Locus 3505

Sequence ID 3R_DroMel_CAF1
Location 9,456,024 – 9,456,121
Length 97
Max. P 0.698640
window5629

overview

Window 9

Location 9,456,024 – 9,456,121
Length 97
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 82.41
Mean single sequence MFE -23.60
Consensus MFE -15.88
Energy contribution -17.02
Covariance contribution 1.14
Combinations/Pair 1.12
Mean z-score -2.04
Structure conservation index 0.67
SVM decision value 0.35
SVM RNA-class probability 0.698640
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9456024 97 + 27905053
CAGCUCCGGCAGCUCAAAAGCCCGUGGCUUCAAUGGCUGAGUAAAUCAAAAAUGUGCAAUAAAAAUUGCAAUAAAGCACGCUUCAAAGGUAACGCAG---
..((.((..(((((...(((((...)))))....)))))...............((((((....)))))).................))....))..--- ( -19.20)
>DroVir_CAF1 127674 86 + 1
--G--CGGCCAGAUCCAAAGCAAAUAGCU-----CGCUGUGUAAAUCAAAAAUGUGCAAUAAAACUUGCUGUGUGGCAUGCAGCAAAGGUAAAUG-----
--.--..(((........(((.....)))-----.(((((((...(((...(((.((((......))))))).))).)))))))...))).....----- ( -16.50)
>DroSec_CAF1 85659 94 + 1
--GCUCAGCCAGCUCAAAAGCCCGUGGCUCCAAUGGCUGAGUAAAUCAA-AAUGUGCAAUAAAAAUUGCAAUAAAGCACGCUUUACAGGUAGCGCAG---
--(((((((((.......((((...))))....))))))))).......-..(((((.........(((......))).(((.....))).))))).--- ( -28.10)
>DroSim_CAF1 74928 95 + 1
--GCUCAGCCAGCUCAAAAGCCCGUGGCUCCAAUGGCUGAGUAAAUCAAAAAUGUGCAAUAAAAAUUGCAAUAAAGCACGCUUCACAGGUAGCGCAG---
--(((((((((.......((((...))))....)))))))))..........(((((.........(((......))).(((.....))).))))).--- ( -28.10)
>DroEre_CAF1 93415 98 + 1
--GCUCAGCCAGCUCAAAAACCCGUGGCUCCAAUGGCUGAGUAAAUCAAAAAUGUGCAAUAAAAAUUGCAAUAAAGCACGCUUCAAAGGUAGCAAAUGCC
--(((((((((((.((........)))).....)))))))))............((((((....)))))).....(((.(((........)))...))). ( -24.20)
>DroYak_CAF1 87730 95 + 1
--GCUUAGCCAACUCAAAAGCCCGUGGCUCCAAUGGCUGAGUGAAUCAAAAAUGUGCAAUAAAAAUUGCAAUAAAGCACGCUUCGAAGGUAGCAAAG---
--(((((((((.......((((...))))....)))))))))............((((((....)))))).........(((.(....).)))....--- ( -25.50)
>consensus
__GCUCAGCCAGCUCAAAAGCCCGUGGCUCCAAUGGCUGAGUAAAUCAAAAAUGUGCAAUAAAAAUUGCAAUAAAGCACGCUUCAAAGGUAGCGCAG___
..(((((((((.......(((.....)))....)))))))))..(((.......((((((....))))))...(((....)))....))).......... (-15.88 = -17.02 +   1.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:45 2006