Locus 1230

Sequence ID 3R_DroMel_CAF1
Location 3,707,129 – 3,707,228
Length 99
Max. P 0.991642
window2009

overview

Window 9

Location 3,707,129 – 3,707,228
Length 99
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 68.80
Mean single sequence MFE -33.82
Consensus MFE -11.57
Energy contribution -16.95
Covariance contribution 5.38
Combinations/Pair 1.24
Mean z-score -2.70
Structure conservation index 0.34
SVM decision value 2.28
SVM RNA-class probability 0.991642
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3707129 99 + 27905053
GUCAGCAUCAACAGCCCCUUGCAACUUGGUCGCCAGCCAAGAGCCAACAUGGUGAAGGGUUCAGAGGUUGGGGCUAGGGUUGAAAAGGGGUUUUGAAGA
.......((((.((((((((.((((((((((.((((((..(((((..(.....)...)))))...))))))))))).)))))..))))))))))))... ( -40.60)
>DroSec_CAF1 65054 99 + 1
GUCAGCAUCAACAGCCCCUUGCAACUUGGUCGCCAGCCAAAAGCCAACAUGGUGAAGGGUUCAGAGGUUGGGGCUAGGGCUAAAAAGGGGUUUUGAAGA
.......((((.((((((((....(((((((.((((((....(((.....)))((.....))...)))))))))))))......))))))))))))... ( -36.80)
>DroSim_CAF1 68160 99 + 1
GUCAGCAUCAACAGCCCCUUGCAACUUGGUCGCCAGCCAAGAGCCAACAUGGUGAAGGGUUCAGAGGUUGGGGCUAGGGCUAAAAAGGGGUUUUGAAGA
.......((((.((((((((....(((((((.((((((..(((((..(.....)...)))))...)))))))))))))......))))))))))))... ( -39.70)
>DroEre_CAF1 66760 98 + 1
GUCAGCAUCAACAGCCCCUUGCAACUUGGUCGCCAGCCAAGAGCCCACAUGGUGAUGGGUUCAGAGGCUGAGGCUCGGGUUAA-AAGGGGUUUUGAAGA
.......((((.((((((((..(((((((((..(((((..((((((((.....).)))))))...))))).))).))))))..-))))))))))))... ( -44.80)
>DroYak_CAF1 63360 97 + 1
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCAGCCAACAUGGCGAUGGGUUCAGAGGCUGAGGAUAGGGUUUA--AGGGGUUUUGAAGA
.......................................((((((.....)))..))).(((((((.((...((......)).--..)).))))))).. ( -12.50)
>DroPer_CAF1 73571 83 + 1
--CAACGUCAACAGCCUCAUGCAACUUGGUCGUCAGCCAAGAGACCGAAUACUUUUGGGGAGAGAGG---AGACUCGA-----------CCCCCGAAGA
--....(((....((.....))..((((((.....)))))).))).......((((((((...(((.---...)))..-----------.)))))))). ( -28.50)
>consensus
GUCAGCAUCAACAGCCCCUUGCAACUUGGUCGCCAGCCAAGAGCCAACAUGGUGAAGGGUUCAGAGGUUGAGGCUAGGGUUAA_AAGGGGUUUUGAAGA
.......((((.((((((((....((.((((.((((((....(((.....)))((.....))...)))))))))).))......))))))))))))... (-11.57 = -16.95 +   5.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:10 2006