Locus 3677

Sequence ID X_DroMel_CAF1
Location 9,824,804 – 9,824,908
Length 104
Max. P 0.622703
window6026

overview

Window 6

Location 9,824,804 – 9,824,908
Length 104
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 79.07
Mean single sequence MFE -20.73
Consensus MFE -13.56
Energy contribution -13.72
Covariance contribution 0.16
Combinations/Pair 1.07
Mean z-score -1.64
Structure conservation index 0.65
SVM decision value 0.18
SVM RNA-class probability 0.622703
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9824804 104 + 22224390
UCCAGGAAAUCUUCCUGGAAGCGCAAGUCAUGAGCCUGGCGUUAAAAAAAAUCAAGCGUUCCAUACUAAAGACAUGCAUUUUUAGCUUAAACUUAAAAGG----UUAA
(((((((.....)))))))...(((.(((...((..(((((((...........))))..)))..))...))).)))....(((((((.........)))----)))) ( -24.30)
>DroSec_CAF1 1381 98 + 1
UCCAGGAAAUCUUCCUGGAAGCGCAAGUCAUGAGCCUGGCGUUAAA-AAAAUCAAGCAUUGCAUACUAAAGACAUGCAUUUUUAACUUAAACUUA---------UUUA
(((((((.....))))))).((....)).(((((..(((.((((((-((..........(((((.........))))))))))))))))..))))---------)... ( -20.80)
>DroSim_CAF1 2355 98 + 1
UCCAGGAAAUCUUCCUGGAAGCGCAAGUCAUGAGCCUUGCGUUAAA-AAAAUCAAGCCUUGCAUACUAAAGACAUGCAUUUUUAACUUACACUUA---------UUUA
(((((((.....)))))))((((((((.(....).))))))))..(-(((((((.(.(((........))).).)).))))))............---------.... ( -23.80)
>DroEre_CAF1 1373 92 + 1
UCCAGGAAGUCUUCCUGCAAGCGUAAGUCAUGAGCCUGGCGUUAA---AAAUCAAGUUUUGCAUACUUAAGACUUUUACUUG-------------AAAUGAUAUUUAA
..(((((.....)))))((((...(((((.((((....(((....---...........)))...)))).)))))...))))-------------............. ( -17.96)
>DroYak_CAF1 4281 106 + 1
UCCAAGAAAUCCUCCUGGAAGCGUAAGUCAUGAGCCUGGCGUUAAA--AAAUCAAGUGUUGCAUACUUAAGACAUGCACUUUAAACGUAAACAUAAAAGGAUAACUAA
(((......(((....))).((((((((((((.((...))......--.....((((((...))))))....)))).))))...))))..........)))....... ( -16.80)
>consensus
UCCAGGAAAUCUUCCUGGAAGCGCAAGUCAUGAGCCUGGCGUUAAA_AAAAUCAAGCGUUGCAUACUAAAGACAUGCAUUUUUAACUUAAACUUAAAA_G____UUAA
(((((((.....)))))))(((((.((.(....).)).)))))................................................................. (-13.56 = -13.72 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:05:27 2006