Locus 5210

Sequence ID 2R_DroMel_CAF1
Location 16,960,893 – 16,960,991
Length 98
Max. P 0.872844
window8324

overview

Window 4

Location 16,960,893 – 16,960,991
Length 98
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 81.31
Mean single sequence MFE -20.98
Consensus MFE -15.09
Energy contribution -15.53
Covariance contribution 0.45
Combinations/Pair 1.15
Mean z-score -2.21
Structure conservation index 0.72
SVM decision value 0.88
SVM RNA-class probability 0.872844
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16960893 98 + 20766785
GAGAACAG------------AGAAACAAAAGGUGGAAUAAAGGCGAAGUUUGCUGAAGAAG---AAAAAAAAAAGGCUAACUGAGGUGGUAACUUUAUUUCAGCGCGUUUUCG
((((((.(------------.....)....(.((((((((((.((.((((.(((.......---..........))).))))....))....)))))))))).)..)))))). ( -18.93)
>DroSec_CAF1 57829 99 + 1
GAGAACAG------------AGCAACAAAAGGUGGAAUAAAGGCGAAGUUGGCUGAAGAAGCAGAAAA--AAAAGGCUAACUGAGGUGGUAACUUUAUUUCAGCGCGUUUUCG
((((((..------------.((..(....).((((((((((.((.((((((((..............--....))))))))....))....))))))))))))..)))))). ( -23.07)
>DroSim_CAF1 61730 101 + 1
GAGAACAG------------AGCAACAAAAGGUGGAAUAAAGCCGAAGUUGGCUGAAGAAGCAGAAAAAAAAAAGGCUAACUGAGGUGGUAACUUUAUUUCAGCGCGUUUUCG
((((((..------------..((((....(((........)))...))))(((((((.(((.............)))...((((((....)))))))))))))..)))))). ( -25.62)
>DroEre_CAF1 59226 94 + 1
GAGAACAG------------AACAACAAAAGAUGGAAUAAAGGGGAAGUUUGCUGAAGAA-----AAAAA--AUGGCAAACUGAGGUGGUAACUUUAUUUCAGCGCGUUUUCG
((((((.(------------.....)....(.((((((((((..(.((((((((......-----.....--..)))))))).......)..)))))))))).)..)))))). ( -20.82)
>DroYak_CAF1 61254 96 + 1
GAGAACAG------------AGCAACAAAAGAUGGAAUAAAGGGGAAGUUUGCUGAAGAA-----AAAAAAAGUGGCAAACUGAGGUGGUAACUUUAUUUCAGCGCGUGUUCG
..(((((.------------.((..(....).((((((((((..(.((((((((......-----.........)))))))).......)..))))))))))..)).))))). ( -22.76)
>DroAna_CAF1 62484 109 + 1
GAAAAAUGGAGUGAAAGUCUGGCAACAAUAGAUGGAAUAAAGGAAAAAAUUGGAGAGCGAGCG--AAG--AAAAGGCAAACUGAGGUGGUAACUAUAUUUCAGCGUUAUUUCG
.......(((((((..(((((....).......................(((.....)))...--...--...))))...((((((((.......))))))))..))))))). ( -14.70)
>consensus
GAGAACAG____________AGCAACAAAAGAUGGAAUAAAGGCGAAGUUUGCUGAAGAAG____AAAAAAAAAGGCAAACUGAGGUGGUAACUUUAUUUCAGCGCGUUUUCG
((((((...................(....).((((((((((..(.((((((((....................)))))))).......)..))))))))))....)))))). (-15.09 = -15.53 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:12 2006