Locus 1240

Sequence ID X_DroMel_CAF1
Location 3,694,878 – 3,694,970
Length 92
Max. P 0.615452
window1995

overview

Window 5

Location 3,694,878 – 3,694,970
Length 92
Sequences 5
Columns 97
Reading direction reverse
Mean pairwise identity 84.51
Mean single sequence MFE -27.80
Consensus MFE -14.89
Energy contribution -15.53
Covariance contribution 0.64
Combinations/Pair 1.05
Mean z-score -2.56
Structure conservation index 0.54
SVM decision value 0.17
SVM RNA-class probability 0.615452
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3694878 92 - 22224390
UCAAAACUGCUAAGCUGCAAAG-----CUAAAAACAGCAAAUUGCAUGUGCAGUGCUAAGCGGUAAGCGGUAAGCGGUGAGCGGUAAGCGCCGAGCG
.....((((((..(((((..((-----(.....(((((.....)).))).....)))..))))).))))))..((..((.(((.....))))).)). ( -28.10)
>DroSec_CAF1 28432 86 - 1
UCAAAACUGCUACGCUGCAAAG-----CUGAAAACAGCAAAUUGCAUGUGCAGUGCUAAGCGGUAAGCGGUAAGCGCCGAGCGGUAC------AGCG
.....(((((.(((.(((((.(-----(((....))))...)))))))))))))(((..((.((...((((....)))).)).))..------))). ( -29.40)
>DroSim_CAF1 31509 86 - 1
UCAAAACUGCUAAGCUGCAAAG-----CUGAAAACAGCAAAUUGCAUGUGCAGUGCUAAGCGGUAAGCGGUAAGCGCCGAGCGGUAC------AGCG
.....((((((.(((......(-----(((....))))..(((((....)))))))).))))))..((.(((.((.....))..)))------.)). ( -28.50)
>DroEre_CAF1 33321 85 - 1
UCAAAACUGCUGGGCGGCAAAGCA------AAAACAGCAAAUUGCAUGUGCAGUGGUAAGCGGUGAGCGGUAAGCGCCGAGCGGUAA------AGCG
.....((((((.((((((...((.------...((.((..(((((....))))).....)).))..)).))...)))).))))))..------.... ( -26.50)
>DroYak_CAF1 28961 84 - 1
UCAAAACUGCUAAGCUAAAAUGCAAUGCUGAAAACAGCAAAUUGCAUGUGCAGUGGUAAGC-------GGUAAGCGCCGAGCGGUAA------AGCG
.....((((((..((....(((((((((((....)))))..))))))..))..((((..((-------.....))))))))))))..------.... ( -26.50)
>consensus
UCAAAACUGCUAAGCUGCAAAG_____CUGAAAACAGCAAAUUGCAUGUGCAGUGCUAAGCGGUAAGCGGUAAGCGCCGAGCGGUAA______AGCG
.....((((((..((((.................))))..(((((....))))).............((((....))))))))))............ (-14.89 = -15.53 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:45 2006