Locus 3524

Sequence ID 3R_DroMel_CAF1
Location 9,520,688 – 9,520,802
Length 114
Max. P 0.505133
window5665

overview

Window 5

Location 9,520,688 – 9,520,802
Length 114
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 83.10
Mean single sequence MFE -36.95
Consensus MFE -23.52
Energy contribution -26.05
Covariance contribution 2.53
Combinations/Pair 1.16
Mean z-score -1.91
Structure conservation index 0.64
SVM decision value -0.06
SVM RNA-class probability 0.505133
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9520688 114 + 27905053
CAGGAGUACCUGCGCCAACAGCGUGACAAGAUUGUGGAGAUAAAGAAGCAGACGCGUGCAAAGCAACUGCAAGAGACCAUGUCCCGCGGUACUCCACAUGCACCGGAAGGAGCA
..((((((((.((((.....)))).........((((.((((.....((((..((.......))..))))..(....).))))))))))))))))...(((.((....)).))) ( -43.10)
>DroSec_CAF1 7009 114 + 1
CAGGAGUACCUGCGCCAACAGCGUGACAAGAUUGUGGAGAUAAAGAAGCAGACGCGUGCAAAGCAACUGCAGGAGACCAUGUCCCGAGGUACUCCACAUGCACCGGAAGGAGCG
..(((((((((((((.....))))..........(((.((((.....((((..((.......))..)))).(....)..))))))))))))))))....((.((....)).)). ( -43.40)
>DroEre_CAF1 7155 114 + 1
CAGGAGUACCUGCGCCAGCAGCGUGACAAGAUUGUGCAGAUAAAGAAGCAGACGCGUGCAAGGCAACUGCAAGAGACCAUGUCCCGAGGUACUCCACAUGCUCCGGAGGGAGCG
..(((((((((((....))..((.((((.(.((.(((((........((....)).(((...))).)))))...)).).)))).)))))))))))....(((((....))))). ( -42.70)
>DroWil_CAF1 7270 111 + 1
CAGGAAUACUUGCGCCAACAGCGAGAUAAAAUUGUUGAAAUAAAGAAACAAACGCGUGCCAAACAGCUUCAGGAUACAAUGGCACGCACUAGUCCACCAGAUG---CAGGAGUU
........((((((.(..((((((.......))))))................((((((((.....(.....)......))))))))............).))---)))).... ( -26.50)
>DroYak_CAF1 7014 114 + 1
CAGGAGUACCUGCGCCAGCAGCGUGACAAGAUUGUGCAGAUAAAGAAGCAGACGCGUGCAAAGCAACUACAAGAGACCAUGUCCCGAGGUACUCCACAUGCUCCGGAGGGAGCG
..(((((((((((....(((((((.(((....)))((..........))..)))).)))...))........(.(((...))).).)))))))))....(((((....))))). ( -37.20)
>DroAna_CAF1 13707 114 + 1
CAGGAGUAUCUUCGCCAACAGCGCGACAAAAUAGUGGAAAUCAAGAAGCAAACACGGGCCAAGCAGUUGCAAGAGACCAUGUCCCGUGGCACGCCGCAUGCUCCAGAAGGAGCU
..((..(((..((((.....))(((((......(((................)))..((...)).)))))....))..)))..))((((....))))..(((((....))))). ( -28.79)
>consensus
CAGGAGUACCUGCGCCAACAGCGUGACAAGAUUGUGGAGAUAAAGAAGCAGACGCGUGCAAAGCAACUGCAAGAGACCAUGUCCCGAGGUACUCCACAUGCUCCGGAAGGAGCG
..((((((((.((((.....))))((((...((((....))))....((((..((.......))..)))).........))))....))))))))....(((((....))))). (-23.52 = -26.05 +   2.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:03:21 2006