Locus 2606

Sequence ID 3R_DroMel_CAF1
Location 7,047,491 – 7,047,595
Length 104
Max. P 0.689995
window4242

overview

Window 2

Location 7,047,491 – 7,047,595
Length 104
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 77.11
Mean single sequence MFE -20.59
Consensus MFE -6.66
Energy contribution -8.86
Covariance contribution 2.20
Combinations/Pair 1.14
Mean z-score -1.91
Structure conservation index 0.32
SVM decision value 0.33
SVM RNA-class probability 0.689995
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7047491 104 + 27905053
AGUGUUACCGUACUGCGAAAAGUGACCUUAAACC-----CAUCUC-AAAAAAUAUACCAAACGUGUAUUUCUCAGCAAAGUUACCACUGGGCACACUACACACUAUAUAA
(((((...((.....))...((((..........-----......-...((((((((.....))))))))....((..(((....)))..)).))))..)))))...... ( -16.50)
>DroSec_CAF1 1385 105 + 1
AGUGUGACCGUACUGUCAAGAGUGACUAUAAACC-----CACCUCGAAAAAAUAAACUAGAAGUGUAUUUCUCAGCAAAGUCACAACUGGUCACAUUACACACUAUAUAA
(((((((((...((....)).((((((..(((..-----(((.((..............)).)))..)))........))))))....)))))))))............. ( -21.24)
>DroSim_CAF1 1326 105 + 1
AGUGUGACCGUACUGUCAAGAGUGACCAUAAACC-----CACCUCGAAAAAAUAUACUAGAAGUGUAUUUCUCAGCAAAGUCACAACUGGUCACAUUACACACUAUAUAA
((((((......((....)).((((((.......-----......((..((((((((.....)))))))).)).....(((....)))))))))....))))))...... ( -23.50)
>DroEre_CAF1 1334 107 + 1
AGUGUGACCAUGCUGCCAAGAGUGACCUUAAAAUUAUACCACCAC--AAAAAUAUACCAAAGGGGUAUUUUUCGGCAAGGU-AUAACUGGGCACAUUGUAGUCUAUAUAA
.(((((((.(((.((((...(((.(((((..((..(((((.((..--..............)))))))..))....)))))-...))).)))))))....))).)))).. ( -23.09)
>DroYak_CAF1 1505 94 + 1
--------GAUGCUGCCAAAAGUGACCUUAAACU-----CACCAC--U-AAAUAUACCAGAGUGGUAAUUUUCAGAAAAGUCAUAACUGGGCACAUUGUAGUCUAUAUAA
--------((((.((((....(((((((.(((.(-----.(((((--(-...........)))))).).))).))....))))).....))))))))............. ( -18.60)
>consensus
AGUGUGACCGUACUGCCAAGAGUGACCUUAAACC_____CACCUC_AAAAAAUAUACCAGAAGUGUAUUUCUCAGCAAAGUCACAACUGGGCACAUUACACACUAUAUAA
((((((.(((((((......)))).........................((((((((.....)))))))).................))).))))))............. ( -6.66 =  -8.86 +   2.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:40:20 2006