Locus 2710

Sequence ID 3L_DroMel_CAF1
Location 7,547,849 – 7,547,954
Length 105
Max. P 0.539256
window4247

overview

Window 7

Location 7,547,849 – 7,547,954
Length 105
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 79.12
Mean single sequence MFE -22.89
Consensus MFE -15.54
Energy contribution -15.90
Covariance contribution 0.36
Combinations/Pair 1.16
Mean z-score -1.50
Structure conservation index 0.68
SVM decision value 0.01
SVM RNA-class probability 0.539256
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7547849 105 + 23771897
UCUGGGGCUAC------CCCUCC----ACACCUCAUUCACCAUUCUCCAAUCCGGAACCCCAGGGUCUAGACACUGAAGACCCGAACCACCUGAUAAAGAGAUCAAUGGCAGGAA
...((((...)------)))(((----........(((.......(((.....)))......((((((.........)))))))))(((..((((......)))).)))..))). ( -25.00)
>DroSec_CAF1 17281 94 + 1
U----------------CCCUCC----UCACC-CGUUCAUCAUUCUCCGAUCCGGAACCCCAGGGUCUAGACACUGAAGACCCGAACCACCUGAUAAAGAGAUCAAUGGCAGGAA
.----------------...(((----(...(-((((.(((..(((...(((.((.......((((((.........))))))......)).)))..)))))).))))).)))). ( -23.82)
>DroSim_CAF1 17195 94 + 1
U----------------CCCUCC----UCACC-CGUUCACCAUUCUCCGAUCCGGAACCCCAGGGUCUAGACACUGAAGACCCGAACCACCUGAUAAAGAGAUCAAUGGCAGGAA
.----------------...(((----(...(-((((......((((..(((.((.......((((((.........))))))......)).)))...))))..))))).)))). ( -23.42)
>DroEre_CAF1 17372 100 + 1
UCUGAAGCCCCCAUACC--------------C-CAAUCCCCAAUCCUCAAUCCGGAACCCCAGGGUCCAGACACUGAAGACCCGAACCACCUGAUAAAGAGAUCAAUGGCAGGCA
......(((.((((...--------------.-..........(((.......)))......((((((((...)))..)))))........((((......))))))))..))). ( -20.20)
>DroYak_CAF1 17270 114 + 1
UCUGAAGCCACAAUACCCCCUCCACCACCCCC-CAUUCGCCAUUCCCCAAUCCGGAACCCCAGGGUCUAGACACUGAGGACCCGAACCACCUGAUAAAGAGAUCAAUGGCAGGCA
......(((.......................-..(((....((((.......)))).....((((((.........)))))))))(((..((((......)))).)))..))). ( -22.00)
>consensus
UCUG__GC__C______CCCUCC____UCACC_CAUUCACCAUUCUCCAAUCCGGAACCCCAGGGUCUAGACACUGAAGACCCGAACCACCUGAUAAAGAGAUCAAUGGCAGGAA
.......................................((((((((..(((.((.......((((((.........))))))......)).)))...))))...))))...... (-15.54 = -15.90 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:58 2006