Locus 4486

Sequence ID 3R_DroMel_CAF1
Location 11,879,662 – 11,879,760
Length 98
Max. P 0.943651
window7338

overview

Window 8

Location 11,879,662 – 11,879,760
Length 98
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 76.70
Mean single sequence MFE -33.67
Consensus MFE -18.91
Energy contribution -19.35
Covariance contribution 0.45
Combinations/Pair 1.27
Mean z-score -2.19
Structure conservation index 0.56
SVM decision value 1.34
SVM RNA-class probability 0.943651
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11879662 98 + 27905053
CCACUACAGGGGCACGUAAGGUCUUGAAAAAACCGGCGACGGUUAGUGGAGGAGGAGCUACAUCUGCCCCAACUGCAGCUCUUAAA---GCGGGUGGAAAA
((((....(((((((....).((((.(...(((((....)))))..).))))............))))))..((((..........---)))))))).... ( -32.50)
>DroGri_CAF1 53134 89 + 1
CCACGACAGGUGCCCGCAAGGUGAUUAAAAAACCAGCGGCAG------------CAGCAAGUGCAGCACCCGCUGCAUUAUCCAAGGCAGUCAGUGGCAAA
(((((((.(.(((((((..(((.........))).))))..)------------)).).((((((((....))))))))..........))).)))).... ( -32.80)
>DroSec_CAF1 35842 95 + 1
CCACCACAGGGGCACGUAAGGUCUUGAAAAAACCGGCGACAGUUAGUGGAGGAG---CUACAUCUGCUCCAACUGCAGCUCUAAAA---GCGGGUGGAAAG
(((((...(((((.(....)))))).........(((..((((...(((((.((---......)).)))))))))..)))......---...))))).... ( -30.40)
>DroSim_CAF1 36500 98 + 1
CCACCACAGGGGCACGUAAGGUCUUGAAAAAACCGGCAACGGUUAGUGGAGGAGGAUCUACAUCUGCCCCAACUGCAGCUCUUAAA---GCGGGUGGAAAA
(((((...((((((.((.............(((((....))))).(((((......))))))).)))))).......(((.....)---)).))))).... ( -37.90)
>DroEre_CAF1 36579 98 + 1
CCACCACAGGGGCACGUAAGGUUUUAAAAAAGCCGGCGGCUGUUGUUGGAGGAGGAGCUACAUCUAACCCUGCGGCAGCUUCUAAA---GCAGGUGGAAAA
(((((.....(((.(((..(((((.....))))).))))))(((((((.(((.(((......)))...))).))))))).......---...))))).... ( -33.30)
>DroYak_CAF1 37107 98 + 1
CCACUACAGGGGCCCGUAAGGUUUUGAAAAAGCCGGCGGCUGUUGGUGGAGGAGGAGCUACAUCUGCCCCUGCUGCAGCUUCUAAA---GCGGGUGGAAAA
(((((.(((((((((((..(((((.....))))).)))).....((((.((......)).)))).))))))).....(((.....)---)).))))).... ( -35.10)
>consensus
CCACCACAGGGGCACGUAAGGUCUUGAAAAAACCGGCGACAGUUAGUGGAGGAGGAGCUACAUCUGCCCCAACUGCAGCUCCUAAA___GCGGGUGGAAAA
(((((...(((((.(((..(((.........))).))).......((((........))))....)))))....((.............)).))))).... (-18.91 = -19.35 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:30:37 2006