Locus 1206

Sequence ID 3L_DroMel_CAF1
Location 3,434,545 – 3,434,644
Length 99
Max. P 0.999370
window1897 window1898

overview

Window 7

Location 3,434,545 – 3,434,644
Length 99
Sequences 4
Columns 99
Reading direction forward
Mean pairwise identity 82.31
Mean single sequence MFE -22.63
Consensus MFE -19.50
Energy contribution -19.50
Covariance contribution 0.00
Combinations/Pair 1.06
Mean z-score -2.92
Structure conservation index 0.86
SVM decision value 2.87
SVM RNA-class probability 0.997495
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3434545 99 + 23771897
UCUGGGUCCGGUCUUUUCUUUGGGGUCGCAUUCAAACAACCCCUUGCAACCCUACGCCUCCUCCAUCUACAAUACAUCGAGCCAUUCAUGAAUGGACCC
...(((((((.((.......((((((.(((..............))).)))))).(.(((..................))).)......)).))))))) ( -23.81)
>DroSec_CAF1 49869 97 + 1
UCUGGGUCCGGUCUUUUCUUUGGGGUCGCAUUCAAACAACCCCUUCCAACCCUACUCCUCCUCAUCCUCC--UCCAUCGAACCAUUCAUGAAUGGACCC
...(((((((.((........(((((.(........).)))))...........................--......((.....))..)).))))))) ( -20.00)
>DroSim_CAF1 39031 97 + 1
UCUGGGUCCGGUCUUUUCUUUGGGGUCGCAUUCAAACAACCCCUUCCAACCCUACUCCUCCUCAUCCUCC--UCCAUCGAACCAUUCAUGAAUGGACCC
...(((((((.((........(((((.(........).)))))...........................--......((.....))..)).))))))) ( -20.00)
>DroYak_CAF1 49200 78 + 1
UCUGGGUCCGGUCUUUUCUUCGGGGUCGCAUCU----UACCCCUUCGAACCCUG---------------C--UCCAUCGAGCUAUUCAUGAAUGGACCC
...(((((((.((........(((((.......----.)))))...(((....(---------------(--((....))))..)))..)).))))))) ( -26.70)
>consensus
UCUGGGUCCGGUCUUUUCUUUGGGGUCGCAUUCAAACAACCCCUUCCAACCCUACUCCUCCUCAUCCUCC__UCCAUCGAACCAUUCAUGAAUGGACCC
...(((((((.((........(((((.(........).)))))...................................(((...)))..)).))))))) (-19.50 = -19.50 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 3,434,545 – 3,434,644
Length 99
Sequences 4
Columns 99
Reading direction reverse
Mean pairwise identity 82.31
Mean single sequence MFE -34.70
Consensus MFE -28.75
Energy contribution -29.75
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -4.29
Structure conservation index 0.83
SVM decision value 3.55
SVM RNA-class probability 0.999370
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3434545 99 - 23771897
GGGUCCAUUCAUGAAUGGCUCGAUGUAUUGUAGAUGGAGGAGGCGUAGGGUUGCAAGGGGUUGUUUGAAUGCGACCCCAAAGAAAAGACCGGACCCAGA
((((((........(((.(((..(.((((...)))).).))).)))..((((.(..((((((((......))))))))...)....))))))))))... ( -36.60)
>DroSec_CAF1 49869 97 - 1
GGGUCCAUUCAUGAAUGGUUCGAUGGA--GGAGGAUGAGGAGGAGUAGGGUUGGAAGGGGUUGUUUGAAUGCGACCCCAAAGAAAAGACCGGACCCAGA
((((((((((.....(.((((......--...)))).)....))))..((((....((((((((......))))))))........))))))))))... ( -34.40)
>DroSim_CAF1 39031 97 - 1
GGGUCCAUUCAUGAAUGGUUCGAUGGA--GGAGGAUGAGGAGGAGUAGGGUUGGAAGGGGUUGUUUGAAUGCGACCCCAAAGAAAAGACCGGACCCAGA
((((((((((.....(.((((......--...)))).)....))))..((((....((((((((......))))))))........))))))))))... ( -34.40)
>DroYak_CAF1 49200 78 - 1
GGGUCCAUUCAUGAAUAGCUCGAUGGA--G---------------CAGGGUUCGAAGGGGUA----AGAUGCGACCCCGAAGAAAAGACCGGACCCAGA
((((((...........((((....))--)---------------).((.(((...(((((.----.......)))))...)))....))))))))... ( -33.40)
>consensus
GGGUCCAUUCAUGAAUGGCUCGAUGGA__GGAGGAUGAGGAGGAGUAGGGUUGGAAGGGGUUGUUUGAAUGCGACCCCAAAGAAAAGACCGGACCCAGA
((((((.(((((((.....)).))))).....................((((....((((((((......))))))))........))))))))))... (-28.75 = -29.75 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:08 2006