Locus 130

Sequence ID 2R_DroMel_CAF1
Location 1,390,020 – 1,390,124
Length 104
Max. P 0.593153
window273

overview

Window 3

Location 1,390,020 – 1,390,124
Length 104
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 86.48
Mean single sequence MFE -37.23
Consensus MFE -29.65
Energy contribution -29.29
Covariance contribution -0.36
Combinations/Pair 1.07
Mean z-score -1.85
Structure conservation index 0.80
SVM decision value 0.12
SVM RNA-class probability 0.593153
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1390020 104 - 20766785
GACCGGGGGCAUCAGACAGCGACAAAAGCAACAGUCGGCAGUAG--------UCUGGUGGUCUGGUGGACUGGACCGGACCAAAC--------UCGGGGAAAAAAGAAAAUGGAGACUAG
..(((((...(((((((.(((((..........))).))....)--------))))))((((((((.......))))))))...)--------))))..............(....)... ( -33.20)
>DroSec_CAF1 17022 120 - 1
AGCCGGGGGCAUCAGACAGCGACAAAAGCAACAGUCGGCAGUGGUCCGGUGGUCUGGUGGUCUGGUGGACUGGACCGGACCAAACGGACGGAGCCGGGGAAAAAAGAAAAUGGAGACUAG
.(((...))).((.....((.......)).....(((((..(.(((((.(((((((((((((.....))))..)))))))))..))))).).)))))........))....(....)... ( -41.40)
>DroSim_CAF1 21777 111 - 1
AACCGGGGGCAUCAGACAGCGACAAAAGCAACAGUCGGCAGUGGUCCGGUGGUCUGGUGGUCUGGUGGACUGGACCGGACC---------GAGCCGGGGAAAAAAGAAAAUGGAGACUAG
..((((....(((((((.((.......))..((.(((((....).)))))))))))))((((((((.......))))))))---------...))))..............(....)... ( -37.10)
>consensus
AACCGGGGGCAUCAGACAGCGACAAAAGCAACAGUCGGCAGUGGUCCGGUGGUCUGGUGGUCUGGUGGACUGGACCGGACCAAAC_____GAGCCGGGGAAAAAAGAAAAUGGAGACUAG
..((((...((((((((..((((..........)))).((.(((.(.....).))).))))))))))..)))).((((...............))))..............(....)... (-29.65 = -29.29 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:28:36 2006