Locus 3299

Sequence ID X_DroMel_CAF1
Location 8,791,392 – 8,791,502
Length 110
Max. P 0.555910
window5399

overview

Window 9

Location 8,791,392 – 8,791,502
Length 110
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 81.69
Mean single sequence MFE -26.60
Consensus MFE -16.68
Energy contribution -16.38
Covariance contribution -0.30
Combinations/Pair 1.25
Mean z-score -1.70
Structure conservation index 0.63
SVM decision value 0.04
SVM RNA-class probability 0.555910
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8791392 110 + 22224390
AAUGG--CUCCAUGCAAAAAUGGCAAAGUGGAAUGAUGGAGUGCACCAAAUUGCAAAAUAUCCGCGGGCUAAAUGCUGCGAUAAAAACAUGUGUAG-GCACUGGCAAAAAAAA
....(--((...(((.....((((...(((((...((....((((......))))..)).)))))..))))....((((.(((......)))))))-)))..)))........ ( -23.70)
>DroSec_CAF1 39639 107 + 1
AAUGU--CUCCAUGCAAAAAUGGCAAAGUGGAAUGAUGGAGUGCAGCAAAUUGCAAAAUAUCCGCGGGCUAAAUGCUACGAUAAAAACAUGUGUAG-GCACUGGAAAAAA---
.....--.(((((((.....((((...(((((...((....(((((....)))))..)).)))))..))))....((((.(((......)))))))-))).)))).....--- ( -26.00)
>DroSim_CAF1 32600 107 + 1
AAUGG--CUCCAUGCAAAAAUGGCAAAGUGGAAUGAUGGAGUGCAGCAAAUUGCAAAAUAUCCGCGGGCUAAAUGCUGCGAUAAAAACAUGUGUAU-UCACUGGAAAAAA---
.....--.(((.(((.......))).((((((..((((...(((((....)))))...))))(((((.(.....))))))...............)-)))))))).....--- ( -24.00)
>DroEre_CAF1 35291 108 + 1
AAUGG--CCCCAUGCAAAAACGGCAAAGUGGGAUGAUGGAGUGCACCAAAUUGCAAAAUAUCCGCGGGCACAAUGCUGCGAUAAA-AUAAGUGUAG-GCAUUGGGAGAAAAU-
....(--(((..(((.......)))..(((((...((....((((......))))..)).))))))))).(((((((...(((..-.....))).)-)))))).........- ( -27.10)
>DroYak_CAF1 37074 112 + 1
AAUGGCGCCCCAUGCAAAAGUGGCAAAGUGGGAUGAUGGAAUGCAGCAAAUUGCAAAAUAUCCGCGGGCAAAAUGCUGCGAUAAAAACAUGUGUAGGGCACUGGCAAAAAAU-
...((.((((..((((...(((............((((...(((((....)))))...))))(((((........))))).......))).)))))))).))..........- ( -26.20)
>DroAna_CAF1 31131 102 + 1
AAUGG--CUCCUUGCCAAUGUGCUG----GCUGUGGCAGAGUGCAUAAAAUUGCAAAAGAUCCUCGGGCGAAAAGUCGAGAUAGGAACAUGUGUCA-GCACGGGCAGAA----
.....--....(((((...((((((----((((((......((((......)))).....((((....(((....)))....)))).)))).))))-)))).)))))..---- ( -32.60)
>consensus
AAUGG__CUCCAUGCAAAAAUGGCAAAGUGGAAUGAUGGAGUGCAGCAAAUUGCAAAAUAUCCGCGGGCUAAAUGCUGCGAUAAAAACAUGUGUAG_GCACUGGCAAAAA___
.........((((((...................((((...((((......))))...))))(((((.(.....)))))).................))).)))......... (-16.68 = -16.38 +  -0.30)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:52 2006