Locus 5389

Sequence ID 3R_DroMel_CAF1
Location 14,156,284 – 14,156,387
Length 103
Max. P 0.969342
window8777

overview

Window 7

Location 14,156,284 – 14,156,387
Length 103
Sequences 5
Columns 116
Reading direction reverse
Mean pairwise identity 71.61
Mean single sequence MFE -34.04
Consensus MFE -12.94
Energy contribution -14.84
Covariance contribution 1.90
Combinations/Pair 1.24
Mean z-score -2.17
Structure conservation index 0.38
SVM decision value 1.64
SVM RNA-class probability 0.969342
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14156284 103 - 27905053
GAAACAACACACUGCG---AACUGGAGGCGCAAAGUGCAUGGAGUGCACUUUCCAUAGUCCAUGGCU---CCCAUAGGGGCUGUGA---AAGCUACAU----ACAUUGCAUGUGAU
.......((((.((((---(....(.((((.(((((((((...))))))))).)......(((((((---((....))))))))).---..))).)..----...))))))))).. ( -34.90)
>DroSec_CAF1 149094 109 - 1
GAAACAACACACUGCG---AACUGAAGGCGCAAAGUGCAUGGAGUGCACUUUCCAUAGACCAUGGCUCCUCCCAUAGGGGCUGUGUAUGAAACUACAU----ACAUUGCAUGUGGC
.......((((.((((---(......((...(((((((((...))))))))))).......(((((((((.....)))))))))(((((......)))----)).))))))))).. ( -34.30)
>DroSim_CAF1 34455 109 - 1
GAAACAACACACUGCG---AACUGAAGGCGCAAAGUGCAUGGAGUGCACUUUCCAUAGACCAUGGCUCCUCCCAUAGGGGCUGUGUAUGAAACUACAU----ACAUUGCAUGCGGU
..........((((((---......(((.(((((((((((...))))))))).(((.....))))).)))(((...)))((.(((((((......)))----)))).)).)))))) ( -32.20)
>DroEre_CAF1 28132 93 - 1
GAAACAAC--ACUGCG---AACUGGAGGCGUAAAGUGCAUGGAGUGCACUUUCCACAGUCCGGGGCUC----CAUGGGGGCUGUG---GAAACUACAU----UCG----AUGU---
......((--(...((---(((((..((...(((((((((...))))))))))).)))((((.(((((----(...)))))).))---)).......)----)))----.)))--- ( -30.90)
>DroAna_CAF1 26191 98 - 1
GAAACAACACAUAACACGCAUGUGGAAGCGUAAAGUGCAUUGGAUGCAUUUUCG-----------U---UUCCAUAGGGGCUC-GU---CGACUACUCUGGCGAAUUGUGUGUCUG
......((((((((...((.((((((((((.(((((((((...)))))))))))-----------)---)))))))...))((-((---((.......)))))).))))))))... ( -37.90)
>consensus
GAAACAACACACUGCG___AACUGGAGGCGCAAAGUGCAUGGAGUGCACUUUCCAUAGACCAUGGCUC_UCCCAUAGGGGCUGUGU__GAAACUACAU____ACAUUGCAUGUGGU
.........((((((...........((...(((((((((...)))))))))))......((((((((.........))))))))......................))).))).. (-12.94 = -14.84 +   1.90)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:31 2006