Locus 7220

Sequence ID 3R_DroMel_CAF1
Location 19,020,301 – 19,020,407
Length 106
Max. P 0.963924
window11684

overview

Window 4

Location 19,020,301 – 19,020,407
Length 106
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 93.21
Mean single sequence MFE -35.10
Consensus MFE -30.63
Energy contribution -31.70
Covariance contribution 1.07
Combinations/Pair 1.03
Mean z-score -2.13
Structure conservation index 0.87
SVM decision value 1.56
SVM RNA-class probability 0.963924
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19020301 106 - 27905053
CAGUUUGAUGGCUGCGGAGGCUUAAGUUGCGACUCGAACUGCGAAACUCAGACUGCGGCUGUCAUGGGACUCGAUUUGUGCACACACAUAAAUCAAGUUAAUGACA
.........((((((((...((....(((((........))))).....)).))))))))(((((..((((.((((((((......)))))))).)))).))))). ( -33.60)
>DroSec_CAF1 33236 106 - 1
CAGUUUGAUGGCUGCGGAGGCUUAAGUUGCGCCUCGAACUGCGAAACUCAGACUGCGGCUGUCAUGGGACUCGAUUUGUGCACACGUAUAAAUCAAGUUAAUGACA
.........((((((((((((.........)))))...(((.......)))..)))))))(((((..((((.(((((((((....))))))))).)))).))))). ( -37.50)
>DroSim_CAF1 34838 106 - 1
CAGUUUGAUGGCUGCGGAGGCUUAAGUUGCGCCUCGAACUGCGAAACUCAGACUGCGGCUGUCAUGGGACUCGAUUUGUGCACACACAUAAAUCAAGUUAAUGACA
.........((((((((((((.........)))))...(((.......)))..)))))))(((((..((((.((((((((......)))))))).)))).))))). ( -35.90)
>DroEre_CAF1 35504 106 - 1
CAGUUUGAUGGCUGCGGAGGCUUAAGUUGCGCCUCGAACUGCGAAACUCAGACUGCGGCUGUCAUGGGACUCGAUUUGUGCACACACAUAAAUCAAGUUAAUGACA
.........((((((((((((.........)))))...(((.......)))..)))))))(((((..((((.((((((((......)))))))).)))).))))). ( -35.90)
>DroYak_CAF1 35828 106 - 1
CAGUUUGAUGGCUGCGGAGGCUUAAGUUGCGCCGCGAACUGCGAAACUCAGACUGCGGCUGUCAUGGGACUCGAUUUGUGCACACACAUAAAUCAAGUUAAUGACA
(((((((((.(((((((..((.......)).)))))....)).)...)))))))).....(((((..((((.((((((((......)))))))).)))).))))). ( -36.10)
>DroAna_CAF1 34153 92 - 1
CAGUUUGAUGGCUGCGGAGGCUCAAGUUGCG--------------ACUCCGACUCGGGCUGUCAUGGGACUCGAUUUGUGCACACACAUAAAUCAAGUUAAUGACA
.(((((((.(....(((((((.......)).--------------.))))).))))))))(((((..((((.((((((((......)))))))).)))).))))). ( -31.60)
>consensus
CAGUUUGAUGGCUGCGGAGGCUUAAGUUGCGCCUCGAACUGCGAAACUCAGACUGCGGCUGUCAUGGGACUCGAUUUGUGCACACACAUAAAUCAAGUUAAUGACA
.........((((((((...((..((((.(((........))).)))).)).))))))))(((((..((((.((((((((......)))))))).)))).))))). (-30.63 = -31.70 +   1.07)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:40:30 2006