Locus 5033

Sequence ID 3R_DroMel_CAF1
Location 13,256,229 – 13,256,319
Length 90
Max. P 0.917477
window8221

overview

Window 1

Location 13,256,229 – 13,256,319
Length 90
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 70.14
Mean single sequence MFE -21.75
Consensus MFE -13.23
Energy contribution -14.62
Covariance contribution 1.39
Combinations/Pair 1.13
Mean z-score -1.58
Structure conservation index 0.61
SVM decision value 1.11
SVM RNA-class probability 0.917477
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13256229 90 + 27905053
GACUCGGCUAAGAAAGUCAAGGCGGUCGGCUUGUUCGCCGAAAGCCAACGCACACAGCACAGUUUACUGAGAAA-AAUUUAUA----------------------------GACAUAUA
..(((((.((((........(((..(((((......)))))..)))...((.....))....)))))))))...-........----------------------------........ ( -24.30)
>DroSec_CAF1 8786 69 + 1
GACUCGGCUAAGAAAGUCAAGGCGGUCGGCUUGUUCGCCG--------------------AGUUUACUGAAAAA-AAU-UAUA----------------------------AACAUAUA
((((((((...(((...((((.(....).)))))))))))--------------------))))..........-...-....----------------------------........ ( -16.70)
>DroSim_CAF1 8847 88 + 1
GACUCGGCUAAGAAAGUCAAGGCGGUCGGCUUGU-CGCCGAAAGCCAACGCACACAGCACAGUUUACUGAGAAA-AAU-UAUA----------------------------AACAUAUA
..(((((.((((........(((..(((((....-.)))))..)))...((.....))....)))))))))...-...-....----------------------------........ ( -24.10)
>DroEre_CAF1 8442 105 + 1
GACUCGGCUAAGAAAGUCAAGGCGGUCGGCUUGUUCGCCGAAAGCCAACGCACACAGCGCAGUUUACUGAGAAA-AAU-UAUCUGAAUAAA-----UCUUGGA-------AAACAAAUA
.....((((.....))))..(((..(((((......)))))..)))..(((.....)))..((((.(..(((..-.((-(.....)))...-----)))..).-------))))..... ( -28.30)
>DroYak_CAF1 16255 112 + 1
GACUCGGCUAAGAAAGUCAAGGCGGACGGGUUGU-CGCCGAAAGCCAACGCACACAGAAGAGUUUACUGAGAAAAAAU-UAUAUACAUAAA-----AGUGGGAGAUUUAUAAACAAAUA
..(((((.((((....((..((((.((.....))-))))....((....)).....))....)))))))))...((((-(...(((.....-----.)))...)))))........... ( -18.60)
>DroAna_CAF1 32795 106 + 1
GACAUGGCUAAGAAAGUCAAGGCGGUUGGCUUGUUCGCCGAUAUCCAAA--ACUAAGAUCAGUGCACAGGAAAA-AAA-UAUUUCAUCAAAAAGACUUUUACA-------AAACAAA--
...........(((((((..((..((((((......))))))..))...--..................((((.-...-..))))........)))))))...-------.......-- ( -18.50)
>consensus
GACUCGGCUAAGAAAGUCAAGGCGGUCGGCUUGUUCGCCGAAAGCCAACGCACACAGCACAGUUUACUGAGAAA_AAU_UAUA____________________________AACAAAUA
..(((((((.....))))..(((..(((((......)))))..)))......................)))................................................ (-13.23 = -14.62 +   1.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:43 2006