Locus 1266

Sequence ID 3R_DroMel_CAF1
Location 3,781,124 – 3,781,243
Length 119
Max. P 0.958213
window2066

overview

Window 6

Location 3,781,124 – 3,781,243
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 87.41
Mean single sequence MFE -32.68
Consensus MFE -28.36
Energy contribution -28.28
Covariance contribution -0.08
Combinations/Pair 1.09
Mean z-score -1.93
Structure conservation index 0.87
SVM decision value 1.49
SVM RNA-class probability 0.958213
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3781124 119 + 27905053
AAAAAACAAAAAAAAAAAGAGUGCGAAGCCUAAUGGCCCGCAUUUCGAGGAUGCAGCUCAAGUGAAUACAUCGGGGCUUAGAACCUGGCUUAAAA-AAAGGGGGUUGGGCUUCGGUGAGA
..................(((((((..(((....))).))))))).(((.......))).........(((((((((((((..(((.........-...)))..)))))))))))))... ( -35.20)
>DroSec_CAF1 10601 116 + 1
ACCAAAC---AAAAAAAAGAGUGCGAAGCCUAAUGGCCCGCAUUUCGAGGAUGCAGCUCAAGUGAAUACUUCGGGGCUUAGAACCUGGCUUAAAA-AAAGGGGGUUGGGCUUCGGCGAGA
.......---..........((.(((((((((((..((((((((.....)))))(((..((((....))))((((........))))))).....-...))).))))))))))))).... ( -34.50)
>DroSim_CAF1 14276 116 + 1
ACAAAAC---AAAAAAAAGAGUGCGAAGCCUAAUGGCCCGCAUUUCGAGGAUGCAGCUCAAGUGAAUACUUCGGGGCUUAGAACCUGGCUUAAAA-AAAGGGGGUUGGGCUUCGGCGAGA
.......---..........((.(((((((((((..((((((((.....)))))(((..((((....))))((((........))))))).....-...))).))))))))))))).... ( -34.50)
>DroEre_CAF1 957 105 + 1
-------------AAAAAGAGUGCGAAACUUAAUGGCCCGCAUUUCGAGGAUGCACCUCAAUUGAAUACUUCGGGGCUUAGAACCUGGCUUAAA--AAAGUGGGCUGGGCUUCGUUGAGA
-------------...............(((((((((((.......((((.....))))...(((.....))))))))..(((((..(((((..--....)))))..)).))))))))). ( -30.50)
>DroYak_CAF1 14231 109 + 1
-----------AAAAAAAAAGUGCGAAGCUUAAUGGCCCGCAUUUCGAGGAUGCUUCUCAAGUGAAUACUUCGGGACUUAGAACCUGGCUCAAAAAAAAGGGGGCUGGGCUUCAUUGAGA
-----------.......(((((((..(((....))).)))))))(((((.((.(((......))))))))))...(((((((((..((((..........))))..)).)))..)))). ( -28.70)
>consensus
A__AAAC___AAAAAAAAGAGUGCGAAGCCUAAUGGCCCGCAUUUCGAGGAUGCAGCUCAAGUGAAUACUUCGGGGCUUAGAACCUGGCUUAAAA_AAAGGGGGUUGGGCUUCGGUGAGA
.......................(((((((((...(((((((((.....)))))................(((((........))))).............)))))))))))))...... (-28.36 = -28.28 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:06 2006