Locus 1536

Sequence ID 3R_DroMel_CAF1
Location 4,390,719 – 4,390,839
Length 120
Max. P 0.639410
window2545

overview

Window 5

Location 4,390,719 – 4,390,839
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 86.83
Mean single sequence MFE -38.14
Consensus MFE -29.28
Energy contribution -29.60
Covariance contribution 0.32
Combinations/Pair 1.32
Mean z-score -1.63
Structure conservation index 0.77
SVM decision value 0.22
SVM RNA-class probability 0.639410
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4390719 120 - 27905053
AGGAACUCUGUCGCUCUUUGCAGAUUUGUUCAAUUUCAGCUGCAAGAAUAGGGUUCCUGGCAGGUGAGGUCACCUUUGUCUGCAGCGGAUUUUCCGGCUCUGGUUCUUGUGAUAGUUCCA
.((((((..(((((.....((((...((........)).))))(((((((((((.....(((((..(((....)))..)))))..(((.....)))))))).))))))))))))))))). ( -42.40)
>DroSec_CAF1 3087 120 - 1
AGGAACUCUGUCGCUCUUUGCAGAUUUGUUCAAUUUCAGCGGCAAGAAUGGGGUUCCUGGCAGGUGAGGUCACCUUUGUCUGCAGCGUCUUUUCUGGCUCUGGUUCUUGUGAUGGUUCCA
.((((((..(((((.....))....................((((((((.(((......(((((..(((....)))..)))))...(((......)))))).))))))))))))))))). ( -37.70)
>DroSim_CAF1 3066 120 - 1
AGGAACUCUGUCGCUCUUUGCAGAUUUGUUCAAUUUCAGCGGCGAGAAUGGGGUUCCUGGCAGGUGAGGUCACCUUUGUCUGCAGCGUCUUUUCUGGCUCUGGUUCUUGUGAUGGUUCCA
(((((((((((..(((.((((.((..(.....)..)).)))).))).))))))))))).(((((..(((....)))..)))))((.(((......))).))((..((......))..)). ( -38.30)
>DroEre_CAF1 2993 120 - 1
AGGAACUCUGUCGCUCUCUGCAGAUUUGUUCAAUUUCAGCAACAAGAACGGGGUUCCUGGCAGGUGACUUCACCGUUGUCUGCAGCGGAUUUUCCGGCUCUCGUUCUUCUGAUAGUUCCU
(((((((((((........)))))...........((((....(((((((((((.....(((((..((......))..)))))..(((.....))))).)))))))))))))..)))))) ( -40.80)
>DroYak_CAF1 2893 111 - 1
AAGAAUUCUGCCCCUCUCUGCAGAUUUGUUCAAUUUCAGUGGCAAGAAUGGAGUUCCUGGCAGGUGACUU---------CUGCAGCGGGUUUUCUGGCUCUGCUUUUUCUGAUAGUUUCU
..(((((((((........)))))...))))....((((.((((.((.(((((..(((((((((.....)---------))))..))))..)))))..))))))....))))........ ( -31.50)
>consensus
AGGAACUCUGUCGCUCUUUGCAGAUUUGUUCAAUUUCAGCGGCAAGAAUGGGGUUCCUGGCAGGUGAGGUCACCUUUGUCUGCAGCGGAUUUUCUGGCUCUGGUUCUUGUGAUAGUUCCA
.((((((((((........))))).................(((((((((((((.....(((((..(((....)))..)))))..(((.....)))))))).))))))))....))))). (-29.28 = -29.60 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:01 2006