAGCACCTCGCGCAGGTCGGCCACGCTCAGCGGCTTTTCCAGGATGCGGAAGACctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgt > GWNJ‑0478:712:GW2002102894th:2:2201:10362:44722/11‑94 (MQ=60)
ggcgcagggtGCGCTCGCGGTGGCGCTCGGCGGCGCCTGCCAGCACCTCGCGCAGGTCGGCCACGCTCAGCGGCTTTTCCAGGATGCGGAAGACTTCGCCGCTGTTGACCGTTTCCAGCAGCACATCCTTGTCGGCATAGGCGGTGACC < GWNJ‑0478:712:GW2002102894th:2:1203:5039:12101/139‑1 (MQ=60)
cgcagggtGCGCTCGCGGTGGCGCTCGGCGGCGCCTGCCAGCACCTCGCGCAGGTCGGCCACGCTCAGCGGCTTTTCCAGGATGCGGAAGACTTCGCCGCTGTTGACCGTTTCCAGCAGCACATCCTTGTCGGCATAGGCGGTGACCAGG < GWNJ‑0478:712:GW2002102894th:2:2211:18982:58805/142‑1 (MQ=60)
CGCGGTGGCGCTCGGCGGCGCCTGCCAGCACCTCGCGCAGGTCGGCCACGCTCAGCGGCTTTTCCAGGATGCGGAAGACTTCGCCGCTGTTGACCGTTTCCAGCAGCACATCCTTGTCGGCATAGGCGGTGACCAGGATGCGCACGATCT < GWNJ‑0478:712:GW2002102894th:2:2207:5166:73111/150‑1 (MQ=60)
CGGTGGCGCTCGGCGGCGCCTGCCAGCACCTCGCGCAGGTCGGCCACGCTCAGCGGCTTTTCCAGGATGCGGAAGACTTCGCCGCTGTTGACCGTTTCCAGCAGCACATCCTTGTCGGCATAGGCGGTGACCAGGATGCGCACGATCTGC > GWNJ‑0478:712:GW2002102894th:2:2211:14298:34170/1‑150 (MQ=60)
|
ACACGTCCGCGGATGCCGTGGGCAAAGTTGGCGATGGCAGCCAGCGGGGTATTCAGCTCATGCGCCAGGAAGGCCAGGGTCTCGTCGATCGCCATCAGCCGGTGCTGGCGCAGGGTGCGCTCGCGGTGGCGCTCGCGGTGGCGCTCGGCGGCGCCTGCCAGCACCTCGCGCAGGTCGGCCACGCTCAGCGGCTTTTCCAGGATGCGGAAGACTTCGCCGCTGTTGACCGTTTCCAGCAGCACATCCTTGTCGGCATAGGCGGTGACCAGGATGCGCACGATCTGC > AM260479/3376024‑3376308
|
| 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: ‑ |
