Locus 7416

Sequence ID X_DroMel_CAF1
Location 18,500,450 – 18,500,553
Length 103
Max. P 0.811134
window12157 window12158

overview

Window 7

Location 18,500,450 – 18,500,553
Length 103
Sequences 4
Columns 108
Reading direction forward
Mean pairwise identity 82.78
Mean single sequence MFE -25.27
Consensus MFE -15.82
Energy contribution -16.95
Covariance contribution 1.13
Combinations/Pair 1.10
Mean z-score -2.15
Structure conservation index 0.63
SVM decision value 0.65
SVM RNA-class probability 0.811134
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18500450 103 + 22224390
ACCUACUUGUUUUCAAAUUUGGUAGUGC--UGUGGCGGCACUGCCAACACUUUCCGAGCUGAUAAAUAGGCUAUUAAUAAGUUA---UUCUUUAAAGUACAUAGCUUU
....(((((((.......((((((((((--((...)))))))))))).........((((........))))...)))))))..---......(((((.....))))) ( -25.50)
>DroSec_CAF1 8653 103 + 1
ACCUACUUGUAUUCAAAUUUGGUAGUAC--UGUGGCGGCACUGCCAACACUUUCCAAGCUGAAAAGUAGGCUGUUAAUUAGUUA---UUCUUAAAAGUACAUAGCUUU
.(((((((...((((..(((((.(((..--..(((((....)))))..)))..))))).))))))))))).........(((((---(.((....))...)))))).. ( -23.30)
>DroEre_CAF1 8809 101 + 1
ACCUACUUGUAUUCAAAUUUGGUAGUGCCGUGUGGAGGCACUGCCAACGCUUUCAAAGCUGAAAAAUAGGCUAUUAAUUAAUUAUUAUUCGCAUAAGUAUA-------
...(((((((.((((...(((((((((((.......))))))))))).(((.....)))))))......((...((((.....))))...)))))))))..------- ( -29.50)
>DroYak_CAF1 8793 103 + 1
ACCUACUUGUAUUCAAAUUAGUUGGUGC--UGUGGAGGCACUGCCCACACUUUCAAAGCUGAAAAAUAGGCUAUUAAUUAAUUA---UUCUCAUAGGUAUAUGACUUU
(((((..((......(((((((((((((--((((..(((...)))..)))(((((....)))))....))).))))))))))).---....))))))).......... ( -22.80)
>consensus
ACCUACUUGUAUUCAAAUUUGGUAGUGC__UGUGGAGGCACUGCCAACACUUUCAAAGCUGAAAAAUAGGCUAUUAAUUAAUUA___UUCUCAAAAGUACAUAGCUUU
...(((((((........((((((((((.........)))))))))).........((((........))))....................)))))))......... (-15.82 = -16.95 +   1.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 18,500,450 – 18,500,553
Length 103
Sequences 4
Columns 108
Reading direction reverse
Mean pairwise identity 82.78
Mean single sequence MFE -21.85
Consensus MFE -18.41
Energy contribution -18.23
Covariance contribution -0.19
Combinations/Pair 1.17
Mean z-score -1.45
Structure conservation index 0.84
SVM decision value 0.10
SVM RNA-class probability 0.583540
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18500450 103 - 22224390
AAAGCUAUGUACUUUAAAGAA---UAACUUAUUAAUAGCCUAUUUAUCAGCUCGGAAAGUGUUGGCAGUGCCGCCACA--GCACUACCAAAUUUGAAAACAAGUAGGU
.....................---.............((((((((.((((...((..(((((((((......))))..--))))).))....))))....)))))))) ( -19.00)
>DroSec_CAF1 8653 103 - 1
AAAGCUAUGUACUUUUAAGAA---UAACUAAUUAACAGCCUACUUUUCAGCUUGGAAAGUGUUGGCAGUGCCGCCACA--GUACUACCAAAUUUGAAUACAAGUAGGU
.....................---.............(((((((((((((.((((..((((.((((......))))..--.)))).))))..)))))...)))))))) ( -21.50)
>DroEre_CAF1 8809 101 - 1
-------UAUACUUAUGCGAAUAAUAAUUAAUUAAUAGCCUAUUUUUCAGCUUUGAAAGCGUUGGCAGUGCCUCCACACGGCACUACCAAAUUUGAAUACAAGUAGGU
-------..............................(((((((((((((((.....))).((((.((((((.......)))))).))))...))))...)))))))) ( -25.40)
>DroYak_CAF1 8793 103 - 1
AAAGUCAUAUACCUAUGAGAA---UAAUUAAUUAAUAGCCUAUUUUUCAGCUUUGAAAGUGUGGGCAGUGCCUCCACA--GCACCAACUAAUUUGAAUACAAGUAGGU
..........((((((.....---.....(((((...(((((((((((......))))).)))))).((((.......--))))....))))).........)))))) ( -21.51)
>consensus
AAAGCUAUAUACUUAUAAGAA___UAACUAAUUAAUAGCCUAUUUUUCAGCUUGGAAAGUGUUGGCAGUGCCGCCACA__GCACUACCAAAUUUGAAUACAAGUAGGU
.....................................(((((((((((((((.....))).((((.(((((.........))))).))))...))))...)))))))) (-18.41 = -18.23 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:38:21 2006