Locus 10285

Sequence ID 3R_DroMel_CAF1
Location 27,569,470 – 27,569,577
Length 107
Max. P 0.833208
window16380

overview

Window 0

Location 27,569,470 – 27,569,577
Length 107
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 69.82
Mean single sequence MFE -32.72
Consensus MFE -12.13
Energy contribution -13.35
Covariance contribution 1.22
Combinations/Pair 1.27
Mean z-score -2.00
Structure conservation index 0.37
SVM decision value 0.72
SVM RNA-class probability 0.833208
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27569470 107 + 27905053
AGGGGCGACGGAGCCGACGACCACGUACUGCGCAAGCAGGAGGAGGUCAUCCAGGAGUGCAUCAUGAUGGUGCCCGACUCCAAGAGAAGGUAU---------GCAUUCUUCCGUUU----
.(((((......)))...((((.(.(.((((....)))).).).))))..)).((((((((((.....)))))...)))))..(.(((((...---------....))))))....---- ( -40.10)
>DroVir_CAF1 121 104 + 1
AAAAAUGAAGGCGCCGAUGAUCAUGUGCUGCGCAAGCAGGAAGAGGUGAUACAGGAGUGCCAAAUGAUGAUACCAGACUCAAAGCGCAGGUGAGU--------CA--------UCAUUUA
.........(((((...(((((((.(.((((....)))).)....))))).))...)))))(((((((((((((..............)))..))--------))--------)))))). ( -34.44)
>DroPse_CAF1 121 105 + 1
CGUAAUGAUGGCGCUGAUGACCAUGUGCUGCGCAAGCAGGAGGAAGUCAUCGCGGAGUGUGAGAUGAUGAUUCCGGACUCAAAGCGCAGGUAUA---------------UCCAUUGUCUA
......(((.(((((((((((..(.(.((((....)))).).)..))))))...((((.((..((....))..)).))))..))))).((....---------------.))...))).. ( -36.80)
>DroGri_CAF1 112 103 + 1
AAAAACGACAGCUCCGAUGAGCAUGUACUGCGCAAGCAGCAAGAAGUGAUACAGGAAUGCGAAAUGAUGAUACCGGACUCAAAGCGAAGGUGACG--------CA--------UAAU-AA
.......(((((((....)))).))).((((....)))).................(((((......(((........)))..((....))..))--------))--------)...-.. ( -22.20)
>DroAna_CAF1 121 107 + 1
AGGAAUGAUGGAGCUGACGAACAUGUGCUGCGCAAGCAGGAGGAGGUCAUUAUGGAAUGCGAGAUGAUGGUUCCAGACUCAAAGAAAAGGUAUUUCACAGAA---------AAACA----
.((((((.(((((((......(.(.(.((((....)))).).).)((((((.((.....)).)))))))))))))..((........)).))))))......---------.....---- ( -25.20)
>DroPer_CAF1 70 105 + 1
CGUAAUGAUGGCGCUGAUGACCAUGUGCUGCGCAAGCAGGAGGAAGUCAUCGCGGAGUGUGAGAUGAUGAUUCCGGACUCAAAGCGCAGGUAUU---------------UCCAUUAUCUA
......(((((((((((((((..(.(.((((....)))).).)..))))))...((((.((..((....))..)).))))..))))).((....---------------.))..)))).. ( -37.60)
>consensus
AGAAAUGAUGGCGCCGAUGACCAUGUGCUGCGCAAGCAGGAGGAAGUCAUCCAGGAGUGCGAGAUGAUGAUUCCGGACUCAAAGCGAAGGUAUU_________________CAUUAU_UA
............(((((((((..(.(.((((....)))).).)..))))))...((((....(((....)))....))))........)))............................. (-12.13 = -13.35 +   1.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:53:17 2006