Locus 2756

Sequence ID 3R_DroMel_CAF1
Location 7,366,539 – 7,366,641
Length 102
Max. P 0.944836
window4478

overview

Window 8

Location 7,366,539 – 7,366,641
Length 102
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 71.35
Mean single sequence MFE -22.52
Consensus MFE -6.40
Energy contribution -6.56
Covariance contribution 0.16
Combinations/Pair 1.25
Mean z-score -2.09
Structure conservation index 0.28
SVM decision value 1.35
SVM RNA-class probability 0.944836
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7366539 102 + 27905053
AGAUUCAAUCGA-------ACCAAUUGCGCACACCAUU-AUGCUGUGGAUCUCUUCCAGAAUCCAACAAUUAAGCAUAAAUUAUUGAUUCAAGGCGACUUA--UGUGU---GCAU
............-------......((((((((...((-(((((.(((((.((.....))))))).......)))))))...........(((....))).--)))))---))). ( -25.10)
>DroSec_CAF1 42372 104 + 1
AGGUUCAAUCGA-------ACCAAUUGCGCACACCAUU-AUGCUGUGGAUCUCUUCCAGAAUCCAACAAUUAAGCAUAAAUUAUUGAUUCAAGGCGACUUAUAUGUGU---GCAU
.(((((....))-------)))...((((((((...((-(((((.(((((.((.....))))))).......)))))))...........(((....)))...)))))---))). ( -31.70)
>DroEre_CAF1 46057 102 + 1
AAAUUCAGUUGC-------ACGAGUUGCGCACAUUAUU-AUAAUGUGAAUCUCUUCCAGAAUCCAGCAAUUAAGCAUAAAUUAUUGAUUCAAGGCGACUUA--UGUGC---GCAU
.......((.((-------(((((((((.(((((((..-.)))))))...........(((((.((.((((.......)))).)))))))...))))))).--.))))---)).. ( -23.40)
>DroWil_CAF1 35560 109 + 1
AAAUUGAUUUUAAUGAUUGAUCUAUUGCCUAGCCUAUUGAUUUUC----GCCAACGCAAAAUCCACAUUUUAUAUUUAUAGGAUAGAUUCAUGCAUACAUA--UAUUUAUUCUAU
..((..(((.....)))..)).................((((((.----((....))))))))..............(((((((((((..(((....))).--.))))))))))) ( -14.70)
>DroYak_CAF1 47478 98 + 1
AGAUUCAGUUGA-------AAUAAUUGCGCACAUUAUU-AUAUUC----UCUCUUCCAGAAUCCAGCAAUUAAGCAUAAAUUAUUGAUUCAAGGCGACUUA--UGUGU---GCAU
...(((....))-------).....(((((((((....-......----.........(((((.((.((((.......)))).)))))))(((....))))--)))))---))). ( -17.70)
>consensus
AGAUUCAAUUGA_______ACCAAUUGCGCACACUAUU_AUACUGUG_AUCUCUUCCAGAAUCCAACAAUUAAGCAUAAAUUAUUGAUUCAAGGCGACUUA__UGUGU___GCAU
.........................((((((((.........................(((((....((((.......))))...)))))(((....)))...)))))...))). ( -6.40 =  -6.56 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:44:07 2006