Locus 5301

Sequence ID X_DroMel_CAF1
Location 13,870,088 – 13,870,245
Length 157
Max. P 0.925824
window8577 window8578

overview

Window 7

Location 13,870,088 – 13,870,205
Length 117
Sequences 3
Columns 119
Reading direction forward
Mean pairwise identity 85.35
Mean single sequence MFE -21.91
Consensus MFE -14.59
Energy contribution -15.92
Covariance contribution 1.33
Combinations/Pair 1.00
Mean z-score -2.75
Structure conservation index 0.67
SVM decision value 0.72
SVM RNA-class probability 0.833758
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13870088 117 + 22224390
CGAUAUAUGCAGCCCCACA--CACACUCACACAAACAUAUAUAUAUACAUUACUAGAUAUAUAUAAUGUAUCUAACGGAUACAUACAACAAAUGGCACCGAAUGAAAGAAAAGGGGCAA
...........(((((...--................(((((((((.(.......))))))))))(((((((.....)))))))............................))))).. ( -23.80)
>DroSec_CAF1 15502 113 + 1
CGAUAUAUGCAGG--CACA--CACACUCGCACAAACAUAU--AUAUACAUUACUAGAUAUAUAUAAUGUAUCUGGCGGAUACAUACAACAAAUGGCACCGAAUGAAAGAAAAGGGGCAA
..(((((((...(--(...--.......)).....)))))--))...((((.((((((((((...))))))))))(((...(((.......)))...)))))))............... ( -18.60)
>DroEre_CAF1 13277 107 + 1
CGAUAUAUGCAGCCACACACACAAA----------AAUAUAUAUAUACUAUACU--AUAUAUAUAAUGUAUCUGGCGGAUACAUACAACAAAUGGCACCGAAUGAAAGAAAAGGGGCAA
.......(((.((((..........----------..((((((((((......)--)))))))))(((((((.....)))))))........)))).((.............)).))). ( -23.32)
>consensus
CGAUAUAUGCAGCC_CACA__CACACUC_CACAAACAUAUAUAUAUACAUUACUAGAUAUAUAUAAUGUAUCUGGCGGAUACAUACAACAAAUGGCACCGAAUGAAAGAAAAGGGGCAA
.......(((.(((.......................(((((((((..........)))))))))(((((((.....))))))).........))).((.............)).))). (-14.59 = -15.92 +   1.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 13,870,126 – 13,870,245
Length 119
Sequences 3
Columns 119
Reading direction reverse
Mean pairwise identity 93.84
Mean single sequence MFE -34.93
Consensus MFE -32.05
Energy contribution -32.83
Covariance contribution 0.78
Combinations/Pair 1.03
Mean z-score -2.40
Structure conservation index 0.92
SVM decision value 1.17
SVM RNA-class probability 0.925824
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13870126 119 - 22224390
AGGCAGCGUAAGUUUGCAGCCAGCGAGCGGAGAGUGAAAGUUGCCCCUUUUCUUUCAUUCGGUGCCAUUUGUUGUAUGUAUCCGUUAGAUACAUUAUAUAUAUCUAGUAAUGUAUAUAU
.((((.(....((((((.....))))))...(((((((((...........)))))))))).)))).........(((((((.....)))))))(((((((((......))))))))). ( -35.80)
>DroSec_CAF1 15538 117 - 1
AGGCAGCGUAAGUUUGCAGCCAGCGAGCGGAGAGUGAAAGUUGCCCCUUUUCUUUCAUUCGGUGCCAUUUGUUGUAUGUAUCCGCCAGAUACAUUAUAUAUAUCUAGUAAUGUAUAU--
.((((((....)))((((..(((((((.((.(((((((((...........)))))))))....)).)))))))..))))...)))..(((((((((.........)))))))))..-- ( -36.20)
>DroEre_CAF1 13307 117 - 1
AGACAGCGCAAGUUUGCAGUCAGCGAGCGGAGAGUGAAAGUUGCCCCUUUUCUUUCAUUCGGUGCCAUUUGUUGUAUGUAUCCGCCAGAUACAUUAUAUAUAU--AGUAUAGUAUAUAU
..(((((....((((((.....))))))((.(((((((((...........)))))))))....))....)))))(((((((.....))))))).((((((((--......)))))))) ( -32.80)
>consensus
AGGCAGCGUAAGUUUGCAGCCAGCGAGCGGAGAGUGAAAGUUGCCCCUUUUCUUUCAUUCGGUGCCAUUUGUUGUAUGUAUCCGCCAGAUACAUUAUAUAUAUCUAGUAAUGUAUAUAU
..(((((....((((((.....))))))((.(((((((((...........)))))))))....))....)))))(((((((.....)))))))(((((((((......))))))))). (-32.05 = -32.83 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:19 2006