Locus 1478

Sequence ID 3R_DroMel_CAF1
Location 4,277,318 – 4,277,429
Length 111
Max. P 0.758959
window2456

overview

Window 6

Location 4,277,318 – 4,277,429
Length 111
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 86.93
Mean single sequence MFE -36.48
Consensus MFE -27.85
Energy contribution -27.61
Covariance contribution -0.24
Combinations/Pair 1.17
Mean z-score -1.81
Structure conservation index 0.76
SVM decision value 0.50
SVM RNA-class probability 0.758959
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4277318 111 - 27905053
AUCAACCUGUUUUGAAGCGGGUAGUCAAAAUAUUGAUGCCAUUUCGGCGGGCAUCCCCCUC------CCCACAGCCAUCGCUU--AUUCAGGACCUAUGGAGGCGGAACCCCCGUAUCC
.....((((.....(((((((((.((((....)))))))).....((((((..........------)))...)))..)))))--...))))......(((.((((.....)))).))) ( -32.80)
>DroSec_CAF1 78845 113 - 1
AUCAACCUGUUUUGAAGCGGGUAGUCAAAAUAUUGAUGCCAUUUCGGCGGGCAUCCCCCUC------UCCACACCCGUCGCCUAUAUUCAGGACCUAUGGAGGCGGAACCCCCGCAUCC
.....((((..(.(..((((((.(((((....)))))(((.....)))(((.....)))..------.....))))))..)....)..))))......(((.((((.....)))).))) ( -33.80)
>DroSim_CAF1 78793 113 - 1
AUCAACCUGUUUUGAAGCGGGUAGUCAAAAUAUUGAUGCCAUUUCGGCGGGCAUCCCCCUC------UCCACACCCGUCGCCUAUAUUCAGGACCUAUGGAGGCGGAACCCCCGCAUCC
.....((((..(.(..((((((.(((((....)))))(((.....)))(((.....)))..------.....))))))..)....)..))))......(((.((((.....)))).))) ( -33.80)
>DroEre_CAF1 81984 104 - 1
AUCAACCUGUUUUGAAGCGGGUAGUCAAAAUAUCGAUGCCAUUUCGGCGGGCAUCC-------------CCCGCCCCUUGCCC--AUUCAGGACCUAUGGAGGCGGAACCCCCGUAUCC
........((((((((..((((((((........)))........((((((.....-------------))))))...)))))--.))))))))....(((.((((.....)))).))) ( -35.60)
>DroYak_CAF1 81019 116 - 1
AUCAACCUGUUUUGAAGCGGGUAGUCAAAAUAUUGAUGGCAUUUCGGAGGGCAUACCCGCCGCUGCCGCCCCGCCCUUUGCCC--AUUCAGGACUUA-GGAGGCGGAACCCCCGUCUCC
........((((((((..((((((((((....)))))((((...(((.(((....))).))).))))...........)))))--.))))))))...-((((((((.....)))))))) ( -46.40)
>consensus
AUCAACCUGUUUUGAAGCGGGUAGUCAAAAUAUUGAUGCCAUUUCGGCGGGCAUCCCCCUC______UCCACACCCGUCGCCU__AUUCAGGACCUAUGGAGGCGGAACCCCCGUAUCC
........((((((((..((((.(((((....)))))........((((((......................))))))))))...))))))))....(((.((((.....)))).))) (-27.85 = -27.61 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:11:33 2006