Locus 791

Sequence ID 2R_DroMel_CAF1
Location 3,768,942 – 3,769,104
Length 162
Max. P 0.842910
window1387 window1388

overview

Window 7

Location 3,768,942 – 3,769,040
Length 98
Sequences 5
Columns 98
Reading direction reverse
Mean pairwise identity 89.65
Mean single sequence MFE -29.62
Consensus MFE -25.28
Energy contribution -25.52
Covariance contribution 0.24
Combinations/Pair 1.11
Mean z-score -1.57
Structure conservation index 0.85
SVM decision value 0.76
SVM RNA-class probability 0.842910
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3768942 98 - 20766785
CCAUCCAUACACCUGGUGGAGCUGAUACAUGCGUAUUGAUGCCAAACGCGUUCAGGCAGAGCGACAAACUUGACACCCACUUAAAGGUGUUAAGUGCU
(((.(((......))))))..((((...((((((.(((....)))))))))))))....(((.....((((((((((........))))))))))))) ( -29.50)
>DroSec_CAF1 24900 98 - 1
CCAUCCAUACACCUGGUGGAGCUGAUACAUGCGUAUUGAUGCCAAGCGCGUUCAGGCAGAGCGACAAACUUGACACCCACUUACAGGUGUUAAGUGCU
.((((.((((.((....)).((........)))))).))))...(((((((((.....))))).)..((((((((((........))))))))))))) ( -31.20)
>DroSim_CAF1 46963 98 - 1
CCAUCCAUACACCUGGUGGAGCUGAUACAUGCGUAUUGAUGCCAAGCGCGUUCAGGCAGAGCGACAAACUUGACACCCACUUACAGGUGUUAAGUGCU
.((((.((((.((....)).((........)))))).))))...(((((((((.....))))).)..((((((((((........))))))))))))) ( -31.20)
>DroEre_CAF1 26050 94 - 1
CCAUCC----ACCUGAUGGAGCUGAUAUUUGCGUAUUGAUGCCAAGCGCGUUCGGGCAGAGCGGCAAACUUGACACCCACUCAAAAGUGUUAAGUGGC
(((((.----....))))).((........))........(((..((.(((((.....)))))))..(((((((((..........)))))))))))) ( -29.00)
>DroYak_CAF1 18928 94 - 1
CCAUCC----AUCUAGUGGAGCCGAUACAUGCGUAUUGAUGCCAAACGCGUUCAGGCGAAGCGCCAAACUUGACACCCACUCAAAAGUGUUAAGUGGU
...(((----((...)))))(((((...((((((.(((....))))))))))).((((...))))..(((((((((..........)))))))))))) ( -27.20)
>consensus
CCAUCCAUACACCUGGUGGAGCUGAUACAUGCGUAUUGAUGCCAAGCGCGUUCAGGCAGAGCGACAAACUUGACACCCACUUAAAGGUGUUAAGUGCU
(((((.........))))).(((.....((((((.(((....)))))))))...)))..........((((((((((........))))))))))... (-25.28 = -25.52 +   0.24) 

alignment

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secondary structure

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dotplot

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Window 8

Location 3,769,012 – 3,769,104
Length 92
Sequences 6
Columns 97
Reading direction reverse
Mean pairwise identity 78.73
Mean single sequence MFE -31.00
Consensus MFE -18.04
Energy contribution -18.57
Covariance contribution 0.53
Combinations/Pair 1.24
Mean z-score -1.95
Structure conservation index 0.58
SVM decision value 0.65
SVM RNA-class probability 0.812376
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3769012 92 - 20766785
---ACAUAGAGCUCCAGCCAGGCGUUCC-AUUCGCAUGCAUGAUUGAC-AGCCGAGUGGGCGGCCACAUCCAUCCAUACACCUGGUGGAGCUGAUAC
---......(((((((.(((((.(((((-(((((..((((....)).)-)..)))))))).((......))......)).))))))))))))..... ( -35.00)
>DroSec_CAF1 24970 92 - 1
---ACAUAGAGCUCCAUCCAGGCGUUCC-AUUCGCAUGCAUGAUUGAC-AGCCGAGUGGUGGGGCACAUCCAUCCAUACACCUGGUGGAGCUGAUAC
---......(((((((.(((((.((.((-(((((..((((....)).)-)..)))))))((((.....)))).....)).))))))))))))..... ( -36.10)
>DroSim_CAF1 47033 91 - 1
---ACAUAGAGCUCCAGCCAGGCGUUCC-AUUCGCAUGCAUGAUUGAC-AGCCGAGUGG-GGGGCACAUCCAUCCAUACACCUGGUGGAGCUGAUAC
---......(((((((.(((((.((.((-(((((..((((....)).)-)..)))))))-(((.....)))......)).))))))))))))..... ( -36.10)
>DroEre_CAF1 26120 88 - 1
---ACAUAGAGCUCCAGCCAGGCGUUCC-AUUCGCAUGCAUGACAGCCGAGCCGAGUGG-AGGCCUCAUCCAUCC----ACCUGAUGGAGCUGAUAU
---...........((((.((((.((((-((((((..((......))...).)))))))-))))))..((((((.----....)))))))))).... ( -31.50)
>DroYak_CAF1 18998 79 - 1
---ACAUAGAGCUCCAGCCAGGCGUUCC-AUUCGCA----UGACAGC-----CGAGUGG-AGGGCAUAUCCAUCC----AUCUAGUGGAGCCGAUAC
---.....(.((((((.....((.((((-((((((.----.....).-----)))))))-)).)).........(----.....))))))))..... ( -24.40)
>DroAna_CAF1 23543 78 - 1
GACACAUAGAGCUUCAACGAGGCGUUCCGAAUCGCUUGCAUGAUUGAC-AGCCGAGUGG-UGGGCACAUCC-----------UUGUGGCGU------
..((((..(((((((...)))))((.((..((((((((..((.....)-)..)))))))-).)).)).)).-----------.))))....------ ( -22.90)
>consensus
___ACAUAGAGCUCCAGCCAGGCGUUCC_AUUCGCAUGCAUGAUUGAC_AGCCGAGUGG_AGGGCACAUCCAUCC____ACCUGGUGGAGCUGAUAC
.........(((((((.(((((((........)))....................(((......)))..............)))))))))))..... (-18.04 = -18.57 +   0.53) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:29 2006