Locus 3462

Sequence ID 3L_DroMel_CAF1
Location 10,171,628 – 10,171,724
Length 96
Max. P 0.638689
window5402

overview

Window 2

Location 10,171,628 – 10,171,724
Length 96
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 58.02
Mean single sequence MFE -30.60
Consensus MFE -8.64
Energy contribution -10.75
Covariance contribution 2.11
Combinations/Pair 1.20
Mean z-score -2.01
Structure conservation index 0.28
SVM decision value 0.22
SVM RNA-class probability 0.638689
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10171628 96 + 23771897
CUCCUCAGCGGUGUUUAUUAAAUACCGAUGCUACAGGCAA----AUGCCUUCUGAGCUGAGGAGGUGCCUAGGAAAAUGGGGGGU-UGGGGGGAAGAGCCG
(((((((((((((((.....))))))........((((..----..)))).....)))))))))...((((......))))((.(-(........)).)). ( -35.00)
>DroVir_CAF1 79754 97 + 1
CUCUCGAGCAGCGUUUAUUAAAAUCUGAAGCCCAAGGCAGUGCAGUGGCACAGACAG-AGC--AGCGAAAAAGGAAACGACGUUU-UGGGCGUGGCACUCA
.....((((((.((((....)))))))..(((((((((.((((....))))......-...--.........(....)...))))-)))))......))). ( -27.10)
>DroGri_CAF1 65455 99 + 1
CUCUCAAGCAGCGCUUAUUAAAAUCGGAAGCCCCAGGUACUGCACUGCCUGUAGCAGUGGC--AGUGGGAGAGAAAGUGACAUUUCUGGGCGUGGCACUCA
.......((.((((((...............(((....((((((((((.....))))).))--))))))..(((((......))))))))))).))..... ( -30.70)
>DroSec_CAF1 48414 77 + 1
CUCCUCAGCGGUGUUUAUUAAAUACCGAUGCUCCAGGCAA----AUGCCUUCUGAGCUGACGAGGCGGCU--------------------GGGAACAGCCC
..((((..(((((((.....)))))))..((((.((((..----..))))...))))....)))).((((--------------------(....))))). ( -33.90)
>DroSim_CAF1 52352 77 + 1
CUCCUGAGCGGUGUUUAUUAAAUACCGAUGCUCCAGGCAA----AUGCCUUCUGAGCUGACGAGGUGGCU--------------------GGGAACAGCCC
(((.....(((((((.....)))))))..((((.((((..----..))))...))))....)))..((((--------------------(....))))). ( -30.20)
>DroEre_CAF1 52215 76 + 1
CUCCUCAACGGUGUUUAUUAAAUACCGAUGCUCCAGGCAA----AUGCCUUCUGAGCCGACGGGG-GGCU--------------------GGAAAAUGGGG
..(((((.(((((((.....)))))))..(((((((((..----..)))).(((......)))))-))).--------------------......))))) ( -26.70)
>consensus
CUCCUCAGCGGUGUUUAUUAAAUACCGAUGCUCCAGGCAA____AUGCCUUCUGAGCUGACGAGGUGGCU____________________GGGAACAGCCA
(.(((...(((((((.....)))))))..((((.(((((......)))))...)))).....))).).................................. ( -8.64 = -10.75 +   2.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:38 2006