Locus 5052

Sequence ID 2R_DroMel_CAF1
Location 16,416,991 – 16,417,094
Length 103
Max. P 0.500000
window8073

overview

Window 3

Location 16,416,991 – 16,417,094
Length 103
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 84.59
Mean single sequence MFE -37.93
Consensus MFE -25.11
Energy contribution -25.95
Covariance contribution 0.84
Combinations/Pair 1.20
Mean z-score -2.45
Structure conservation index 0.66
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16416991 103 + 20766785
AAAUGCAACAUAGAAGAGUUGCGGG-------GGGGA-GGCGGGAGGUGCCGGGCGGGUCCACGCAGGAGCGGCACAGGAUAUUUGUGCAAGCAAUUUCCGCCGCCGAAGA-
...((((((........))))))..-------..((.-((((((((.(((.(((....))).(((....)))((((((.....))))))..))).)))))))).)).....- ( -39.90)
>DroSec_CAF1 92862 105 + 1
AAAUGCAACAUAGAAGAGUUGAGGG-----CGAGGGA-GGCGGGAGGAGAAGGGCGGGUCCACGCUGGAGCGGCACAGGAUAUUUGUGCAAGCAAUUUCCGCCGCCGAAGA-
.....((((........))))....-----.......-(((((..(((((...((.(.(((.....))).).((((((.....))))))..))..))))).))))).....- ( -33.40)
>DroSim_CAF1 88615 105 + 1
AAAUGCAACAUAGAAGAGUUGUGGG-----CGGGGGA-GGCGGGAGGAGCCGGGCGGGUCCACGCAGGAGCGGCACAGGAUAUUUGUGCAAGCAAUUUCCGCCGCCGAAGA-
....(((((........))))).((-----(((.(((-((((...(((.((....)).))).)))....((.((((((.....))))))..))...)))).))))).....- ( -42.70)
>DroEre_CAF1 92376 100 + 1
AAAUGCAACAUAGAAGAGUUGGGGG-GU----------GGCGGGAGGAGCCGGGAGGGUCCACGCAGGAGCGGCACAGGAUAUUUGUGCAAGCAAUUUCCGCCGCCGAAGA-
...(.((((........)))).).(-((----------((((((((((.((....)).))).(((....)))((((((.....)))))).......)))))))))).....- ( -42.30)
>DroYak_CAF1 92632 111 + 1
AAAUGCAACAUAGAAGAGUUGAGGGAAUGGCGGGGAAGGGUGGGAGGAGCCGGGAGGGUCCACGCAGGAGCGGCACAGGAUAUUUGUGCAAGCAAUUUCCGCCGCCGAAGA-
.....((((........))))......(((((((((((..((...(((.((....)).))).(((....)))((((((.....))))))...)).))))).))))))....- ( -40.20)
>DroAna_CAF1 87535 99 + 1
AAAUGCAACAGAGAAUGGUUAGG------------GA-GCCGGCGGGAGCUCGAGGGAGUAGCGCGGGAGCGUCACAGGAUAUUUGUGCAAGCAAUUUCCGCUGCCGAAGAG
.....................((------------.(-((((((....)).)).((((((.((((....))(.(((((.....))))))..)).))))))))).))...... ( -29.10)
>consensus
AAAUGCAACAUAGAAGAGUUGAGGG_______GGGGA_GGCGGGAGGAGCCGGGCGGGUCCACGCAGGAGCGGCACAGGAUAUUUGUGCAAGCAAUUUCCGCCGCCGAAGA_
.....((((........)))).................((((((((((.((....)).))).(((....)))((((((.....)))))).......)))))))......... (-25.11 = -25.95 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:15 2006