Locus 4393

Sequence ID 3L_DroMel_CAF1
Location 12,867,528 – 12,867,627
Length 99
Max. P 0.543815
window6811

overview

Window 1

Location 12,867,528 – 12,867,627
Length 99
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 81.74
Mean single sequence MFE -31.58
Consensus MFE -19.97
Energy contribution -20.70
Covariance contribution 0.73
Combinations/Pair 1.28
Mean z-score -1.66
Structure conservation index 0.63
SVM decision value 0.02
SVM RNA-class probability 0.543815
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12867528 99 + 23771897
AUCCAUUUCAGCGACUUUGUCUGCAAUCACUCCAUGCCCUACACCGUGGAGCGAUUGGAC-AGGAGUUGUGGCA-GCGACACUCCGAGUCCAUCCACCUCG
..........(.(((((((((..(((((.(((((((........))))))).))))))))-)(((((.((.(..-.).))))))))))))).......... ( -31.50)
>DroVir_CAF1 3966 98 + 1
UACGAGCUGAGAGAUUUUUCCUGCACCUAUCCACUAUCCUACGUUGUGGAGCGUAUGGAACAGCCG-UGCGGGGAUGGUGAUUACGCUUC--ACCGGCUCG
..((((((.........(((((((((...(((((...........)))))......((.....)))-)))))))).(((((.......))--))))))))) ( -36.50)
>DroSec_CAF1 802 99 + 1
AUCCAAUUCAGCGACUUUGUCUGCAAUCACUCCAUGCCCUACACCGUGGAGCGAUUGGAC-AGGAGUUGUGGCA-GCGACACUCCGAGUCCAUCCACCUCG
..........(.(((((((((..(((((.(((((((........))))))).))))))))-)(((((.((.(..-.).))))))))))))).......... ( -31.50)
>DroSim_CAF1 994 99 + 1
AUCCAAUUCAGCGACUUUGUCUGCAAUCACUCCAUGCCCUACACCGUGGAGCGAUUGGAC-AGGAGUUGUGGCA-GCAACACUCCGAGUCCAUCCACCUCG
..........(.(((((((((..(((((.(((((((........))))))).))))))))-)((((((((....-)))..))))))))))).......... ( -31.70)
>DroEre_CAF1 1015 99 + 1
AUCCAAUUCAGCGACUUUGUCUGCAGUCACUCCAUGCCGUACACCGUGGAGCGAUUGAAC-AGGAGUUGUGGCA-GCAACACUACGAGUCCAUCCACCUCG
...........(((...(((...(((((.(((((((........))))))).))))).))-)(((.((((((..-......)))))).))).......))) ( -29.20)
>DroYak_CAF1 961 99 + 1
AUCCAAUUCAGCGACUUUGUCUGCAGUCACUCUAUGUCCUACACCGUGGAGCGAUUGGAC-AGGAGUUGUGGCA-ACGACACUACGAGUCCAUCCACCUCG
...........(((...((((..(((((.(((((((........))))))).))))))))-)(((.((((((..-......)))))).))).......))) ( -29.10)
>consensus
AUCCAAUUCAGCGACUUUGUCUGCAAUCACUCCAUGCCCUACACCGUGGAGCGAUUGGAC_AGGAGUUGUGGCA_GCGACACUACGAGUCCAUCCACCUCG
..........((((((((...(.(((((.(((((((........))))))).))))).)...))))))))..............((((.........)))) (-19.97 = -20.70 +   0.73)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:21:32 2006