Locus 5083

Sequence ID 3L_DroMel_CAF1
Location 13,950,949 – 13,951,043
Length 94
Max. P 0.802024
window8056

overview

Window 6

Location 13,950,949 – 13,951,043
Length 94
Sequences 4
Columns 99
Reading direction reverse
Mean pairwise identity 60.76
Mean single sequence MFE -27.08
Consensus MFE -11.11
Energy contribution -11.43
Covariance contribution 0.31
Combinations/Pair 1.14
Mean z-score -2.08
Structure conservation index 0.41
SVM decision value 0.62
SVM RNA-class probability 0.802024
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13950949 94 - 23771897
CCAGCACCAAA---AGCAACAACAGCGGCCGGC--GACGUAUACGUAAUGUGCAGCAUGACGUAUACGUAAUGUGCACCGGGGUUUGGCCAAUUUGUCC
((((.(((...---.((.......))..((((.--(((((((((((.(((.....))).))))))))))......).)))))))))))........... ( -28.80)
>DroVir_CAF1 6179 74 - 1
----------------------GUGCGGACUGCAUGACGUAUACGUAAUAUAC-GUAUUACGUAUACGUAAUAUGCGCUA-GCUGUGGCCAUU-UGCCA
----------------------..((((..((((((((((((((((((((...-.))))))))))))))..))))))...-.))))(((....-.))). ( -29.50)
>DroEre_CAF1 6704 97 - 1
UCACCACCAGCAACAACAACAACAAGGGCCGGC--GACGUAUACGUAAUGUGCAGCAUGACGUAUACGUAAUGUGCAUCAGGGUUUGGCCAAUUUGUCC
.....................((((.(((((((--.((((((((((.(((.....))).))))))))))..((.....))..).))))))...)))).. ( -25.10)
>DroAna_CAF1 6685 79 - 1
---AAACCAAA---GGCAACGGCAAAGGCAAG--------------AACGGGUCGCAUGACGUAUACGUAAUGUGCACCGGGAGUCGGCCAAUUUGUCC
---........---(....)(((((((((..(--------------(.(.((((((((.(((....))).))))).))).)...)).)))..)))))). ( -24.90)
>consensus
____CACCAAA___AGCAACAACAACGGCCGGC__GACGUAUACGUAAUGUGCAGCAUGACGUAUACGUAAUGUGCACCAGGGUUUGGCCAAUUUGUCC
..........................((((......(((....)))........((((.(((....)))...))))..........))))......... (-11.11 = -11.43 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:35 2006