Locus 2025

Sequence ID 2L_DroMel_CAF1
Location 5,482,454 – 5,482,558
Length 104
Max. P 0.765507
window3259

overview

Window 9

Location 5,482,454 – 5,482,558
Length 104
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 80.43
Mean single sequence MFE -27.76
Consensus MFE -13.87
Energy contribution -14.45
Covariance contribution 0.58
Combinations/Pair 1.10
Mean z-score -2.53
Structure conservation index 0.50
SVM decision value 0.51
SVM RNA-class probability 0.765507
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5482454 104 - 22407834
AAUAUUGCAAUUUACAUUUGCUGCAAUUAUGAAAAUGAAUUGG---AAACUUGAGGCAGCAGCAGC---AGCGGCAGCAGAAGUUGCACCAAUGCGCCAGCGACUUCAAU
....((((..........((((((..((((....))))...(.---...).....))))))((...---.)).))))..((((((((............))))))))... ( -28.10)
>DroPse_CAF1 120603 94 - 1
AAUAUUGCAAUUUACAUUUGCUGCAAUUAUGAAAAUGAAUUGGAGGAAACUUGCGGCAGCAACAGA------GCC-----AAGU---GCCAGU--GGCAGCAACGUCAAU
....((((.........(((((((..((((....))))....(((....)))...)))))))....------(((-----(...---.....)--))).))))....... ( -25.80)
>DroSec_CAF1 101634 101 - 1
AAUAUUGCAAUUUACAUUUGCUGCAAUUAUGAAAAUGAAUUGG---AAACUUGAGGCAGCAGCA------GUGGCAGCAGAAGUUGCACCAAUGCACCAGCGACUUCAGU
.....(((...((((..(((((((..((((....))))...(.---...).....)))))))..------))))..)))((((((((............))))))))... ( -27.90)
>DroYak_CAF1 110255 107 - 1
GAUAUUGCAAUUUACAUUUGCUGCAAUUAUGAAAAUGAAUUGG---AAACUUGAGGCAGCAGCAGCAGAAGUUGCAGCAGAAGUUGCAACAAUGCACCAGCGACUUCAAU
((..((((.........(((((((..((((....))))...(.---...).....)))))))..(((...((((((((....))))))))..)))....))))..))... ( -34.60)
>DroAna_CAF1 109294 100 - 1
AAUAUUGCAAUUUACAUUUGCUGCAAUUAUGAAAAUGAAUUGG---AGACUUGAGGCAGCAACAGCCAGA---GCAG-AGAGGUUGCAAAAA---GCCUGCAACAUCAGU
....((((.........(((((((..((((....))))...(.---...).....)))))))........---))))-.((.((((((....---...)))))).))... ( -24.33)
>DroPer_CAF1 121348 94 - 1
AAUAUUGCAAUUUACAUUUGCUGCAAUUAUGAAAAUGAAUUGGAGGAAACUUGCGGCAGCAACAGA------GCC-----AAGU---GCCAGU--GGCAGCAACGUCAAU
....((((.........(((((((..((((....))))....(((....)))...)))))))....------(((-----(...---.....)--))).))))....... ( -25.80)
>consensus
AAUAUUGCAAUUUACAUUUGCUGCAAUUAUGAAAAUGAAUUGG___AAACUUGAGGCAGCAACAGC______GGCAG_AGAAGUUGCACCAAU__GCCAGCAACUUCAAU
....((((.........(((((((..((((....))))...........(....))))))))...........((((......))))............))))....... (-13.87 = -14.45 +   0.58)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:25 2006