Locus 8914

Sequence ID 3R_DroMel_CAF1
Location 23,911,968 – 23,912,085
Length 117
Max. P 0.900747
window14298

overview

Window 8

Location 23,911,968 – 23,912,085
Length 117
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 89.85
Mean single sequence MFE -27.90
Consensus MFE -22.44
Energy contribution -23.60
Covariance contribution 1.16
Combinations/Pair 1.04
Mean z-score -1.86
Structure conservation index 0.80
SVM decision value 1.02
SVM RNA-class probability 0.900747
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23911968 117 + 27905053
CAGACACACACCUUUACACUACCAUCGCUGGGCGAGUGAAAGUCGUUUCUUAUUCAUCCAGCUUUUGCCCACUAAUAAGUGAUUAGUGUGUGAAAAUUAAAAUGGAAUCAAAAGAAA
.....................((((.(((((..((((((.((....)).))))))..)))))(((..(.(((((((.....))))))).)..)))......))))............ ( -27.80)
>DroSec_CAF1 113483 116 + 1
CAGACACACACCUUUACACUAUCUUCGCUGGGCGAGUGAGAGUCGUUUCCUAUUCAUCCAGCUUUUGCCCACUAAUAAGUGAUUAGUGUGUGAA-AUUAAAAUGGAAUCAAAAGAAA
....(((((((...............(((((..(((((.(((....))).)))))..))))).......((((....))))....)))))))..-...................... ( -29.40)
>DroSim_CAF1 115293 116 + 1
CAGACACACACCUUUACACUACCUUUGCUGGGCGAGUGAAAGUCGUUUCCUAUUCAUCCAGCUUUUGCCCACUAAUAAGUGAUUAGUGUGUGAA-AUUAAAAUGGAAUCAAAAGAAA
....(((((((...............(((((..((((((((....))))..))))..))))).......((((....))))....)))))))..-...................... ( -26.20)
>DroEre_CAF1 116767 115 + 1
CAGACACACACUUGUACACUACCUUCACUGGGCGAGUGAAAGCCGUUUCUCAUUCAGCCAGCCCUUGCACACUAUAAAGUGAUUAGUGUGUGAA-AUUAAAGUGGUAU-AAAAGACA
....((((((((.((.((((..........(((((((((..........)))))).))).((....)).........)))))).))))))))..-.............-........ ( -27.60)
>DroYak_CAF1 120422 115 + 1
CAGACACACACUUGUACACUACCUUCACGGAGCGAGUGAAAGUCGUUUCUCAUUCAUCCAGCUUUUGCACACUAUUAAGUGAUUAGUGUGUGAA-AUUAAAAUGGUAA-AAUAGAAA
....((((((((.((.((((........(((..((((((.((....)).)))))).))).((....)).........)))))).))))))))..-.............-........ ( -28.50)
>consensus
CAGACACACACCUUUACACUACCUUCGCUGGGCGAGUGAAAGUCGUUUCUUAUUCAUCCAGCUUUUGCCCACUAAUAAGUGAUUAGUGUGUGAA_AUUAAAAUGGAAUCAAAAGAAA
....(((((((...............((((((.((((((.((....)).)))))).)))))).......((((....))))....)))))))......................... (-22.44 = -23.60 +   1.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:22:37 2006