Locus 1317

Sequence ID 3R_DroMel_CAF1
Location 3,878,299 – 3,878,401
Length 102
Max. P 0.567209
window2158

overview

Window 8

Location 3,878,299 – 3,878,401
Length 102
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 73.99
Mean single sequence MFE -29.27
Consensus MFE -11.16
Energy contribution -12.69
Covariance contribution 1.53
Combinations/Pair 1.26
Mean z-score -1.99
Structure conservation index 0.38
SVM decision value 0.07
SVM RNA-class probability 0.567209
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3878299 102 + 27905053
AAACACGCAUACUUAU----AUAAUGCAAAAAGAACUGUAUGAGCAGAGUGUGCCACUGUCAGGCAA-ACGCUUUGAUGUGUCAAGCGUUCGAUAUGAAG-GCG-GAGA
....((((((.(((((----(((...(.....)...))))))))(((((((((((.......)))..-))))))))))))))...((.(((.....))).-)).-.... ( -27.20)
>DroPse_CAF1 12962 88 + 1
--ACACGCAUAUUAAG----AU---GAAAA------------AGGCGAGUGUGCUUUUGUCAGCCGGCGCGCUUUGAUGUGUCGGCCGUUCAAUAGGGGAUACCCAGCA
--....((.......(----((---((.((------------(((((....))))))).)))(((((((((......)))))))))...))....(((....))).)). ( -29.50)
>DroSec_CAF1 1676 102 + 1
AAACACGCAUACUUAU----AUAAUGCAAAAAGAACUGUAUGAGCAGAGUGUGCCACUGUCAGGCGA-ACGCUUUGAUGUGUCAAGCGUUCGAUAUGAAG-GCG-GAGA
......((((((((..----...(((((........))))).....))))))))(.((.(((..(((-((((((.((....)))))))))))...))).)-).)-.... ( -31.90)
>DroSim_CAF1 1681 102 + 1
AAACACGCAUACUUAU----AUAAUGCAAAAAGAACUGUAUGAGCAGAGUGUGCCACUGUCAGGCGA-ACGCUUUGAUGUGUCAAGCGUUCGAUAUGAAG-GCG-GAGA
......((((((((..----...(((((........))))).....))))))))(.((.(((..(((-((((((.((....)))))))))))...))).)-).)-.... ( -31.90)
>DroEre_CAF1 408 95 + 1
AAGCACGCACACACACACUCGUAAUACAAAAGGAACUGUAU-----------GCCACUGUCAGGCAA-ACGCUUUGAUGUGUCAAGCGUUCGAUGUGAAG-GCG-GCGG
..((.(((.....((((.(((..(((((........)))))-----------(((.......))).(-((((((.((....))))))))))))))))...-)))-)).. ( -26.20)
>DroYak_CAF1 502 100 + 1
AAACACGCA------CACUCAUAAUACAAAAAGUGCUGUAUGAGCCGAGUGUGCCACUGUCAGGCAA-ACGCUUUGAUGUGUCAAGCGUUCGAUAUGGAG-GCG-GAGA
..(((((((------(((((...(((((........))))).....))))))))....(((((((..-..)).)))))))))...((.(((.....))).-)).-.... ( -28.90)
>consensus
AAACACGCAUACUUAU____AUAAUGCAAAAAGAACUGUAUGAGCAGAGUGUGCCACUGUCAGGCAA_ACGCUUUGAUGUGUCAAGCGUUCGAUAUGAAG_GCG_GAGA
......(((((((..........(((((........)))))......))))))).....(((......((((((.((....))))))))......)))........... (-11.16 = -12.69 +   1.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:38 2006