Locus 459

Sequence ID 3L_DroMel_CAF1
Location 1,333,202 – 1,333,320
Length 118
Max. P 0.664398
window669

overview

Window 9

Location 1,333,202 – 1,333,320
Length 118
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 88.48
Mean single sequence MFE -34.25
Consensus MFE -24.86
Energy contribution -25.68
Covariance contribution 0.81
Combinations/Pair 1.04
Mean z-score -1.74
Structure conservation index 0.73
SVM decision value 0.28
SVM RNA-class probability 0.664398
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1333202 118 - 23771897
CCAAAAACAAAAUACAAUUCGUGGAGGGGUGACAGUGCUCUCCACUGAAGAACUCCUCUAACGCGCGCACACA--CACACACACCCGCUCGCGUUGAGCAGGAGAGAGAGGCUCACGCAC
...................(((((((((((..(((((.....)))))....)))))))).))).(((......--........((.((((.....)))).)).(((.....))).))).. ( -33.10)
>DroSec_CAF1 5375 116 - 1
CCAAAAACAAAAUACAAUUCGUGGAGGGGUGACAGUGCUCUCCACUGAAGAACUCCUCUAACGCAC--ACACA--CACACACACGCGCGCGCUGUGAGCAGGAGAGAGAGGCUCACGCAC
.....................(((((((((..(((((.....)))))....)))))))))..((..--.....--.........((....)).((((((...........)))))))).. ( -31.00)
>DroSim_CAF1 5415 110 - 1
CCAAAAACAAAAUACAAUUCGUGGAGGGGUGACAGUGCUCUCCACUGAAGAACUCCUCUAACGCAC--AC--------ACACACGCGCGCGCUGUGAGCAGGAGAGAGAGGCUCACGCAC
.....................(((((((((..(((((.....)))))....))))))))).(((.(--..--------......).))).((.((((((...........)))))))).. ( -32.20)
>DroEre_CAF1 5547 120 - 1
CCAAAAACAAAAUAUAAAUCGUGGAGGGGCGACAGUGCUCUCCACUGAAGAACUCCUCUAACGCACACUCGCACACACACACAUGUGUGUGUGUUAAGCAGGAGAGAGAGGCUCACGCAC
..................((((((((((((....)).)))))))).)).((.(((((((...((......((((((((((....))))))))))...))...)))).)))..))...... ( -40.70)
>consensus
CCAAAAACAAAAUACAAUUCGUGGAGGGGUGACAGUGCUCUCCACUGAAGAACUCCUCUAACGCAC__ACACA__CACACACACGCGCGCGCGGUGAGCAGGAGAGAGAGGCUCACGCAC
...................(((((((((((..(((((.....)))))....)))))))).)))...........................((.((((((...........)))))))).. (-24.86 = -25.68 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:19 2006