Locus 2633

Sequence ID 3R_DroMel_CAF1
Location 7,110,699 – 7,110,792
Length 93
Max. P 0.564317
window4285

overview

Window 5

Location 7,110,699 – 7,110,792
Length 93
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 81.40
Mean single sequence MFE -35.37
Consensus MFE -24.09
Energy contribution -24.95
Covariance contribution 0.86
Combinations/Pair 1.19
Mean z-score -1.41
Structure conservation index 0.68
SVM decision value 0.06
SVM RNA-class probability 0.564317
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7110699 93 + 27905053
GGAGACACGCA--ACGCGUGGAACGUCUGCGAGCAGAUUAACGUUCACGUACCGAAAUGGGGGA---CGGAUGGAUAACCC---------------CAGCCGGGAUUCCCCCG
((...(((((.--..)))))(((((((((....))))....))))).....)).....((((((---(((.(((......)---------------)).)))....)))))). ( -36.40)
>DroSec_CAF1 43714 92 + 1
GGAGACACGCA--ACGCGUGGAACGUCUGCGAGCAGAUUAACGUUCACGUACCGAAAUGG-GGA---CGGAUGGAUAACCC---------------CAGCCGGGAUUCCCCCG
((...(((((.--..)))))(((((((((....))))....))))).....)).....((-(((---(((.(((......)---------------)).)))....))))).. ( -32.20)
>DroSim_CAF1 49766 93 + 1
GGAGACACGCA--ACGCGUGGAACGUCUGCGAGCAGAUUAACGUUCACGUACCGAAAUGGGGGA---CGGAUGGAUAACCC---------------CAGCCGGGAUUCCCCCG
((...(((((.--..)))))(((((((((....))))....))))).....)).....((((((---(((.(((......)---------------)).)))....)))))). ( -36.40)
>DroEre_CAF1 44937 95 + 1
GGAGACACGCA--ACGCGUGGAACGUCUGCGAGCAGAUUAACGUUCACGUACCGAAAUGGGGGACGACGGAUGGAUCAUCC---------------CA-CCUUGAUUCCCCUG
((...(((((.--..)))))(((((((((....))))....))))).....)).....(((((((((.((.(((......)---------------))-))))).)))))).. ( -33.60)
>DroYak_CAF1 46097 107 + 1
GGAGACACGCA--ACGCGUCGAACGUCUGCGAGCAGAUUAACGUUCACGUACCGAAAUGGGGGA---CGGAUGGAACACCCAACGUUACCCCACCACA-CCGGGAUUCCCCUG
((.........--..((((.(((((((((....))))....))))))))).......(((((((---((..(((.....))).)))).)))))))...-..(((....))).. ( -34.50)
>DroAna_CAF1 50509 97 + 1
GGAGACACGCAUAGCGUGUGGAACGUCUGCGAGCAGAUUAACGUGCACGUUCUGAAAGGG-GGAUUCCGGGGAGUCUCCCU---------------CACACGGCGCCUGCUUG
(....)..(((..(((((((((((((.((((..........)))).))))))....((((-((((((....))))))))))---------------))))).))...)))... ( -39.10)
>consensus
GGAGACACGCA__ACGCGUGGAACGUCUGCGAGCAGAUUAACGUUCACGUACCGAAAUGGGGGA___CGGAUGGAUAACCC_______________CAGCCGGGAUUCCCCCG
((...(((((.....)))))(((((((((....))))....))))).....)).....((((((...(((.((.......................)).)))....)))))). (-24.09 = -24.95 +   0.86)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:41:01 2006