Locus 1638

Sequence ID 3L_DroMel_CAF1
Location 4,761,635 – 4,761,734
Length 99
Max. P 0.828621
window2535

overview

Window 5

Location 4,761,635 – 4,761,734
Length 99
Sequences 5
Columns 99
Reading direction reverse
Mean pairwise identity 90.27
Mean single sequence MFE -33.16
Consensus MFE -23.32
Energy contribution -25.68
Covariance contribution 2.36
Combinations/Pair 1.15
Mean z-score -2.71
Structure conservation index 0.70
SVM decision value 0.71
SVM RNA-class probability 0.828621
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4761635 99 - 23771897
CCGCCAUGCCAAGCACCUGUCUACGUGCUCUGGUCGCUACUUGGCCAACAAAAAUUGCGGCCAGCCGUCCACUUAACCCAUUGUGGCUGAACGGUGGAA
(((((......(((((........)))))((((((((...(((.....))).....)))))))).((.((((..........)))).))...))))).. ( -32.70)
>DroSec_CAF1 24416 99 - 1
CCACCAUUCCAAGCACCUGUCUACGUGCUCUGGUCGCUACUUGGCGAACAAAAAUGGCGGCCAGCCGUCCACUUAACCCAUUGUGGUUGAACGGUGGAA
(((((.(((..(((((........)))))((((((((((.(((.....)))...))))))))))....((((..........))))..))).))))).. ( -35.40)
>DroSim_CAF1 21735 99 - 1
CCACCAUGCCAAGCACCUGUCUACGUGCUCUGGUCGCUACUUGGCCAACAAAAAUGGCGACCAGCCGUCCACUUAACCCAUUGUGGUUGAACGGUGGAA
(((((......(((((........)))))((((((((((.(((.....)))...)))))))))).((.((((..........)))).))...))))).. ( -36.00)
>DroEre_CAF1 13630 91 - 1
CCACCAAGCCAAGCACCUGUCUACGUGCUCCGGUCGCCACUUGGCCAACAAAAAUGG---CCAGC-----ACUUAACCCAUUGUGGCUGAACGGUGGAA
(((((..(((.(((((........)))))..))).((((((((((((.......)))---)))).-----............))))).....))))).. ( -33.71)
>DroYak_CAF1 20560 93 - 1
CCACCAUACCAAGCACCUGUCUACGUGCUCCGGUCGCCACUUGGCCAACAAAAAUGG---CCAGCAGUCCACUUAACCCAUUGUGGCUGAACG---GAA
............((((........))))((((.((((((((((((((.......)))---)))).((....)).........))))).)).))---)). ( -28.00)
>consensus
CCACCAUGCCAAGCACCUGUCUACGUGCUCUGGUCGCUACUUGGCCAACAAAAAUGGCG_CCAGCCGUCCACUUAACCCAUUGUGGCUGAACGGUGGAA
(((((..(((((((((........)))))((((((((((.(((.....)))...))))))))))...................)))).....))))).. (-23.32 = -25.68 +   2.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:12:34 2006