Locus 2181

Sequence ID 3R_DroMel_CAF1
Location 6,241,820 – 6,241,910
Length 90
Max. P 0.516371
window3549

overview

Window 9

Location 6,241,820 – 6,241,910
Length 90
Sequences 5
Columns 90
Reading direction reverse
Mean pairwise identity 75.93
Mean single sequence MFE -18.68
Consensus MFE -6.38
Energy contribution -6.66
Covariance contribution 0.28
Combinations/Pair 1.57
Mean z-score -1.75
Structure conservation index 0.34
SVM decision value -0.03
SVM RNA-class probability 0.516371
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6241820 90 - 27905053
UCACGUUUUUUAAAAACAACAAGCGGCUAGUUUUUAAACUACAAGGUCUUGCUACUGUCCACUAGAUGGCGAAUAAAAAUCAUCCUCCCA
....((..(((((((((............)))))))))..))......(((((((((.....))).)))))).................. ( -12.10)
>DroSec_CAF1 4715 88 - 1
--AUAUUAUUCAAAAACAACAAGCGGCUUGCUUUUGAACUAGAAGAUCCCGCUACCAUCCAGUCGGUGACGACUGAAAAUCAUCCUCUCA
--...................(((((....((((((...))))))...)))))......((((((....))))))............... ( -22.20)
>DroSim_CAF1 7588 88 - 1
--AUAUUAUUCAAAAACAACAAGCGGCUUGCUUUUGAACUAGAAGAUCCCGCUACCGUCCAGCAGGUGGCGACUGAAAAUCAUCCUCUCA
--......((((....(((.((((.....))))))).............(((((((........)))))))..))))............. ( -17.80)
>DroEre_CAF1 9281 85 - 1
--ACAC---UUAAAAAAAACCAGCGGAUUGCAUUUGAACUAGAAGGUCCCUUUAUAGUCCGCUAGGUGGCGAAUGAAAAUCUCUCUCUCA
--....---.........(((((((((((((....).....((((....)))).))))))))).)))...((..((.......))..)). ( -16.60)
>DroYak_CAF1 7434 84 - 1
--ACAA---CUAAA-ACAACUAGCGGAUGGUUUCAGAACUAAAAGGUUCCGCUACCGUCCACUAGGUGGCGAAUGAAAAUCUCCCUAUCA
--....---.....-.....(((.(((...((((((((((....)))))(((((((........)))))))..)))))...))))))... ( -24.70)
>consensus
__ACAUU_UUUAAAAACAACAAGCGGCUUGCUUUUGAACUAGAAGGUCCCGCUACCGUCCACUAGGUGGCGAAUGAAAAUCAUCCUCUCA
.................................................(((((((........)))))))................... ( -6.38 =  -6.66 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:29:18 2006