Locus 6541

Sequence ID 2R_DroMel_CAF1
Location 20,450,686 – 20,450,779
Length 93
Max. P 0.748254
window10416

overview

Window 6

Location 20,450,686 – 20,450,779
Length 93
Sequences 5
Columns 103
Reading direction forward
Mean pairwise identity 71.33
Mean single sequence MFE -19.74
Consensus MFE -5.84
Energy contribution -6.68
Covariance contribution 0.84
Combinations/Pair 1.12
Mean z-score -1.82
Structure conservation index 0.30
SVM decision value 0.47
SVM RNA-class probability 0.748254
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20450686 93 + 20766785
AUAAACAAUAACAAAGU--CUCUUUGUAAUUGAUUGGUUGAUAGGUGGGGG--AGGGGGUGCGGCAACA------ACAACACCAAAACCAAACCAGUUGACAU
.....((((.((((((.--..)))))).))))....((..((.(((..((.--....((((..(.....------.)..))))....))..))).))..)).. ( -25.70)
>DroSec_CAF1 14302 79 + 1
AUAAACAAUAACAAAGU--AUCUUUGUAAUU--------------CGGCGG--GGUGGGUGCGCCAACA------ACAACACUACAACCAAACCAGUUGACAU
.....((((.((((((.--..))))))....--------------.((...--(((.((((........------....))))...)))...)).)))).... ( -13.70)
>DroSim_CAF1 14255 79 + 1
AUAAACAAUAACAAAGU--AUCUUUGUAAUU--------------CGGCGG--GGUGGGUGCGGCAACA------ACAACACCACAACCAAACCAGUUGACAU
.....((((.((((((.--..))))))....--------------.((...--(((.((((..(.....------.)..))))...)))...)).)))).... ( -17.60)
>DroYak_CAF1 14312 87 + 1
AUAAACAAUAACAAAGU--CGCAUUGUAAUU--------------UGGCGGGGGGUGGGUGCGGUAGCAACAACAGCAACACCAAAACGAAACCAGUUGGCAU
...............((--((.((((...((--------------((......((((..(((.((.......)).))).))))....))))..)))))))).. ( -16.50)
>DroAna_CAF1 16309 76 + 1
AUAAACAAUAACAAUAUUACGCAUUGUAAUU--------------UGGCGU--GGCGGGAGCGCCAAAA------AGCACCCGCU--CACUGCCAGCU---UU
..........(((((.......)))))...(--------------((((((--((((((.((.......------.)).))))).--))).)))))..---.. ( -25.20)
>consensus
AUAAACAAUAACAAAGU__CUCUUUGUAAUU______________UGGCGG__GGUGGGUGCGGCAACA______ACAACACCAAAACCAAACCAGUUGACAU
.....((((.((((((.....))))))...................((.........((((..................)))).........)).)))).... ( -5.84 =  -6.68 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:13:23 2006