Locus 8773

Sequence ID	3R_DroMel_CAF1
Location	23,432,844 – 23,432,939
Length	95
Max. P	0.999797

overview

Window 6

Location	23,432,844 – 23,432,939
Length	95
Sequences	5
Columns	95
Reading direction	forward
Mean pairwise identity	96.53
Mean single sequence MFE	-22.70
Consensus MFE	-20.46
Energy contribution	-20.50
Covariance contribution	0.04
Combinations/Pair	1.07
Mean z-score	-3.10
Structure conservation index	0.90
SVM decision value	4.10
SVM RNA-class probability	0.999797
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23432844 95 + 27905053
GACUAUUGCACAAUUUUCCUUUGGGCCUUUCUCUCUGGCCGUUUUUCUUUUCUUUUCUAUUUGCAAUCUUUGCAAUUCGGGGCAACCCAAGGCCC
......................(((((((...............................(((((.....)))))...(((....)))))))))) ( -23.00)
>DroSec_CAF1 25457 93 + 1
GACUAUUGCACAAUUUU-CUUUGGGCCUUUCUCUCUGGCCGUUUUUCUUUUCUUUUCUAUUUGCAAUCUUUGCAAUUCGGGGCAACCCAAG-CCC
((..(((((((((....-..)))((((.........))))..............................))))))))(((....)))...-... ( -21.20)
>DroSim_CAF1 23473 95 + 1
GACUAUUGCACAAUUUUCCUUUGGGCCUUUCUCUCUGGCCGUUUUUCUUUUCUUUUCUAUUUGCAAUCUUUGCAAUUCGGGGCAACCCAAGGCCC
......................(((((((...............................(((((.....)))))...(((....)))))))))) ( -23.00)
>DroEre_CAF1 22260 95 + 1
GACUAUUGCACAAUUUUCUUUUGGGCCUUUCUCUCUGGCCGUUUUUCUUUGCUUUCCUAUUUGCAAUCUUUGCAAUUCGGGGCAACCCAAGGCCC
......................(((((((...............................(((((.....)))))...(((....)))))))))) ( -23.00)
>DroYak_CAF1 23085 95 + 1
GACUAUUGCACAAUUUUUCUUUGGGCCUUUCUCUCUGCCCGUUUUUCUUUGCUUUUCUAUUUGCAAUCUUUGCAAUUCGGGGCAAUCCAAGGCCC
......................(((((((......(((((((........))........(((((.....)))))....)))))....))))))) ( -23.30)
>consensus
GACUAUUGCACAAUUUUCCUUUGGGCCUUUCUCUCUGGCCGUUUUUCUUUUCUUUUCUAUUUGCAAUCUUUGCAAUUCGGGGCAACCCAAGGCCC
......................(((((((...............................(((((.....)))))...(((....)))))))))) (-20.46 = -20.50 +   0.04)

alignment

secondary structure

dotplot

Window 7

Location	23,432,844 – 23,432,939
Length	95
Sequences	5
Columns	95
Reading direction	reverse
Mean pairwise identity	96.53
Mean single sequence MFE	-21.52
Consensus MFE	-18.80
Energy contribution	-19.20
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-1.99
Structure conservation index	0.87
SVM decision value	1.96
SVM RNA-class probability	0.984011
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23432844 95 - 27905053
GGGCCUUGGGUUGCCCCGAAUUGCAAAGAUUGCAAAUAGAAAAGAAAAGAAAAACGGCCAGAGAGAAAGGCCCAAAGGAAAAUUGUGCAAUAGUC
((((((((((....)))...(((((.....)))))...............................)))))))...................... ( -21.40)
>DroSec_CAF1 25457 93 - 1
GGG-CUUGGGUUGCCCCGAAUUGCAAAGAUUGCAAAUAGAAAAGAAAAGAAAAACGGCCAGAGAGAAAGGCCCAAAG-AAAAUUGUGCAAUAGUC
(((-(.......))))............((((((.....................((((.........))))(((..-....))))))))).... ( -18.00)
>DroSim_CAF1 23473 95 - 1
GGGCCUUGGGUUGCCCCGAAUUGCAAAGAUUGCAAAUAGAAAAGAAAAGAAAAACGGCCAGAGAGAAAGGCCCAAAGGAAAAUUGUGCAAUAGUC
((((((((((....)))...(((((.....)))))...............................)))))))...................... ( -21.40)
>DroEre_CAF1 22260 95 - 1
GGGCCUUGGGUUGCCCCGAAUUGCAAAGAUUGCAAAUAGGAAAGCAAAGAAAAACGGCCAGAGAGAAAGGCCCAAAAGAAAAUUGUGCAAUAGUC
(((((((.((((((.((...(((((.....)))))...))...)))..........))).......)))))))...................... ( -21.80)
>DroYak_CAF1 23085 95 - 1
GGGCCUUGGAUUGCCCCGAAUUGCAAAGAUUGCAAAUAGAAAAGCAAAGAAAAACGGGCAGAGAGAAAGGCCCAAAGAAAAAUUGUGCAAUAGUC
(((((((...((((((....(((((.....)))))...(.....)..........)))))).....)))))))...................... ( -25.00)
>consensus
GGGCCUUGGGUUGCCCCGAAUUGCAAAGAUUGCAAAUAGAAAAGAAAAGAAAAACGGCCAGAGAGAAAGGCCCAAAGGAAAAUUGUGCAAUAGUC
((((((((((....)))...(((((.....)))))...............................)))))))...................... (-18.80 = -19.20 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:19:29 2006