Locus 2229

Sequence ID 3L_DroMel_CAF1
Location 6,166,695 – 6,166,804
Length 109
Max. P 0.507479
window3452

overview

Window 2

Location 6,166,695 – 6,166,804
Length 109
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 79.10
Mean single sequence MFE -25.21
Consensus MFE -16.43
Energy contribution -16.60
Covariance contribution 0.17
Combinations/Pair 1.22
Mean z-score -1.23
Structure conservation index 0.65
SVM decision value -0.05
SVM RNA-class probability 0.507479
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6166695 109 + 23771897
GAAUA-GCAU---UAUCAUCUUCAAUCUUACACGCGUAUCUGUCGAAUGGCUCCAAAUUUGCCGAAUAUGUCGUACAUCUCGUCCGAGGUGAUUUUGUACGGCAGGUUCCGCA
.....-....---....................(((.((((((((..((((.........))))...........((((((....))))))........))))))))..))). ( -27.60)
>DroSec_CAF1 6379 103 + 1
GAAUA-GCAU---AGAC------AAUCUUACACGCGUAUCUGUCGAAUAGCUCCAAAUUUGCCGAAUAUGUCGUACAUCUCGUCCGAGGUGAUUUUGUACGGCAGGUUCCGCA
....(-((..---.(((------(....(((....)))..)))).....))).......(((.((((.(((((((((((((....))))......))))))))).)))).))) ( -26.60)
>DroEre_CAF1 6471 108 + 1
GAAAA-AAA-CCCAGACGU---GUAUCUUACACGCGUAUCUGUCGAAUGGCUCCAAAUUUUCCAAAUAUGUCGUACAUCUCGUCUGAGGUGAUUUUGUACGGCAAAUUCCGCA
.((((-..(-(((((((((---(((...)))))((((((.((..((((........))))..)).))))))..........))))).)))..))))...(((......))).. ( -24.30)
>DroWil_CAF1 7300 105 + 1
---UG-GAAA---AGACAU-UUAAAACUUACACGCGUAUCUGUCGUAUGGCUCCGAAUUUACCAAAUAUAUCGUACAUCUCAUCGGAUGUGAUCUUAUAUGGUAAAUUUCUCA
---.(-((.(---((....-......))).((..((.......))..))..)))((((((((((.(((.....(((((((....)))))))....))).)))))))))).... ( -22.00)
>DroYak_CAF1 6417 109 + 1
GAAAA-AAAUUCCAGACAU---CUAUCUUACACGCGUAUCUGUCGAAUGGCUCCAAAUUUACCGAAUAUGUCGUACAUCUCGUCUGAGGUGAUUUUGUACGGCAGAUUCCGCA
.....-.............---...........(((.((((((((.(((((..................))))).((((((....))))))........))))))))..))). ( -25.17)
>DroMoj_CAF1 21146 105 + 1
-----UAAUUUGCAGUCAA---UUUGCUUACACGCGUAUCUGACGAAUUGCACCAAAUUUGCCAAAUAUAUCGUACAUUUCGUCUGAUGUGAUUUUGUAUGGCAAAUUACGCA
-----.....(((.(((((---(((((.(((....)))...).))))))).))..(((((((((.(((.....((((((......))))))....))).)))))))))..))) ( -25.60)
>consensus
GAAUA_AAAU___AGACAU___CAAUCUUACACGCGUAUCUGUCGAAUGGCUCCAAAUUUGCCAAAUAUGUCGUACAUCUCGUCUGAGGUGAUUUUGUACGGCAAAUUCCGCA
.................................(((.....(((....)))....(((((((((..((((..((.((((((....))))))))..))))))))))))).))). (-16.43 = -16.60 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:27:22 2006