Locus 4681

Sequence ID 3L_DroMel_CAF1
Location 13,222,982 – 13,223,086
Length 104
Max. P 0.950933
window7374 window7375

overview

Window 4

Location 13,222,982 – 13,223,086
Length 104
Sequences 5
Columns 104
Reading direction forward
Mean pairwise identity 79.75
Mean single sequence MFE -31.92
Consensus MFE -24.44
Energy contribution -24.64
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.52
Structure conservation index 0.77
SVM decision value 0.33
SVM RNA-class probability 0.693086
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13222982 104 + 23771897
ACAACGCACCUUGCGGUUUUUGCGGCAAGUGAAUUGGGCUGUGAAAGCCGAACGCGUUGCAUGCGGAUUCGGUUUGGUGUGUGGAGGGGUGGUGAGUAUGGGAG
.((((.((((...(((((((..((((..(.....)..))))..))))))).((.(.(..(((((.((......)).)))))..)..).)))))).)).)).... ( -36.10)
>DroSec_CAF1 16377 104 + 1
ACAACGCACCUUGCGGUUUUUGCGGCAAGUGAAUUGGGCUGUGAAAGCCGAACGCGUUGCAUGCGGAUUCGGUUUGCUUGGGUGAGGGGAGGGUUGUAUGGGAG
.((((((......(((((((..((((..(.....)..))))..)))))))...))))))(((((((.(((..((..(....)..))..)))..))))))).... ( -36.80)
>DroSim_CAF1 21479 104 + 1
ACAACGCACCUUGCGGUUUUUGCGGCAAGUGAAUUGGGCUGUGAAAGCCGAACGCGUUGCAUGCGGAUUCGGUUUGCUUUGGUGNNNNNNNNNNNNNNNNNNNN
.((((((......(((((((..((((..(.....)..))))..)))))))...))))))((.((((((...))))))..))....................... ( -29.40)
>DroEre_CAF1 6240 88 + 1
ACAACGCACCUUGCGGUUUUUGCGGCAAGUGAAUUGGGCUGUGAAAGCCGAACGCGUUGCAUGCGGAUACGGAUUGGA---AUGAGGUGGG-------------
....(.((((((.(((((((..((((..(.....)..))))..)))))))..(((((...))))).............---..)))))).)------------- ( -31.40)
>DroYak_CAF1 16313 91 + 1
ACAACGCACCUUGCGGUUUUUGCGGGAAGUGAAUUGGGCUGUGAAAGCCGAACGCGUUGCAUGCGGAUACGGAUUGUG---GUGAGGAGGG----------GAA
....(.(.(((..(((((((..(((.............)))..))))))...(((((...))))).............---)..))).).)----------... ( -25.92)
>consensus
ACAACGCACCUUGCGGUUUUUGCGGCAAGUGAAUUGGGCUGUGAAAGCCGAACGCGUUGCAUGCGGAUUCGGUUUGCU__GGUGAGGGGGG__________GA_
.((((((......(((((((..((((..(.....)..))))..)))))))...))))))............................................. (-24.44 = -24.64 +   0.20)

alignment

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secondary structure

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dotplot

Postscript

Window 5

Location 13,222,982 – 13,223,086
Length 104
Sequences 5
Columns 104
Reading direction reverse
Mean pairwise identity 79.75
Mean single sequence MFE -20.48
Consensus MFE -20.30
Energy contribution -20.30
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.74
Structure conservation index 0.99
SVM decision value 1.41
SVM RNA-class probability 0.950933
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13222982 104 - 23771897
CUCCCAUACUCACCACCCCUCCACACACCAAACCGAAUCCGCAUGCAACGCGUUCGGCUUUCACAGCCCAAUUCACUUGCCGCAAAAACCGCAAGGUGCGUUGU
............................................((((((((...((((.....)))).......(((((.(......).))))).)))))))) ( -20.30)
>DroSec_CAF1 16377 104 - 1
CUCCCAUACAACCCUCCCCUCACCCAAGCAAACCGAAUCCGCAUGCAACGCGUUCGGCUUUCACAGCCCAAUUCACUUGCCGCAAAAACCGCAAGGUGCGUUGU
.......(((((...............((((...(((..(((.......))))))((((.....))))........)))).((....(((....)))))))))) ( -21.00)
>DroSim_CAF1 21479 104 - 1
NNNNNNNNNNNNNNNNNNNNCACCAAAGCAAACCGAAUCCGCAUGCAACGCGUUCGGCUUUCACAGCCCAAUUCACUUGCCGCAAAAACCGCAAGGUGCGUUGU
...........................((...........))..((((((((...((((.....)))).......(((((.(......).))))).)))))))) ( -20.50)
>DroEre_CAF1 6240 88 - 1
-------------CCCACCUCAU---UCCAAUCCGUAUCCGCAUGCAACGCGUUCGGCUUUCACAGCCCAAUUCACUUGCCGCAAAAACCGCAAGGUGCGUUGU
-------------..........---..................((((((((...((((.....)))).......(((((.(......).))))).)))))))) ( -20.30)
>DroYak_CAF1 16313 91 - 1
UUC----------CCCUCCUCAC---CACAAUCCGUAUCCGCAUGCAACGCGUUCGGCUUUCACAGCCCAAUUCACUUCCCGCAAAAACCGCAAGGUGCGUUGU
...----------..........---..................(((((((....((((.....))))...................(((....)))))))))) ( -20.30)
>consensus
_UC__________CCCCCCUCACC__ACCAAACCGAAUCCGCAUGCAACGCGUUCGGCUUUCACAGCCCAAUUCACUUGCCGCAAAAACCGCAAGGUGCGUUGU
............................................(((((((....((((.....))))...................(((....)))))))))) (-20.30 = -20.30 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:30:37 2006