Locus 1494

Sequence ID 3L_DroMel_CAF1
Location 4,331,034 – 4,331,148
Length 114
Max. P 0.604272
window2327

overview

Window 7

Location 4,331,034 – 4,331,148
Length 114
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 88.24
Mean single sequence MFE -30.58
Consensus MFE -19.24
Energy contribution -19.04
Covariance contribution -0.20
Combinations/Pair 1.11
Mean z-score -2.79
Structure conservation index 0.63
SVM decision value 0.14
SVM RNA-class probability 0.604272
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4331034 114 - 23771897
AUGUAAAUACAUACAUACAUAUGUGAGAAAUUUUAAUUACCGGCAACGAUCUUGUAUCGCAUACGAAUA---GCAU--AGCCGACAGAUAGAUGUGUGCUGUGUGCAUCUCGUUGCUGU
.......((((((......))))))...............(((((((((...(((.(((....)))...---((((--(((..(((......)))..))))))))))..))))))))). ( -30.10)
>DroSec_CAF1 17546 110 - 1
AUGUAAAUACUCACAUACAUAUGUGAGAAAUUUUAAUUACCGGUAACGAUCUCGUAUCGCAUA----UA---GCAUACAGCCCACAGAUAGAUG--UGCUGUGUGCAUCUCGUUGCUGU
.........(((((((....))))))).............(((((((((....(.....)...----..---(((((((((..(((......))--))))))))))...))))))))). ( -34.80)
>DroSim_CAF1 16140 110 - 1
AUGUAAAUACUCACAUACAUAUGUGAGAAAUUUUAAUUACCGGCAACGAUCUUGUAUCGCAUA----UA---GCAUACAGCCCACAGAUAGAUG--UGCUGUGUGCAUCUCGUUGCUGU
.........(((((((....))))))).............(((((((((...(((((...)))----))---(((((((((..(((......))--))))))))))...))))))))). ( -37.30)
>DroEre_CAF1 17537 103 - 1
AUGUAAAU--------ACAUAUGUGAGAAAUUUUAAUUACCGGCAACGAUCUUGUAUCGCAUA----UAGUAGCAU--AGCCCACAGAUAGAUG--UGUUGUGUGCAUCUCGUUGCUGC
((((....--------))))....................(((((((((...((((.((((..----.....((..--.)).((((......))--)).))))))))..))))))))). ( -22.50)
>DroYak_CAF1 16729 100 - 1
AUGUAAAU--------ACAUAUGUGAGAAAUUUUAAUUACCGGCAACGAUCUUGUAUUGCAUA----CA---GCAU--AGCCCACAGAUAGAUG--UGUUGUGUGCAUCUCGUUGCUGC
((((....--------))))....................(((((((((....(...((((((----((---((((--(.............))--))))))))))).)))))))))). ( -28.22)
>consensus
AUGUAAAUAC__ACAUACAUAUGUGAGAAAUUUUAAUUACCGGCAACGAUCUUGUAUCGCAUA____UA___GCAU__AGCCCACAGAUAGAUG__UGCUGUGUGCAUCUCGUUGCUGU
........................................(((((((((.........((............)).....((.(((((...........))))).))...))))))))). (-19.24 = -19.04 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:09:07 2006