Locus 5992

Sequence ID 3R_DroMel_CAF1
Location 15,781,381 – 15,781,483
Length 102
Max. P 0.607140
window9785

overview

Window 5

Location 15,781,381 – 15,781,483
Length 102
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 79.85
Mean single sequence MFE -20.57
Consensus MFE -10.35
Energy contribution -10.05
Covariance contribution -0.30
Combinations/Pair 1.35
Mean z-score -2.15
Structure conservation index 0.50
SVM decision value 0.15
SVM RNA-class probability 0.607140
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15781381 102 + 27905053
GCGUGGCCAAUUUGAAGCCAAGUUUCUCAUAC-AAAAGUU-CGGGCUGCAAUAAUGCCAAAAAAAAAAAAUGAGAAACAGCUACAGCAAACGAAACUAGACCCA
(((((((....(((....)))(((((((((..-.....((-..(((.........)))..)).......))))))))).))))).))................. ( -23.64)
>DroSec_CAF1 2740 100 + 1
GCGUGGCCAAUUUGAAGCCAAGUUUCUCAUAC-AAAAGUUCCGGGCUGCAAUAAUGCCAAAAA---CAAAUGAGAAACAGCUACAGCAAACGAAACCAAACCCA
(((((((....(((....)))(((((((((..-....(((...(((.........)))...))---)..))))))))).))))).))................. ( -23.00)
>DroSim_CAF1 6959 100 + 1
GCGUGGCCAAUUUGAAGCCAAGUUUCUCAUAC-AAAAGUUCCGGGCUGCAAUAAUGCCAAAAA---CAAAUGAGAAACAGCUACAGCAAACGAAACCAGACCCA
(((((((....(((....)))(((((((((..-....(((...(((.........)))...))---)..))))))))).))))).))................. ( -23.00)
>DroEre_CAF1 6514 99 + 1
GCGUGGCCAAUUUGAAGCAAAGUUUCUCAUAC-AAAAGUU-GGGCCUGCAAUAAUGCCAAAAA---CAAAUGGGAAACAGCUACAGCAAACGAAACCAGAACCA
(((((((...((((...))))(((((((((..-....(((-.(((.(......).)))...))---)..))))))))).))))).))................. ( -21.20)
>DroWil_CAF1 24103 80 + 1
AUUGGAAUCAUUUAAAGGCAAGUUUUCUGUAUGAAAAGUU-CG----GCAAUAAUCCCAGAAA---CAAAUACAAAACUGUAAAAGCA----------------
.................(((.((((..(((((......((-((----(........)).))).---...)))))))))))).......---------------- (  -8.00)
>DroYak_CAF1 23899 99 + 1
GCGUGGCCAAUUUGGAGCAAAGUUUCUCAUAC-AAAAGUU-CGGCCUGCAAUAAUGCCAAAAA---CAAAUGAGAAACAGCUUCAGGAAACGAAACCAGAACCA
.(((..((....((((((...(((((((((..-.....((-.(((.(......).))).))..---...))))))))).))))))))..)))............ ( -24.60)
>consensus
GCGUGGCCAAUUUGAAGCCAAGUUUCUCAUAC_AAAAGUU_CGGGCUGCAAUAAUGCCAAAAA___CAAAUGAGAAACAGCUACAGCAAACGAAACCAGACCCA
..((((((.....).......(((((((((......((.......))(((....)))............))))))))).))))).................... (-10.35 = -10.05 +  -0.30)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:10:00 2006