Locus 3960

Sequence ID 3L_DroMel_CAF1
Location 11,494,813 – 11,494,933
Length 120
Max. P 0.787130
window6168

overview

Window 8

Location 11,494,813 – 11,494,933
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 79.08
Mean single sequence MFE -21.51
Consensus MFE -15.58
Energy contribution -16.58
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.67
Structure conservation index 0.72
SVM decision value 0.58
SVM RNA-class probability 0.787130
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11494813 120 + 23771897
CCAACAAUGUGAAUUUGCCUUUGUGAGUGUGAGAUACAAUCACUUUCACAGAGGAAUACAUCGGAGGUACACAGAAAAACAAAUCGAGAUCAUUUGUAUUAUUUAUUUGAACAGAACAAU
((..(.(((((......((((((((((.((((.......)))).))))))))))..))))).)..))...........((((((.(....)))))))....................... ( -25.60)
>DroSec_CAF1 9895 116 + 1
UCAACC----AAAUUUGCCUUUGUGAGUGUGAGAUACAAUCACUUUCACAGAGGAAUACAUCAGAGGUACACAAAAAAACAAAUCCAGAUCAUUCAUAUUAUUUAUUUGAACAAAACAAC
......----...((((((((((((((.((((.......)))).))))))))))......(((((((.................)).((....))..........))))).))))..... ( -22.03)
>DroSim_CAF1 4615 110 + 1
----------GAAUUUGCCUUUGUGAGUGUGAGAUACAAUCACUUUCACAGAGGAAUACAUCAGAGGUACACAGCAAAACAAAUCAAGAUCAUUCAUAUUAUUUAUUUGAACAAAACAAC
----------...((((((((((((((.((((.......)))).))))))))))......(((((.((.....))............((....))..........))))).))))..... ( -21.50)
>DroEre_CAF1 5796 107 + 1
UCAACAAAAUGAAUUUGCCUAUGUGAGUGUGAGAUACAAUCACUUUCACAGCGGGAUACAUCAAAGUUACACAGAAAAACAAAA------------UCUUAUUUAUUUGAGGUAA-UAAA
.........(((.....(((.((((((.((((.......)))).))))))..))).....)))....................(------------(((((......))))))..-.... ( -20.00)
>DroYak_CAF1 6406 119 + 1
CAAGCGAAAUAAAUUUGCCUUUGUGAGUGUGAGAUACAAGCACUUUCACAUCGGGAUGCAUCCGAGUUACACAUAAAAACAAAUCAAGAUCACUUUUCCUAUUUACUUGAACUAA-UAAA
((((..((....(((((..((((((..(((((((.........)))))))(((((.....)))))......))))))..)))))...((.......))...))..))))......-.... ( -18.40)
>consensus
CCAACAA__UGAAUUUGCCUUUGUGAGUGUGAGAUACAAUCACUUUCACAGAGGAAUACAUCAGAGGUACACAGAAAAACAAAUCAAGAUCAUUCAUAUUAUUUAUUUGAACAAAACAAA
.................((((((((((.((((.......)))).)))))))))).................................................................. (-15.58 = -16.58 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:11:03 2006