Locus 1232

Sequence ID	X_DroMel_CAF1
Location	3,672,182 – 3,672,295
Length	113
Max. P	0.663146

overview

Window 6

Location	3,672,182 – 3,672,295
Length	113
Sequences	4
Columns	115
Reading direction	reverse
Mean pairwise identity	83.33
Mean single sequence MFE	-30.12
Consensus MFE	-18.80
Energy contribution	-18.30
Covariance contribution	-0.50
Combinations/Pair	1.25
Mean z-score	-1.93
Structure conservation index	0.62
SVM decision value	0.27
SVM RNA-class probability	0.663146
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3672182 113 - 22224390
CUAAAGCCCAUUUUUAAGGU-UUGUAAUUU-UUUCGUACCCCAGAAAGCGCUUCUUGCGCUUAGGUGGGGCAAAAACUUUGAAGGCCUGAGAAUAGAUCAAAAACUUUGAAUCAA
.........(((((((.(((-((.(((..(-(((....(((((..((((((.....))))))...)))))..))))..))).)))))))))))).((((((.....))).))).. ( -28.30)
>DroSec_CAF1 6395 113 - 1
CUAAAGCCCAUUUUUAAGGU-UUGUAAUUU-UUUCGUACCCCAUAAAGCGCUUCUUGCGCUUAGGUGGGGCAAAAUCUUUGAAGGCCUGAGAAUAGAUCAAAAACUUUGAAUCAA
............((((((((-((...((((-.(((...((((((.((((((.....))))))..))))))(((.....))).........))).))))...)))))))))).... ( -29.70)
>DroEre_CAF1 10755 112 - 1
ACAAGGCCCAUUCCUAAGGU-UUGUGAUAU-UUUCGCAC-CCGUAAGGCGCUUCUUGCGCUUAGGUGGGGCAAAAUCAUUGAAGGUCUGAGAAUAAAUCAAGAACUUUGAUUCAG
.....((((...((((((..-.(((((...-..))))).-.(((((((....)))))))))))))..))))......((..(((.(((((.......)).))).)))..)).... ( -33.80)
>DroYak_CAF1 6157 106 - 1
CCAAAGCCCAUUCUUAAGGUUUUGUGAUUUUUUUCGUACCCCGUAAAGCGCUUCUUGCGUUUAGGUGGGGCCAAAUCAUUGGAGGUCAGAGAAGAAAUAAAAAA---------AA
.(((((((.........)))))))...((((((((...(((((..((((((.....))))))...)))))((((....))))......))))))))........---------.. ( -28.70)
>consensus
CCAAAGCCCAUUCUUAAGGU_UUGUAAUUU_UUUCGUACCCCAUAAAGCGCUUCUUGCGCUUAGGUGGGGCAAAAUCAUUGAAGGCCUGAGAAUAAAUCAAAAACUUUGAAUCAA
.....((((...(((..((...(((((......)))))..))...((((((.....)))))))))..))))............................................ (-18.80 = -18.30 +  -0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:36 2006