Locus 5650

Sequence ID 3L_DroMel_CAF1
Location 15,504,146 – 15,504,252
Length 106
Max. P 0.598480
window8937

overview

Window 7

Location 15,504,146 – 15,504,252
Length 106
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 78.76
Mean single sequence MFE -18.08
Consensus MFE -5.96
Energy contribution -6.30
Covariance contribution 0.33
Combinations/Pair 1.10
Mean z-score -2.78
Structure conservation index 0.33
SVM decision value 0.13
SVM RNA-class probability 0.598480
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15504146 106 + 23771897
CUCUUCAAGCA-UAUCAACAAUCUUAUCUCACCGUAUUUUGUAACCAAAAAAAU-AA-AGCAAAAAAAAAAAAAGUAAACUUGCGCCCAGAUAAGGCCUGAAAUGCCCA
........(((-(.(((....((((((((...(((.((((((............-..-.)))))).......(((....))))))...))))))))..))).))))... ( -16.66)
>DroPse_CAF1 13986 89 + 1
CUCUUGAGGCA-UAUCAAGAAUCUUAUCACAAAGUAUUUUGUAACCAAA-AAGC-AAAAGCGAAAAAAAA-----------------CAGAUAAGGCCUGAAAUGCUUC
.....((((((-(.(((.(...(((((((((((....))))).......-..((-....)).........-----------------..)))))).).))).))))))) ( -18.90)
>DroSec_CAF1 2406 105 + 1
CUCUUCAAGCA-UAUCAACAAUCUUAUCACACAGUAUUUUGUAACCAAA-AAAU-AA-AGCGAAAACAAAAAAAGUAAACUUGCGCCCAGAUAAGGCCUGAAAUGCCCA
........(((-(.(((....(((((((......((((((........)-))))-).-.(((..........(((....))).)))...)))))))..))).))))... ( -16.00)
>DroEre_CAF1 15238 104 + 1
CUCUUCAAGCA-UAUCAACAAUCUUAUCUCGCAGUAUUUUGUAACCAAA-AAAU-AA-AGCAAAAA-AAUAAAAGUAAACUUGCGCCGAGAUAAGGCCUGAAAUGCCCA
........(((-(.(((....(((((((((((..((((((........)-))))-).-.)).....-.......(((....)))...)))))))))..))).))))... ( -22.80)
>DroAna_CAF1 14643 106 + 1
CUCUUCAGUCAUUAUCAACAAUCUUAUCUUAAAGUAUUUUGUAACCAAA-AAAACAAAAGGAAAAA-AAUAAG-ACCUGCCUGCGCCCAGAUAAGGUCUGAAAUGCCCA
...(((((.(.(((((.....((((((.........((((((.......-...)))))).......-.)))))-)...((....))...))))).).)))))....... ( -15.23)
>DroPer_CAF1 13971 88 + 1
CUCUUGAGGCA-UAUCAAGAAUCUUAUCACAAAGUAUUUUGUAACCAAA-AAGC-AAAAGCGAAA-AAAA-----------------CAGAUAAGGCCUGAAAUGCUUC
.....((((((-(.(((.(...(((((((((((....))))).......-..((-....))....-....-----------------..)))))).).))).))))))) ( -18.90)
>consensus
CUCUUCAAGCA_UAUCAACAAUCUUAUCACAAAGUAUUUUGUAACCAAA_AAAU_AA_AGCAAAAAAAAAAAA_GUAAACUUGCGCCCAGAUAAGGCCUGAAAUGCCCA
........(((...(((....(((((((........((((((.................)))))).........((......)).....)))))))..)))..)))... ( -5.96 =  -6.30 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:55:42 2006