Locus 3933

Sequence ID 3L_DroMel_CAF1
Location 11,407,003 – 11,407,107
Length 104
Max. P 0.500000
window6125

overview

Window 5

Location 11,407,003 – 11,407,107
Length 104
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 67.50
Mean single sequence MFE -16.41
Consensus MFE -6.36
Energy contribution -7.36
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.71
Structure conservation index 0.39
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11407003 104 + 23771897
AAAUAUAUCCAG-----------AUGCUAGAUUC-----AGGCAAAUGCACCAAACCGAUGGGAACCUCAAGAAUCGUCGUCUAAAACAAGACACGAUACAAGUAAUUAAACAAUUGCAC
.....((((...-----------......(((((-----..((....)).(((......))).........)))))((.((((......))))))))))...((((((....)))))).. ( -18.30)
>DroSec_CAF1 127083 87 + 1
AAAUACAUCCAG-----------AUUAUAGAUUC----------------------CGAUGGAAACCUCAAGAAUAGUCGUCUAAAACAAGAAACGAUACCAGUAAUUAAACAAUUGCAG
............-----------.......((((----------------------.((.(....).))..)))).(((((((......)))..))))....((((((....)))))).. (  -9.80)
>DroSim_CAF1 139730 87 + 1
AAAUAUAUACAG-----------AUUAUAGUUUC----------------------CAAUGGAAACCUCAAGAAUCGUUGUCUAAAACAAGACACGAUACAAGUAAUUAAACAAUUGCAG
............-----------......(((((----------------------(...)))))).....(.(((((.((((......))))))))).)..((((((....)))))).. ( -17.00)
>DroEre_CAF1 134227 116 + 1
-AAUAUAUCCACAUUCUAGAACUACAAAAACACGCAAUGCAGCCAACAUAAAC---CAAAGGGGACAUCAAGUAUCGGCGACUAAAACAAGACACGAUACAAGUAAUUAAACAAUUGCAG
-................................(((((...............---....(....).....((((((..(.((......)).).)))))).............))))).. ( -14.20)
>DroYak_CAF1 125035 117 + 1
AAAUAUAUCCAGUUUCUAGAACUACAAAACUUUGCAAUGUAGCAAAAAUAACA---AACUGUGGACUUGAAGUAUCGCCGUCUAAAACAAGACACGAUACAAGUAAUUAAACAAUUGCAG
.......((.((((..(((...........(((((......))))).......---..)))..)))).)).((((((..((((......)))).))))))..((((((....)))))).. ( -22.75)
>consensus
AAAUAUAUCCAG___________AUAAUAGAUUC_______GC_AA___A______CAAUGGGAACCUCAAGAAUCGUCGUCUAAAACAAGACACGAUACAAGUAAUUAAACAAUUGCAG
.......................................................................(.(((((.((((......))))))))).)..((((((....)))))).. ( -6.36 =  -7.36 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:10:22 2006