Locus 2529

Sequence ID 2R_DroMel_CAF1
Location 8,996,265 – 8,996,399
Length 134
Max. P 0.942071
window4166 window4167

overview

Window 6

Location 8,996,265 – 8,996,359
Length 94
Sequences 4
Columns 96
Reading direction forward
Mean pairwise identity 90.21
Mean single sequence MFE -20.66
Consensus MFE -18.06
Energy contribution -17.75
Covariance contribution -0.31
Combinations/Pair 1.16
Mean z-score -1.58
Structure conservation index 0.87
SVM decision value 0.48
SVM RNA-class probability 0.753497
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8996265 94 + 20766785
CCCCAUGCAUGCUGGAGUACUCGCAAUUCCGGACUCCGAAAA-AACUUCGGAUUGCAACUGAAGGAGAGAGCCGGAAAAAAAAA-AUAAAAAAACG
..((.((((..(((((((.......)))))))..((((((..-...)))))).))))......((......)))).........-........... ( -20.70)
>DroSec_CAF1 26598 94 + 1
CUCCAUGCAUGCUGGAGUACUCGCAAUUCCGGACUCCGAAAAAGACUCCGGAUUGCAACUGAAGGAGAGAGCCGGAAAAUAAAA--AAAAUAAACG
(((((.(....))))))..((((((((.(((((.((.......)).))))))))))..((.....)).))).............--.......... ( -22.40)
>DroSim_CAF1 26847 96 + 1
CUCCAUGCAUGCUGGAGUACUCGCAAUUCCGGACUCCGAAAAAAACUCCGGAUUGCAACUGAAGGAGAGAGCCGGAAAAUAAAAAAAAAAUAAACG
(((((.(....)))))).........((((((.(((.........((((..............)))).)))))))))................... ( -20.24)
>DroYak_CAF1 27619 91 + 1
CGCCAUGCAUGCUGGAGUACUCGCAAUUCCGGACUCCAAA--AAACUCCGGAUUGCAACUGAAGGAGAGAGUCACAAAAAGAA---AAAAAAAACG
..(((.(....)))).(((((((((((.(((((.......--....))))))))))..((.....)).)))).))........---.......... ( -19.30)
>consensus
CUCCAUGCAUGCUGGAGUACUCGCAAUUCCGGACUCCGAAAAAAACUCCGGAUUGCAACUGAAGGAGAGAGCCGGAAAAAAAAA__AAAAAAAACG
...........((((..(.((((((((.(((((.............))))))))))..(....)))).)..))))..................... (-18.06 = -17.75 +  -0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 8,996,292 – 8,996,399
Length 107
Sequences 4
Columns 109
Reading direction forward
Mean pairwise identity 91.69
Mean single sequence MFE -23.92
Consensus MFE -21.60
Energy contribution -21.23
Covariance contribution -0.38
Combinations/Pair 1.11
Mean z-score -1.98
Structure conservation index 0.90
SVM decision value 1.32
SVM RNA-class probability 0.942071
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8996292 107 + 20766785
UCCGGACUCCGAAAA-AACUUCGGAUUGCAACUGAAGGAGAGAGCCGGAAAAAAAAA-AUAAAAAAACGAAGAAUCCGAAGGCUUAUCUUUCAGCCAAACACUCGAGCG
...((..((((((..-...))))))......((((((((..((((((((........-................)))...))))).))))))))))............. ( -24.96)
>DroSec_CAF1 26625 107 + 1
UCCGGACUCCGAAAAAGACUCCGGAUUGCAACUGAAGGAGAGAGCCGGAAAAUAAAA--AAAAUAAACGAAGAAUCCGAAGGCUUAUCUUUCAGCCAAACACUCGAGCG
((((((.((.......)).))))))......((((((((..((((((((........--...............)))...))))).))))))))............... ( -26.20)
>DroSim_CAF1 26874 109 + 1
UCCGGACUCCGAAAAAAACUCCGGAUUGCAACUGAAGGAGAGAGCCGGAAAAUAAAAAAAAAAUAAACGAAGAAUCCGAAGGCUUAUCUUUCAGCCAAACACUCGAGCG
((((((.............))))))......((((((((..((((((((.........................)))...))))).))))))))............... ( -23.73)
>DroYak_CAF1 27646 104 + 1
UCCGGACUCCAAA--AAACUCCGGAUUGCAACUGAAGGAGAGAGUCACAAAAAGAA---AAAAAAAACGAAGGAUCCGAAGGCUUAUCUUUCAGCCAAACACUCGAGCG
((((((.......--....))))))......((((((((..(((((.(.....)..---........(....).......))))).))))))))............... ( -20.80)
>consensus
UCCGGACUCCGAAAAAAACUCCGGAUUGCAACUGAAGGAGAGAGCCGGAAAAAAAAA__AAAAAAAACGAAGAAUCCGAAGGCUUAUCUUUCAGCCAAACACUCGAGCG
((((((.............))))))......((((((((..(((((..................................))))).))))))))............... (-21.60 = -21.23 +  -0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:32:16 2006