Locus 4517

Sequence ID 3R_DroMel_CAF1
Location 11,995,791 – 11,995,886
Length 95
Max. P 0.687794
window7377

overview

Window 7

Location 11,995,791 – 11,995,886
Length 95
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 78.20
Mean single sequence MFE -26.89
Consensus MFE -18.39
Energy contribution -18.20
Covariance contribution -0.19
Combinations/Pair 1.29
Mean z-score -1.28
Structure conservation index 0.68
SVM decision value 0.32
SVM RNA-class probability 0.687794
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11995791 95 - 27905053
GGAAGAGCACCACAAAGCCGCCAAAGAUGCUCCAGGCGGUGAGCAGAGUCAUCAAGAGAUGGCCCUCGAUCUUGUUCUGAA--AGACAUAAGUUCAG---
....((((........((((((............))))))(((((((((((((....))))))......)).)))))....--........))))..--- ( -25.00)
>DroVir_CAF1 116586 97 - 1
AGAAGAGCACCACGAAGCCACCAAAGAUGCUCCAGGCGGUUAGCAGUGACAUCAACAGGUGGCCCUCGAUUUUGUUCUGUGCAAUAGAGUAGUACAA---
...((((((...(((.((((((...((((.((...((.....))...))))))....))))))..)))....))))))((((.........))))..--- ( -28.70)
>DroGri_CAF1 113590 97 - 1
AAAAGAGCACAACAAAACCGCCAAAGAUGCUCCAGGCGGUUAGCAGCGUCAUCAACAGGUGGCCUUCGAUUUUGUUCUGCGAAAACGAUAUGCAUAA---
......(((.((((((((((((............))))))).(.((.((((((....)))))))).)....))))).))).................--- ( -25.80)
>DroEre_CAF1 101240 95 - 1
GGAAGAGCACCACAACGCCGCCAAAGAUGCUCCAGGCGGUGAGCAGGGUCAUCAAGAGGUGACCCUCGAUCUUGUUCUGCA--AUAUAUAAGUUCGG---
....((((.......(((((((............))))))).(((((((((((....))))))))..((......))))).--........))))..--- ( -33.70)
>DroMoj_CAF1 110753 96 - 1
GAAAGAGCACCACAAAGCCGCCAAAAAUGCUCCCAGCGGUAAGCAGCGUCAUUAGCAGGUGGCCUUCGAUUUUGUUCUGUGCAAAAGAG-AAUACAA---
......((((.(((((((((((.....((((..(....)..))))((.......)).)))))).......)))))...)))).......-.......--- ( -23.61)
>DroAna_CAF1 123062 91 - 1
GGAAGAGCACCACAACGCCGCCAAAGAUGCUCCAGGCGGUCAGCAGGGUCAUCAGCAAGUGGUCCUCAAUCUUGUUCUGGA--AA-------UUCAAAAA
.((((((.(((((...((((((............))))))..((.((....)).))..))))).)))..(((......)))--..-------)))..... ( -24.50)
>consensus
GGAAGAGCACCACAAAGCCGCCAAAGAUGCUCCAGGCGGUGAGCAGCGUCAUCAACAGGUGGCCCUCGAUCUUGUUCUGCA__AAAGAUAAGUACAA___
...((((((.......((((((............))))))..(.((.((((((....)))))).))).....))))))...................... (-18.39 = -18.20 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:14 2006