1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
|
Command line: [exonerate -m coding2coding c2c_frameshift2.fa scer_cad1.fa --showvulgar no --showalignment yes --bestn 3]
Hostname: [blackbriar]
C4 Alignment:
------------
Query: gi|296143771|ref|NM_001180731.1| Saccharomyces cerevisiae S288c Cad1p (CAD1) mRNA, complete cds
Target: gi|296143771|ref|NM_001180731.1| Saccharomyces cerevisiae S288c Cad1p (CAD1) mRNA, complete cds
Model: coding2coding
Raw score: 213
Query range: 0 -> 160
Target range: 465 -> 630
1 : ACTGTGAACACAAGTATAGAAGTACAGCCGCACACTCAAGAGAATGAGAAAGTTATGTGGAACA : 64
ThrValAsnThrSerIleGluValGlnProHisThrGlnGluAsnGluLysValMetTrpAsnI
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
ThrValAsnThrSerIleGluValGlnProHisThrGlnGluAsnGluLysValMetTrpAsnI
466 : ACTGTGAACACAAGTATAGAAGTACAGCCGCACACTCAAGAGAATGAGAAAGTTATGTGGAACA : 529
65 : TAGGCTCATGGAACGCTCCCAGTTTAACCAAATTCGTGGGATACTCCCCCCGGAAATCGAACA- : 128
leGlySerTrpAsnAlaProSerLeuThr#AsnSerTrpAspThrProProGlyAsnArgThr-
|||||||||||||||||||||||||||||#||||||||||||:!!||||||||||||||||||#
leGlySerTrpAsnAlaProSerLeuThr-AsnSerTrpAspSerProProGlyAsnArgThr#
530 : TAGGCTCATGGAACGCTCCCAGTTTAACC-AATTCGTGGGATTCTCCCCCCGGAAATCGAACAG : 592
129 : -TGCCGTTACCAT----GACGAAAGTATTAATGGTAGT : 160
-CysArgTyrHis----AspGluSerIleAsnGlySer
#||||||||||||####|||||||||||||||||||||
#CysArgTyrHis####AspGluSerIleAsnGlySer
593 : GTGCCGTTACCATCGGTGACGAAAGTATTAATGGTAGT : 630
C4 Alignment:
------------
Query: gi|296143771|ref|NM_001180731.1| Saccharomyces cerevisiae S288c Cad1p (CAD1) mRNA, complete cds:[revcomp]
Target: gi|296143771|ref|NM_001180731.1| Saccharomyces cerevisiae S288c Cad1p (CAD1) mRNA, complete cds:[revcomp]
Model: coding2coding
Raw score: 201
Query range: 158 -> 1
Target range: 628 -> 466
158 : TACCATTAATACTTTCGTCATGGT<-><->AACGGCATGTTCGATTTCCGGGGGGAGTATCCCA : 101
TyrHis***TyrPheArgHisGly<-><->AsnGlyMetPheAspPheArgGlyGluTyrProT
||||||||||||||||||||+ ! ... !:!!|||||||||||||||||| !!||||
TyrHis***TyrPheArgHisArgTrp***ArgHisLeuPheAspPheArgGlyGluAsnProT
628 : TACCATTAATACTTTCGTCACCGATGGTAACGGCACCTGTTCGATTTCCGGGGGGAGAATCCCA : 565
100 : CGAATTTGGTTAAACTGGGAGCGTTCCATGAGCCTATGTTCCACATAACTTTCTCATTCTCTTG : 37
hrAsn#TrpLeuAsnTrpGluArgSerMetSerLeuCysSerThr***LeuSerHisSerLeuG
|||||#||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
hrAsn-TrpLeuAsnTrpGluArgSerMetSerLeuCysSerThr***LeuSerHisSerLeuG
564 : CGAAT-TGGTTAAACTGGGAGCGTTCCATGAGCCTATGTTCCACATAACTTTCTCATTCTCTTG : 502
36 : AGTGTGCGGCTGTACTTCTATACTTGTGTTCACAG : 2
luCysAlaAlaValLeuLeuTyrLeuCysSerGln
|||||||||||||||||||||||||||||||||||
luCysAlaAlaValLeuLeuTyrLeuCysSerGln
501 : AGTGTGCGGCTGTACTTCTATACTTGTGTTCACAG : 467
-- completed exonerate analysis
|
