Locus 4719

Sequence ID 3L_DroMel_CAF1
Location 13,299,907 – 13,300,013
Length 106
Max. P 0.835477
window7435

overview

Window 5

Location 13,299,907 – 13,300,013
Length 106
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 74.19
Mean single sequence MFE -24.38
Consensus MFE -7.80
Energy contribution -8.20
Covariance contribution 0.40
Combinations/Pair 1.38
Mean z-score -1.91
Structure conservation index 0.32
SVM decision value 0.73
SVM RNA-class probability 0.835477
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13299907 106 + 23771897
AUGCUAAUAAUCAGGAUUGAAGUACGUCAGUAUGUCGGAAA--------------CGAUUUAAUAGUAUAUUUCUUGAGUGCACUACAUAAAAUUAGUACUUACAAUUAGCUUGUUCGUU
..((((((..((((((.....((((.....((.((((....--------------)))).))...))))...))))))((((..............)))).....))))))......... ( -22.54)
>DroSec_CAF1 61993 106 + 1
AUGCUAAUAAUCAGGAUUGAAGUACGUCAGUAUGUCGGAAA--------------CGAUUUAACAGUAUAUUUCUUGAGUGCACUACAUAAAAUUAGUACUUACAAUUAGCUAGUAAAUU
..((((((..((((((.....((((.....((.((((....--------------)))).))...))))...))))))((((..............)))).....))))))......... ( -22.54)
>DroSim_CAF1 62636 106 + 1
AUGCUAAUAAUCAGGAUUGAAGUACGUCAGUAUGUCGGAAA--------------CGAUUUAACAGUGUAUUUCUUGAGUGCACUACAUAAAAUAAGUACUUACAAUUAGUUUGUAAAUU
......((((....(((((((((((....((..((((....--------------))))...))(((((((((...)))))))))...........)))))).)))))...))))..... ( -26.10)
>DroEre_CAF1 62810 118 + 1
AUGCUAAUAAUCAGGAUUGAAGUGUGUCCGUAUGUCGAAAAUCUCGUGGCAUCUUCGAUUCAACAGAAUAUUUCA--AGUGUCGAAUACUAUAUUGGCACUUGCAAUAACUUUGUAAGUA
.((((........(((((((((.(((((((..............)).)))))))))))))).(((((.((((.((--((((((((........)))))))))).))))..))))).)))) ( -32.94)
>DroYak_CAF1 65214 103 + 1
AUGCUAAUAAUCAGGAUUGAAGUGCCUUCGUACGUCGAUAAUU-------GUCUCUGAUACUUCAGAAUAUUUCA--AGUGCCGUACAUA--------AAUUGCAAUAACAUUGUAAAUU
.............((.((((((((...(((.....))).....-------...(((((....))))).)))))))--)...)).......--------..(((((((...)))))))... ( -17.80)
>consensus
AUGCUAAUAAUCAGGAUUGAAGUACGUCAGUAUGUCGGAAA______________CGAUUUAACAGUAUAUUUCUUGAGUGCACUACAUAAAAUUAGUACUUACAAUUAGCUUGUAAAUU
.(((((((........((((.((((....)))).))))........................................(((.....)))...))))))).((((((.....))))))... ( -7.80 =  -8.20 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:34 2006