Locus 4306

Sequence ID 2L_DroMel_CAF1
Location 12,308,297 – 12,308,391
Length 94
Max. P 0.545961
window6789

overview

Window 9

Location 12,308,297 – 12,308,391
Length 94
Sequences 5
Columns 103
Reading direction forward
Mean pairwise identity 76.20
Mean single sequence MFE -24.26
Consensus MFE -6.07
Energy contribution -6.67
Covariance contribution 0.60
Combinations/Pair 1.17
Mean z-score -1.67
Structure conservation index 0.25
SVM decision value 0.02
SVM RNA-class probability 0.545961
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12308297 94 + 22407834
CGCAAAAAAUUCUGCUGCAAACUGCGAAAGAGGGAGAGGGAAUGG--------GAAUGGG-AAUGUGCAUCUGCAACUAACAUCUCCCUUCAACUCCUUCAAC
.(((........)))(((.....)))...(((((((...(((.((--------(((((..-....(((....))).....))).)))))))..)))))))... ( -27.90)
>DroSec_CAF1 130844 86 + 1
CGCAAAAAAUGCUGCUGCGAACUGCGAAAG--GGAGAGGGA--------------AUGUG-AAUGUGCAUCUGCAACUAACAACUCCCUUCAACUCCUCCAAC
((((.....(((....)))...))))...(--(((((((((--------------.(((.-....(((....)))....)))..)))))....)))))..... ( -22.50)
>DroSim_CAF1 134547 86 + 1
CGCAAAAAAUGCUGCUGCGAACUGCGAAAG--GGAGAGGGA--------------AUGGG-AAUGUGCAUCUGCAACUAACAUCUCCCUUCAACUCCUCCAAC
((((.....(((....)))...))))...(--(..(((.((--------------(.(((-(((((((....)).....)))).)))))))..)))..))... ( -23.20)
>DroEre_CAF1 128746 94 + 1
GGCAAAAAAUGCUGCUGCAAACUGCGCAAG--GGAGGGGGAAUGGGGAAAGGGGAACGGGGAAUGUGCAUCUGCAACUAACAUCUCCCUUCAGC-------AA
.........((((((.((.....))))...--(((((((((.(((....(((...(((.....)))...)))....)))...))))))))))))-------). ( -26.10)
>DroYak_CAF1 135312 80 + 1
GGCAAAAAAUGCUGCUUCAAACUGCG-AAG--AGAGG------------AGAGGAGCAGGGA-GGUGCAUCUGCAACUAACAUCUCCCUUCAAC-------AA
((((.....))))(((((...((.(.-...--...).------------)).)))))(((((-((((.............))))))))).....-------.. ( -21.62)
>consensus
CGCAAAAAAUGCUGCUGCAAACUGCGAAAG__GGAGAGGGA____________GAAUGGG_AAUGUGCAUCUGCAACUAACAUCUCCCUUCAACUCCU_CAAC
.(((.....(((....)))...)))........((.(((((................((......(((....))).......)))))))))............ ( -6.07 =  -6.67 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:14:40 2006