Locus 6304

Sequence ID 3R_DroMel_CAF1
Location 16,456,681 – 16,456,801
Length 120
Max. P 0.873491
window10285

overview

Window 5

Location 16,456,681 – 16,456,801
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 76.06
Mean single sequence MFE -39.95
Consensus MFE -15.81
Energy contribution -16.78
Covariance contribution 0.98
Combinations/Pair 1.40
Mean z-score -2.43
Structure conservation index 0.40
SVM decision value 0.88
SVM RNA-class probability 0.873491
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16456681 120 - 27905053
GCCGCUGCGGAAGCAGCUUCAUGUGCUAGAGAAGCUGAAACAGGGAUCUCUGAUUGCCAAGAAGGGCAGCAAGGAAAAGGUGAAGACCAUGCUGCAGGACUUUCUGCGGGACCAGCGCAA
...(((((....)))))....(((((((((((..((......))..)))))(.(((((......))))))..((....(((....)))...(((((((....)))))))..)))))))). ( -44.10)
>DroVir_CAF1 14756 120 - 1
ACCACUGCGAAAACAGCUCGAAGUACUGGAAAAGCUCAAGCAGGGCUCCGUGAUAGCUAAGAAGGGCAGCAAGGAGAAAGUGCGCAACGUACUUCAGAAGUUCCUGCGCAACGAGCACAA
.(((.(((..............))).)))....((((..((((((((((.((...(((......)))..)).)))).(((((((...))))))).......)))))).....)))).... ( -34.24)
>DroGri_CAF1 16962 120 - 1
ACCGUUGCGGAAGCAGCUCGAAGUGCUGGAGAAACUGAAGCAGGGUUCGGUGAUAGCGAAGAAGGGCAGCAAGGAGAAGGUGCGCAAUGAGCUGCAAAAGUUUCUGCACAACGAGCACAA
.....(((....)))(((((..((((...(((((((...((((..((((.......))))...(.(((.(........).))).)......))))...)))))))))))..))))).... ( -42.50)
>DroWil_CAF1 13908 120 - 1
ACCGUUGCGGAAGCAGCUUCAAGUGUUGGAGAAACUGAAGCAGGGAUCUGUGAUAGCUAAAAAGGGUAGCAAGGAAAAAGUGCGACAUAUGCUGCAGGAGUUCCUACAGGAUCAGCACAG
...(((((....))))).....(((((((.....(((...)))...(((((....((((.......)))).(((((....((((.(....).))))....)))))))))).))))))).. ( -34.90)
>DroAna_CAF1 11419 120 - 1
GCCUCUGCGGAGGCAGUUGCAAGUGCUGGAAAAACUAAAACACAGCUCUGUGAUUGCCAAGAAGGGCAGCAAGGAGAAGGUCAAGUCGCUGCUGCAGGACUUUCUGCGAGAUCAACGAAA
..(((.(((((((((((..((.(.((((..............)))).)))..))))))...(((.((((((.(..((........)).)))))))....))))))))))).......... ( -39.74)
>DroPer_CAF1 12694 120 - 1
GCCGCUGCGGAAACAGCUGCAGGUGCUCGACAAACUGAAGCAGGUCUCUGUUUUAGCCAAGAAGGGCAGCAAGGAAAAGGUGAAAACCAUGCUGCAGGACUUUCUGAGGGAUCAGCGGAA
.((((((((((((...((((((.(((((......(((((((((....))))))))).......)))))..........(((....)))...))))))...))))))......)))))).. ( -44.22)
>consensus
ACCGCUGCGGAAGCAGCUCCAAGUGCUGGAGAAACUGAAGCAGGGCUCUGUGAUAGCCAAGAAGGGCAGCAAGGAAAAGGUGAAAAACAUGCUGCAGGACUUUCUGCGGGACCAGCACAA
...(((((....))))).....(((((.(.................(((.((...(((......)))..)).))).................((((((....))))))...).))))).. (-15.81 = -16.78 +   0.98)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:18:14 2006