Locus 1545

Sequence ID 2R_DroMel_CAF1
Location 5,842,648 – 5,842,738
Length 90
Max. P 0.642330
window2601

overview

Window 1

Location 5,842,648 – 5,842,738
Length 90
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 78.72
Mean single sequence MFE -42.83
Consensus MFE -27.96
Energy contribution -26.59
Covariance contribution -1.37
Combinations/Pair 1.44
Mean z-score -1.38
Structure conservation index 0.65
SVM decision value 0.23
SVM RNA-class probability 0.642330
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5842648 90 - 20766785
GGGUGUGGG------UCUGGGUGGAGGAACUCUGGCCAGACUGGCGGCCAGAAGGCGUCAGUUGCAGCGAUGUUCCUCCUGCAGUUGCUCCACUGC------
.((((.(((------((((.(.((((((((..(.((..((((((((.((....))))))))))...)).).))))))))).)))..))))))))..------ ( -42.30)
>DroPse_CAF1 1153 96 - 1
GGGUCUGGG------CCUGGGUGGAGGGACUCUGGCCAUGCUGGCGGCUCGAAGGAGGCAGCUGCAACGGUGCUGCUCCUGCAGCUGCUCCACCACAUCCUC
((((.((((------((.(.((((.((....))..)))).).)))(((((....)))(((((((((..((.....))..))))))))).)).))).)))).. ( -44.30)
>DroSim_CAF1 139 90 - 1
GGGUGUGGG------CCUGAAUGGAGGAACUCUGGCCAGACUGGCGGCCAGAAGGCGUCAGUUGCAGCGAUGUUGCUCCUGCAGUUGCUCCAUUGC------
((((....)------))).(((((((.((((((((((........)))))))....(.(((..(((((...)))))..)))).))).)))))))..------ ( -37.70)
>DroEre_CAF1 1160 96 - 1
GGGUGUGGGCCUGGGCCUGGGUGGAGGAGCCCUGGCCAGACUGGCGGCCAGAAGGCGUCAGCUGCAGCGUUGUUGCUCCUGCAGUUGCUCCACUGC------
......((((....)))).(((((((..(((((((((........))))))..)))..(((((((((.((....))..))))))))))))))))..------ ( -47.40)
>DroWil_CAF1 1788 96 - 1
GGGCUUGGG------CUUGGGUGGUGGUGCAUUGGCCAUGCUGGCGGCACGUAGGCGACAAUUGCAACGGUGUUGCUCGUGCAGUUGCUCCACCACAAGCAC
........(------((...(((((((.(((...(((.....))).(((((..(((((((..........))))))))))))...))).))))))).))).. ( -41.00)
>DroPer_CAF1 1141 96 - 1
GGGUCUGGG------CCUGGGUGGAGGGACUCUGGCCAUGCUGGCGGCUCGAAGGAGGCAGCUGCAACGGUGCUGCUCCUGCAGCUGCUCCACCACAUCCUC
((((.((((------((.(.((((.((....))..)))).).)))(((((....)))(((((((((..((.....))..))))))))).)).))).)))).. ( -44.30)
>consensus
GGGUGUGGG______CCUGGGUGGAGGAACUCUGGCCAGACUGGCGGCCAGAAGGCGUCAGCUGCAACGGUGUUGCUCCUGCAGUUGCUCCACCAC______
......((((....)))).(((((((....((.((((........)))).))......((((((((.............)))))))))))))))........ (-27.96 = -26.59 +  -1.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:07:14 2006