Locus 6602

Sequence ID 3R_DroMel_CAF1
Location 17,369,932 – 17,370,035
Length 103
Max. P 0.616326
window10748

overview

Window 8

Location 17,369,932 – 17,370,035
Length 103
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.94
Mean single sequence MFE -30.28
Consensus MFE -22.05
Energy contribution -21.97
Covariance contribution -0.08
Combinations/Pair 1.08
Mean z-score -1.48
Structure conservation index 0.73
SVM decision value 0.17
SVM RNA-class probability 0.616326
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17369932 103 + 27905053
-------GAACACACGCCCGCAGUAUAAACAACUCAAUUUGAAUGCAUUUAACCGCGUAAUUGAGCCACGCGU--CGGGCAGCUACGCGUGCGCUA--UUUGCGGCCAACCCCG------
-------........(.((((((.(((......((((((...((((........))))))))))(((((((((--.((....))))))))).))))--))))))).).......------ ( -28.90)
>DroVir_CAF1 30759 106 + 1
CC---GCCAGCGCACGCCCACAGUAUAAACAACUCAAUUUGAAUGCAUUUAACCGCGUAAUUGAGGCACGUGU--UGGAC-GCUACGCGUGCGCUA--UUUGUGGCUAAAGCAA------
((---((.(((((((((.....((...((((.(((((((...((((........))))))))))).....)))--)..))-.....))))))))).--...)))).........------ ( -34.40)
>DroGri_CAF1 23460 109 + 1
ACUGGACGAGCGUACGCCCACAGUAUAAACAACUCAAUUUGAAUGCAUUUAACCGCGUAAUUGACGCACGUGU--GGCAA-GCUACGCGUGCGCUA--UUUGUGGCUAAAGUAA------
((((...(.((....)))..))))...................(((.((((.(((((.(((.(.(((((((((--((...-.)))))))))))).)--))))))).))))))).------ ( -34.20)
>DroWil_CAF1 20515 111 + 1
-------CGCCACACGCCCACAGUAUAAACAACUCAAUUUGAAUGCAUUUAACCGCGUAAUUGAGCCACGUGU--UAGAGAGUUACGCGUGCGCUAUGUUUGUGGCCAACCCCCCCGUCU
-------.((((((.((................((((((...((((........))))))))))(((((((((--.........))))))).))...)).)))))).............. ( -28.40)
>DroMoj_CAF1 25968 103 + 1
CC---G---GCACACGCCCACAGUAUAAACAACUCAAUUUGAAUGCAUUUAACCGCGUAAUUGAGGCACGUGU--UGGAC-GUUACGCGUGCGCUA--UUUGUGGCUAAAGCAA------
..---(---((....)))(((((.(((.....(((((((...((((........)))))))))))((((((((--.....-...))))))))..))--))))))((....))..------ ( -31.50)
>DroPer_CAF1 15895 101 + 1
---------GCACACGCCCACAGUAUAAACAACUCAAUUUGAAUGCAUUUAACCGCGUAAUUGAGCCACGUGCCACGGACUGCUACGCGUGCGCUA--UUUGUGGCCAACAA--------
---------((.(((((...((((........(((((((...((((........)))))))))))...((.....)).))))....))))).))..--.((((.....))))-------- ( -24.30)
>consensus
________AGCACACGCCCACAGUAUAAACAACUCAAUUUGAAUGCAUUUAACCGCGUAAUUGAGCCACGUGU__UGGAC_GCUACGCGUGCGCUA__UUUGUGGCCAAAGCAA______
...............(((.((((.........(((((((...((((........))))))))))).(((((((...........)))))))........))))))).............. (-22.05 = -21.97 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:25:35 2006