Locus 5678

Sequence ID 3L_DroMel_CAF1
Location 15,562,447 – 15,562,541
Length 94
Max. P 0.878780
window8976

overview

Window 6

Location 15,562,447 – 15,562,541
Length 94
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.78
Mean single sequence MFE -22.83
Consensus MFE -13.21
Energy contribution -12.94
Covariance contribution -0.27
Combinations/Pair 1.39
Mean z-score -2.33
Structure conservation index 0.58
SVM decision value 0.91
SVM RNA-class probability 0.878780
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15562447 94 + 23771897
AUGUAAACCAUUGA---------AGUACAUA------------UGUACAUAAGGAAACUCAAUUAUCUUGUGUGUGAUAUUUCACUUAUCACAUAC-----GCAGACCUCGACAAUCGGC
.......((((((.---------.((((...------------.))))...((....))......((((((((((((((.......))))))))))-----).)))......)))).)). ( -23.50)
>DroSec_CAF1 24931 94 + 1
AUGUAAACCAUUGA---------AGUACAUA------------UGUACAUAAGGAAACUCAAUUAUCUUGUGUGUGAUAUUUCACUUAUCACAUAC-----GCAGACCUCGACAGUCGGC
.......((((((.---------.((((...------------.))))...((....))......((((((((((((((.......))))))))))-----).)))......)))).)). ( -23.50)
>DroSim_CAF1 25405 96 + 1
AUGUAAACCAUUGA---------AGUACAUA------------UGUACAUAAGGAAACUCAAUUAUCUUGUGUGUGAUAUUUCACUUAUCACAUACG---CGCAGACCUCGACAGUCGGC
..((.....(((((---------.((((...------------.))))....(....))))))......((((((((((.......)))))))))))---)((.(((.......))).)) ( -23.00)
>DroEre_CAF1 25224 94 + 1
AUGUAGACCAUUGA---------AGUACAUA------------UGUGUAAAAGAAAACUCAAUUAUCUUGUGUGUGAUAUUUCACUUAUCACAUAC-----ACAGACCUCGACAGUCGGC
.....(((..((((---------..((((..------------..))))................((((((((((((((.......))))))))))-----).)))..))))..)))... ( -21.80)
>DroYak_CAF1 45414 106 + 1
AUGUAAACCAUUGA---------AGUACAUAUGUAUGUACAUAUGUAUAUAGGGAAACUCAAUUAUCUUGUGUGUGAUAUUUCACUUAUCACAUAC-----ACAGACCUCGACAGUCGGC
.......((((((.---------.((((((((((....))))))))))...((....))......((((((((((((((.......))))))))))-----).)))......)))).)). ( -30.20)
>DroAna_CAF1 25902 100 + 1
A-----ACUGUUCAAUGGCUUUCAACUCAGA------------UGUGUGUAAGGAAACUCAAUUAUCUCGUGUAUGAUAUUUCACUUAUCACUCUUGCCCCCCAGACCUC---AGACGCU
.-----.(((.....(((....((....(((------------.(((.(((((((((......((((........)))))))).)))))))))))))....))).....)---))..... ( -15.00)
>consensus
AUGUAAACCAUUGA_________AGUACAUA____________UGUACAUAAGGAAACUCAAUUAUCUUGUGUGUGAUAUUUCACUUAUCACAUAC_____GCAGACCUCGACAGUCGGC
.......((((((...........(((((..............)))))...((....))..........((((((((((.......))))))))))................)))).)). (-13.21 = -12.94 +  -0.27)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:21 2006