Locus 3987

Sequence ID 2L_DroMel_CAF1
Location 11,609,330 – 11,609,422
Length 92
Max. P 0.999053
window6287 window6288

overview

Window 7

Location 11,609,330 – 11,609,422
Length 92
Sequences 4
Columns 104
Reading direction forward
Mean pairwise identity 80.98
Mean single sequence MFE -30.45
Consensus MFE -19.34
Energy contribution -18.59
Covariance contribution -0.75
Combinations/Pair 1.24
Mean z-score -4.27
Structure conservation index 0.64
SVM decision value 3.35
SVM RNA-class probability 0.999053
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11609330 92 + 22407834
UAAGAAAGAGCGCAAAAAGCGCAAAA--CGCAAAGUGAAGAGCUAUUCUACAUACAUG----------UAUAUAUGUAUGUAUGUGUGGGUGGAUGCUUGCAGA
.........((((.....))))....--...........((((...(((((.((((((----------(((((....))))))))))).))))).))))..... ( -26.40)
>DroSec_CAF1 63949 101 + 1
UAAGAAAGAGCGCAAAAAGCGCAAAA--CGCAAAGUGAAGAGCUAU-CUACAUACAUGAACGUACAUACAUACGUAUAUGUAUGUAUGGGUGGAUGCUUGCAGA
.........((((.....))))....--.((((.(((.....((((-(((((((((((.(((((......))))).)))))))))..)))))).)))))))... ( -30.80)
>DroSim_CAF1 66725 101 + 1
UAAGAAAGAGCGCAAAAAGCGCAAAA--CGCAAAGUGAAGAGCUAU-CUACAUACAUGAACCUACAUACAUAUAUGUAUGUAUAUAUGGGUGGAUGCUUGCAGA
.........((((.....))))....--...........((((.((-((((...((((....((((((((....))))))))..)))).))))))))))..... ( -27.70)
>DroEre_CAF1 94592 97 + 1
UAAGAAAGAGCGCCAAAUGCGCAAAAAGCGCAAAGUGAAGAGCUAU-CCGCAUACAUGGAUGUAUGUG--UACGUGUGCGUGUG----UGUGGGUGGUUGCAGA
.........((..((..(((((.....)))))...))...((((((-(((((((((((.(((((....--)))))...))))))----)))))))))))))... ( -36.90)
>consensus
UAAGAAAGAGCGCAAAAAGCGCAAAA__CGCAAAGUGAAGAGCUAU_CUACAUACAUGAACGUACAUACAUACAUGUAUGUAUGUAUGGGUGGAUGCUUGCAGA
.........((((.....)))).......(((((((.....)))....((((((((((..............))))))))))...............))))... (-19.34 = -18.59 +  -0.75)

alignment

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secondary structure

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dotplot

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Window 8

Location 11,609,330 – 11,609,422
Length 92
Sequences 4
Columns 104
Reading direction reverse
Mean pairwise identity 80.98
Mean single sequence MFE -24.18
Consensus MFE -14.90
Energy contribution -15.90
Covariance contribution 1.00
Combinations/Pair 1.16
Mean z-score -3.69
Structure conservation index 0.62
SVM decision value 3.02
SVM RNA-class probability 0.998152
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11609330 92 - 22407834
UCUGCAAGCAUCCACCCACACAUACAUACAUAUAUA----------CAUGUAUGUAGAAUAGCUCUUCACUUUGCG--UUUUGCGCUUUUUGCGCUCUUUCUUA
...(((((..............(((((((((.....----------.)))))))))(((......)))..))))).--....((((.....))))......... ( -20.00)
>DroSec_CAF1 63949 101 - 1
UCUGCAAGCAUCCACCCAUACAUACAUAUACGUAUGUAUGUACGUUCAUGUAUGUAG-AUAGCUCUUCACUUUGCG--UUUUGCGCUUUUUGCGCUCUUUCUUA
((((((.((((..((.(((((((((......)))))))))...))..)))).)))))-)..((..........)).--....((((.....))))......... ( -28.00)
>DroSim_CAF1 66725 101 - 1
UCUGCAAGCAUCCACCCAUAUAUACAUACAUAUAUGUAUGUAGGUUCAUGUAUGUAG-AUAGCUCUUCACUUUGCG--UUUUGCGCUUUUUGCGCUCUUUCUUA
((((((.((((..(((..((((((((((....)))))))))))))..)))).)))))-)..((..........)).--....((((.....))))......... ( -28.50)
>DroEre_CAF1 94592 97 - 1
UCUGCAACCACCCACA----CACACGCACACGUA--CACAUACAUCCAUGUAUGCGG-AUAGCUCUUCACUUUGCGCUUUUUGCGCAUUUGGCGCUCUUUCUUA
(((((...........----...(((....))).--...(((((....)))))))))-).(((.((......(((((.....)))))...)).)))........ ( -20.20)
>consensus
UCUGCAAGCAUCCACCCAUACAUACAUACACAUAUGUAUGUACGUUCAUGUAUGUAG_AUAGCUCUUCACUUUGCG__UUUUGCGCUUUUUGCGCUCUUUCUUA
...(((((..............((((((((((..............))))))))))..............))))).......((((.....))))......... (-14.90 = -15.90 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:32 2006