Locus 7929

Sequence ID X_DroMel_CAF1
Location 19,739,701 – 19,739,821
Length 120
Max. P 0.995326
window13010 window13011

overview

Window 0

Location 19,739,701 – 19,739,821
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 88.58
Mean single sequence MFE -36.47
Consensus MFE -31.02
Energy contribution -31.13
Covariance contribution 0.12
Combinations/Pair 1.09
Mean z-score -3.62
Structure conservation index 0.85
SVM decision value 1.69
SVM RNA-class probability 0.972507
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19739701 120 + 22224390
UGGUGUGCCACAGAAAUCUCUGCAAAUCGACUUGAUGCGAUUUUAAUUGUCUUUUCCUCAAAACUAAAUCCAUUUGCUCUGUAGAGAUCACUGCGGCUCUCCGAAUAAGAACAAGCUUUC
.((.(.(((.(((..(((((((((....((...((((.(((((...(((.........)))....)))))))))...)))))))))))..))).))).).)).................. ( -30.50)
>DroEre_CAF1 1488 119 + 1
UGGUGUGCCACAGAAAUCUCUGCAAACCGACUUGGUGCGAUUUUAUUUGUCUCUU-CUCAAGACUAAAUCCAUUUGCUCUGUAGAGAUCUCUGCGGCUCCCCGAAUAAAUAAAAGUAUGC
.((.(.(((.((((.(((((((((.(((.....)))((((....((((((((...-....)))).))))....))))..))))))))).)))).))).).)).................. ( -36.30)
>DroYak_CAF1 1500 119 + 1
UGGUGUGCCGCAGAAAUCUCUGCAAACCGACUUGGUGCGAUUUUAUUUGUCUUUU-CUCAAAACUAAAUCCAUUUGUUCUGUAGAGAUCUCUGCGGCUUACCGAAUAGAGAAAAUAUUGC
.((((.((((((((.(((((((((....(((..((((.(((((..((((......-..))))...))))))))).))).))))))))).)))))))).)))).................. ( -42.60)
>consensus
UGGUGUGCCACAGAAAUCUCUGCAAACCGACUUGGUGCGAUUUUAUUUGUCUUUU_CUCAAAACUAAAUCCAUUUGCUCUGUAGAGAUCUCUGCGGCUCACCGAAUAAAAAAAAGAUUGC
.((.(.(((.((((.(((((((((....((...((((.(((((..((((.........))))...)))))))))...))))))))))).)))).))).).)).................. (-31.02 = -31.13 +   0.12)

alignment

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secondary structure

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dotplot

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Window 1

Location 19,739,701 – 19,739,821
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 88.58
Mean single sequence MFE -38.80
Consensus MFE -37.75
Energy contribution -37.87
Covariance contribution 0.12
Combinations/Pair 1.11
Mean z-score -3.77
Structure conservation index 0.97
SVM decision value 2.56
SVM RNA-class probability 0.995326
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19739701 120 - 22224390
GAAAGCUUGUUCUUAUUCGGAGAGCCGCAGUGAUCUCUACAGAGCAAAUGGAUUUAGUUUUGAGGAAAAGACAAUUAAAAUCGCAUCAAGUCGAUUUGCAGAGAUUUCUGUGGCACACCA
..................((.(.(((((((.(((((((.....((((((.(((((.(((((......)))))..........(...)))))).))))))))))))).))))))).).)). ( -34.90)
>DroEre_CAF1 1488 119 - 1
GCAUACUUUUAUUUAUUCGGGGAGCCGCAGAGAUCUCUACAGAGCAAAUGGAUUUAGUCUUGAG-AAGAGACAAAUAAAAUCGCACCAAGUCGGUUUGCAGAGAUUUCUGUGGCACACCA
..................((.(.(((((((((((((((.....((((((.(((((.(((((...-..)))))..........(...)))))).))))))))))))))))))))).).)). ( -41.50)
>DroYak_CAF1 1500 119 - 1
GCAAUAUUUUCUCUAUUCGGUAAGCCGCAGAGAUCUCUACAGAACAAAUGGAUUUAGUUUUGAG-AAAAGACAAAUAAAAUCGCACCAAGUCGGUUUGCAGAGAUUUCUGCGGCACACCA
..................(((..(((((((((((((((.((((((.((.....)).))))))..-.................(((((.....)))..)))))))))))))))))..))). ( -40.00)
>consensus
GCAAACUUUUAUUUAUUCGGAGAGCCGCAGAGAUCUCUACAGAGCAAAUGGAUUUAGUUUUGAG_AAAAGACAAAUAAAAUCGCACCAAGUCGGUUUGCAGAGAUUUCUGUGGCACACCA
..................((.(.(((((((((((((((.....((((((.(((((.(((((......)))))..........(...)))))).))))))))))))))))))))).).)). (-37.75 = -37.87 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:51:03 2006