Locus 3252

Sequence ID X_DroMel_CAF1
Location 8,612,010 – 8,612,117
Length 107
Max. P 0.643737
window5335

overview

Window 5

Location 8,612,010 – 8,612,117
Length 107
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 70.24
Mean single sequence MFE -18.19
Consensus MFE -4.72
Energy contribution -4.92
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.78
Structure conservation index 0.26
SVM decision value 0.23
SVM RNA-class probability 0.643737
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8612010 107 + 22224390
ACAGCACUAAAUGUUUACUACGAACUAUGUAAUUGGAGUU-UCCCUAGUU---CACAAUCAUAUGAAAUCCUAUUACUUACGAUCGGUGGACUUCAAACAUUAAGUGCAUC
...(((((.(((((((((..........))))((((((((-..((...((---((........))))(((.((.....)).))).))..))))))))))))).)))))... ( -24.40)
>DroSec_CAF1 49982 90 + 1
AGAACACUAAAUGUUUACU-----------------AGUU-UCCCUAGUU---CCCAAUCAUAUGAAAUCCUAUUACUCACGAUCGGUGGACUUCAAACAUUAAGUGCAUC
....((((.((((((((((-----------------((..-...))))).---...........(((.(((.................))).)))))))))).)))).... ( -16.43)
>DroSim_CAF1 20767 90 + 1
ACAACACUUAAUGUUUACU-----------------AGUU-UCCCUAGUU---CACAAUCAUAUGAAAUCCUAUUACUCACGAUCGGUGGACUUCAAACAUUAAGUGCAUC
....(((((((((((((((-----------------((..-...))))).---...........(((.(((.................))).))))))))))))))).... ( -20.33)
>DroEre_CAF1 62923 94 + 1
GCAGCAGUAAGCAUUUAGUACGAACCAUGUAAAGGG---------AAAUUU-------CCAUAUGAC-UACUAUUAAUUAAGAUCGGUGGACUUCAAACAUUAAGUGCAUC
..........(((((((((......(((((....((---------(....)-------))))))).(-(((((((......))).))))).........)))))))))... ( -16.50)
>DroYak_CAF1 50555 111 + 1
GCGGCAGUAAACACUUACUACGAACUAUGCAAUAGGUUUUAUAUCAAAUUAUAUACAAUCAUAUUAUAUCCUAUUAAUUAAGAUCGGUGAACUUCAAACAUCAAGUGCAAC
.((..(((((....))))).)).....(((((((((...((((.....................)))).))))))..........((((.........))))....))).. ( -13.30)
>consensus
ACAGCACUAAAUGUUUACUACGAAC_AUG_AA__GGAGUU_UCCCUAGUU___CACAAUCAUAUGAAAUCCUAUUACUUACGAUCGGUGGACUUCAAACAUUAAGUGCAUC
.....................................................................................((((.((((........)))).)))) ( -4.72 =  -4.92 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:54 2006