Locus 6254

Sequence ID 2R_DroMel_CAF1
Location 19,638,201 – 19,638,294
Length 93
Max. P 0.925110
window10008

overview

Window 8

Location 19,638,201 – 19,638,294
Length 93
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 75.67
Mean single sequence MFE -24.13
Consensus MFE -9.03
Energy contribution -9.17
Covariance contribution 0.14
Combinations/Pair 1.40
Mean z-score -2.58
Structure conservation index 0.37
SVM decision value 1.17
SVM RNA-class probability 0.925110
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19638201 93 + 20766785
UGCAGCAAACAAA---CAAAUAAACAACCAA----CUGGGCUCGAAUGGAGUAACAAUAACUGGACAGAUAAGAGCAAACAAUAG-GCUCCAU-UGGGGCCC
.............---...............----..((((((.((((((((.........((..(......)..))........-)))))))-).)))))) ( -22.23)
>DroPse_CAF1 3071 99 + 1
CGCACAAAACAUGCACUAACUAAACAAUGCAUGUUUUAGCCUCAAGUGGAGUAACAAUAACUGGCCUGAUAACAGCAAACAAUGG-ACAU-GU-GCGGGCUC
(((((((((((((((............)))))))))).(((.....((......))......)))....................-....-))-)))..... ( -22.90)
>DroSec_CAF1 2785 94 + 1
UGCAGCAAACAAA---CAAAUAAACAACCAA----CCGGGUUCGAAUGGAGUAACAAUAACUGGCCAGAUAAGAGCAAACAAUGGGGCUCCAU-UGGGGCCC
.............---...............----..((((((.((((((((..((.......(((......).))......))..)))))))-).)))))) ( -25.92)
>DroEre_CAF1 2771 89 + 1
UGGAGCAAA-------UAAAUAAACAACUAA----CUGGGUUCCAAUGGAGUAACAAUAAGUGGUUAGAUAAGACCAAACAAUGG-GCUCCAU-UGGCGCCC
.........-------...............----..((((.((((((((((.........(((((......)))))........-)))))))-))).)))) ( -29.03)
>DroYak_CAF1 2809 89 + 1
UGCAGCAAA-------UAAAUAAACAACUAA----CUGGGUUCGAAUGGAGUAACAAUAACUGG-CAGAUAAGACCAAACAAUGG-GCUCCAUUUGGGGCCC
.........-------...............----..(((((((((((((((........((..-......)).(((.....)))-))))))))).)))))) ( -21.80)
>DroPer_CAF1 3071 99 + 1
CGCACAAAACAUGCACUAACUAAACAAUGCAUGUUUUAGCCUCAAGUGGAGUAACAAUAACUGGCCUGAUAACAGCAAACAAUGG-ACAU-GU-GCGGGCUC
(((((((((((((((............)))))))))).(((.....((......))......)))....................-....-))-)))..... ( -22.90)
>consensus
UGCAGCAAACA_____UAAAUAAACAACCAA____CUGGGCUCGAAUGGAGUAACAAUAACUGGCCAGAUAAGAGCAAACAAUGG_GCUCCAU_UGGGGCCC
.....................................((((((..(((((((.........((............)).........)))))))...)))))) ( -9.03 =  -9.17 +   0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:06:42 2006