Locus 4804

Sequence ID X_DroMel_CAF1
Location 12,490,674 – 12,490,771
Length 97
Max. P 0.991372
window7858 window7859

overview

Window 8

Location 12,490,674 – 12,490,771
Length 97
Sequences 5
Columns 99
Reading direction forward
Mean pairwise identity 94.61
Mean single sequence MFE -17.04
Consensus MFE -16.14
Energy contribution -15.82
Covariance contribution -0.32
Combinations/Pair 1.09
Mean z-score -1.65
Structure conservation index 0.95
SVM decision value 2.26
SVM RNA-class probability 0.991372
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12490674 97 + 22224390
--AUAUAAAAUGAUACCCCAGCAAAUGUGAUUCACGAGUGAAUCACUGCGAUCGAUAAUAACAUAAACCGAAAUUAUUGCAAAUCAAUACGAUUUAAAC
--......((((((......(((...((((((((....)))))))))))..(((..............))).))))))..(((((.....))))).... ( -16.34)
>DroSec_CAF1 20341 97 + 1
--AUAUAAAAUGAUACCCCAGCAAAUGUGAUUCACGAGUGAAUCACUGCGAUCGAUAGUAACACAAACCGAAAUUAUUGCAAAUCAAUACGAUUCAAGC
--........((((......(((...((((((((....)))))))))))...(((((((.............)))))))...))))............. ( -16.22)
>DroSim_CAF1 21886 97 + 1
--AUAUAAAAUGAUACCCCAGCAAAUGUGAUUCACGAGUGAAUCACUGCGAUUGAUAGUAACACAAACCGAAAUUAUUGCAAAUCAAUACGAUUCAAGC
--........(((.......(((...((((((((....)))))))))))((((..((((((............))))))..))))........)))... ( -17.10)
>DroEre_CAF1 21093 99 + 1
UGAUAUCAAAUGAUACCCCAGCAGAUGUGAUUCACGAGUGAAUCACUGCGAUCGAUAGUAACACAAACCGAAAUUAUUGCAAAUCAAUUCGAUUCAAAU
(((.(((((.((((......(((...((((((((....)))))))))))...(((((((.............)))))))...)))).)).))))))... ( -18.52)
>DroYak_CAF1 15776 99 + 1
CGAUAUAAAAUGAUACCCCAGCAAAUGUGAUUCACGAGUGAAUCACUGCGAUCGAUAGUAACACAAACCGAAAUUAUUGCAAAUCAAUUCGAUUCAAAC
.(((....((((((......(((...((((((((....)))))))))))..(((..............))).))))))....))).............. ( -17.04)
>consensus
__AUAUAAAAUGAUACCCCAGCAAAUGUGAUUCACGAGUGAAUCACUGCGAUCGAUAGUAACACAAACCGAAAUUAUUGCAAAUCAAUACGAUUCAAAC
..........((((......(((...((((((((....)))))))))))...(((((((.............)))))))...))))............. (-16.14 = -15.82 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 12,490,674 – 12,490,771
Length 97
Sequences 5
Columns 99
Reading direction reverse
Mean pairwise identity 94.61
Mean single sequence MFE -21.60
Consensus MFE -19.56
Energy contribution -19.60
Covariance contribution 0.04
Combinations/Pair 1.04
Mean z-score -1.28
Structure conservation index 0.91
SVM decision value 0.58
SVM RNA-class probability 0.787488
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12490674 97 - 22224390
GUUUAAAUCGUAUUGAUUUGCAAUAAUUUCGGUUUAUGUUAUUAUCGAUCGCAGUGAUUCACUCGUGAAUCACAUUUGCUGGGGUAUCAUUUUAUAU--
...((((((.....)))))).....((..((((...(((.(((...))).)))((((((((....))))))))....))))..))............-- ( -19.30)
>DroSec_CAF1 20341 97 - 1
GCUUGAAUCGUAUUGAUUUGCAAUAAUUUCGGUUUGUGUUACUAUCGAUCGCAGUGAUUCACUCGUGAAUCACAUUUGCUGGGGUAUCAUUUUAUAU--
((..(((((.....)))))))....((..((((.((((...........))))((((((((....))))))))....))))..))............-- ( -22.00)
>DroSim_CAF1 21886 97 - 1
GCUUGAAUCGUAUUGAUUUGCAAUAAUUUCGGUUUGUGUUACUAUCAAUCGCAGUGAUUCACUCGUGAAUCACAUUUGCUGGGGUAUCAUUUUAUAU--
((..(((((.....)))))))....((..((((.((((...........))))((((((((....))))))))....))))..))............-- ( -22.00)
>DroEre_CAF1 21093 99 - 1
AUUUGAAUCGAAUUGAUUUGCAAUAAUUUCGGUUUGUGUUACUAUCGAUCGCAGUGAUUCACUCGUGAAUCACAUCUGCUGGGGUAUCAUUUGAUAUCA
...((((((((((.(((........((..((((.((((...........))))((((((((....))))))))....))))..)))))))))))).))) ( -24.10)
>DroYak_CAF1 15776 99 - 1
GUUUGAAUCGAAUUGAUUUGCAAUAAUUUCGGUUUGUGUUACUAUCGAUCGCAGUGAUUCACUCGUGAAUCACAUUUGCUGGGGUAUCAUUUUAUAUCG
....(((((.....)))))......((..((((.((((...........))))((((((((....))))))))....))))..)).............. ( -20.60)
>consensus
GUUUGAAUCGUAUUGAUUUGCAAUAAUUUCGGUUUGUGUUACUAUCGAUCGCAGUGAUUCACUCGUGAAUCACAUUUGCUGGGGUAUCAUUUUAUAU__
....(((((.....)))))......((..((((.((((...........))))((((((((....))))))))....))))..)).............. (-19.56 = -19.60 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:33:32 2006