Locus 6707

Sequence ID 3R_DroMel_CAF1
Location 17,640,223 – 17,640,374
Length 151
Max. P 0.602843
window10900 window10901

overview

Window 0

Location 17,640,223 – 17,640,334
Length 111
Sequences 3
Columns 111
Reading direction reverse
Mean pairwise identity 90.33
Mean single sequence MFE -22.90
Consensus MFE -18.26
Energy contribution -18.27
Covariance contribution 0.01
Combinations/Pair 1.10
Mean z-score -2.13
Structure conservation index 0.80
SVM decision value 0.14
SVM RNA-class probability 0.602843
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17640223 111 - 27905053
UUGGGAUCAAAGUGCUUUCAAAGGCUUCACUUUGACCUUUUAUAGUUGCAUAUUUGUAAUAUAUAUACAAUAUUUUAAAUGAAAAAGUAUAGGAAAUCAAAAACAAAAGUG
(((((.(((((((((((....))))...)))))))))(((((((.((...((((((.(((((.......))))).))))))...)).))))))).........)))..... ( -18.80)
>DroSec_CAF1 35044 109 - 1
UCGGGAUCAAAGUGGUUCGAAAGGCUUCACUUUGACCUUUUAUAGUUGCAUAUUUGUAAUAU--AUACACUAUUUUAAAUGAAGAAGUAUGUGCAAUCAAAACAAAAAUUU
..(((.(((((((((.((....))..))))))))))))......(((((((((..(((....--.)))(((.((((....)))).)))))))))))).............. ( -25.40)
>DroSim_CAF1 34866 109 - 1
UCGGGAUCAAAGUGCUUCGAAAGGCUUCACUUUGACCUUUUAAAGUUGCAUAUUUGUAAUAU--AUACAAUAUUUUAAAUGAAGAAGUAUAUGCAAUCAAAACAAAAAUUU
..(((.((((((((..((....))...)))))))))))......((((((((.(((((....--.)))))((((((.......)))))))))))))).............. ( -24.50)
>consensus
UCGGGAUCAAAGUGCUUCGAAAGGCUUCACUUUGACCUUUUAUAGUUGCAUAUUUGUAAUAU__AUACAAUAUUUUAAAUGAAGAAGUAUAUGCAAUCAAAACAAAAAUUU
..(((.((((((((..((....))...)))))))))))......((((((((..((((.......)))).((((((.......)))))))))))))).............. (-18.26 = -18.27 +   0.01)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 17,640,254 – 17,640,374
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 95.53
Mean single sequence MFE -23.34
Consensus MFE -20.25
Energy contribution -20.25
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.94
Structure conservation index 0.87
SVM decision value 0.08
SVM RNA-class probability 0.572177
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17640254 120 + 27905053
AUUUAAAAUAUUGUAUAUAUAUUACAAAUAUGCAACUAUAAAAGGUCAAAGUGAAGCCUUUGAAAGCACUUUGAUCCCAACGAUAUAUGGUUACAAAUGUCAAAGUAACGAAUGUACCUU
............((((((.(.((((..................((((((((((...(....)....)))))))))).....(((((.((....)).)))))...)))).).))))))... ( -22.50)
>DroSec_CAF1 35075 118 + 1
AUUUAAAAUAGUGUAU--AUAUUACAAAUAUGCAACUAUAAAAGGUCAAAGUGAAGCCUUUCGAACCACUUUGAUCCCGACGAUAUAUGGUUACAAAUGUCAAAGUAACGAAUGUACCUU
.......(((((((((--((.......)))))).)))))....((((((((((.............)))))))))).....(.(((((.(((((..........)))))..))))).).. ( -23.62)
>DroSim_CAF1 34897 118 + 1
AUUUAAAAUAUUGUAU--AUAUUACAAAUAUGCAACUUUAAAAGGUCAAAGUGAAGCCUUUCGAAGCACUUUGAUCCCGACGAUAUAUGGUUACAAAUGUCAAAGUAACGAAUGUACCUU
...........(((((--((.......)))))))(((((....((((((((((...(.....)...)))))))))).....(((((.((....)).)))))))))).............. ( -23.90)
>consensus
AUUUAAAAUAUUGUAU__AUAUUACAAAUAUGCAACUAUAAAAGGUCAAAGUGAAGCCUUUCGAAGCACUUUGAUCCCGACGAUAUAUGGUUACAAAUGUCAAAGUAACGAAUGUACCUU
............((((.....((((..................((((((((((.............)))))))))).....(((((.((....)).)))))...)))).....))))... (-20.25 = -20.25 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:28:03 2006