Locus 620

Sequence ID X_DroMel_CAF1
Location 1,720,505 – 1,720,616
Length 111
Max. P 0.756864
window1004

overview

Window 4

Location 1,720,505 – 1,720,616
Length 111
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 75.96
Mean single sequence MFE -43.50
Consensus MFE -16.49
Energy contribution -16.17
Covariance contribution -0.33
Combinations/Pair 1.46
Mean z-score -2.32
Structure conservation index 0.38
SVM decision value 0.49
SVM RNA-class probability 0.756864
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1720505 111 + 22224390
UGAGCAGCUUUUCUGCGUGGGUGAGAAACUGCUCAUCCUCGGAUGCAUCAUCCACAGACAGCAUGGAUUUUUGGUGG------CUCUGAGGGUCCUG---CUGCUGGUGCUCUUGGUGCU
.(((((((......))(.(((((((......))))))).)(((((...))))).(((.(((((.(((((((..(...------..)..)))))))))---)))))).)))))........ ( -46.10)
>DroSec_CAF1 183 117 + 1
UGAGGAGCUUUUCUGCGUGGGUGAGGAAUUGCUCAUCCUCGGAUGCAUCAUCCACCGACAGCAUGGAUUUUUGGUGGAGUGCCUUCUGAGGCUCCUG---CUGUUGGUGCUCUUGGUGCU
.(((((((......)).((((..(....)..)))))))))....((((((..(((((((((((.(((.(((..(.((....))..)..))).)))))---)))))))))....)))))). ( -50.80)
>DroEre_CAF1 165 117 + 1
UGAGCAGCUUUUCUGCGUGGGUGAGAAACUGCUCAUCCUCGGAAGCACUAUCCACAGACACCAUGGAUUUUUGGUGGGCUGCUUUCUGACACUCUUG---CUGAUGGUGCUCUUGGUGUU
.((((((((..((((.(.(((((((......))))))).)(((.......))).))))(((((........)))))))))))))...((((((...(---(.......))....)))))) ( -41.30)
>DroYak_CAF1 288 117 + 1
UGAGCAGUUUUUCUGCGUGGGUGAGAAACUGCUCAUCCUCGGAAGCAUCAUCCACAGACAGAAUGGAUUUUUGGUGGACUGCCUUCUGGGGCUCCUG---CUGAUGGUGGUCGUGGUGCU
(((((((((((((.((....)))))))))))))))((....))((((((((((((...(((...(((.(((..(.((....))..)..))).)))..---)))...))))..)))))))) ( -46.20)
>DroAna_CAF1 198 113 + 1
UCAGGAGCUUUUCUGCUUGGGUGAGAAACUGCUCGUCCUCGGAGGCAUCCCCUGUAGAGAGCAUCGAUUUUUGGUGA------UCCUGAUGCUCCCUCUCCUGCUGCUGCUUUUC-CGCG
.((((((....(((((..((..(((......)))..))..(((....)))...)))))(((((((((((......))------))..)))))))...)))))).....((.....-.)). ( -36.10)
>DroPer_CAF1 207 117 + 1
UCAAGAGCUUCUCGGCCUGUGUGAGGAAUUGCUCGUCCUCGGAAGCAUCGUUGGUUGACAGCAUCGACUUUUGAUGCUGAUGAUCUUGUGGCUGUUC---CUGCUGCUGCUGUUCCUGAU
(((.((((....((((....((.((((((.(((((...(((..(((((((..((((((.....))))))..)))))))..)))...)).))).))))---)))).))))..)))).))). ( -40.50)
>consensus
UGAGCAGCUUUUCUGCGUGGGUGAGAAACUGCUCAUCCUCGGAAGCAUCAUCCACAGACAGCAUGGAUUUUUGGUGG__UGC_UUCUGAGGCUCCUG___CUGCUGGUGCUCUUGGUGCU
..((.((((((((((...(((((((......))))))).))))..(((((((((.........)))))....))))...........)))))).))........................ (-16.49 = -16.17 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:49:36 2006