Locus 1717

Sequence ID 2R_DroMel_CAF1
Location 6,473,883 – 6,474,000
Length 117
Max. P 0.679739
window2868

overview

Window 8

Location 6,473,883 – 6,474,000
Length 117
Sequences 4
Columns 119
Reading direction forward
Mean pairwise identity 87.78
Mean single sequence MFE -36.15
Consensus MFE -25.30
Energy contribution -24.55
Covariance contribution -0.75
Combinations/Pair 1.22
Mean z-score -1.83
Structure conservation index 0.70
SVM decision value 0.30
SVM RNA-class probability 0.679739
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6473883 117 + 20766785
GAAAGGGGCGUAGUUGCCGGCCUGU--GUGUCAUGCAAAUGCAGCUAAUGUGUGUCCAACACUCAUGAGUCACAAAUCAUGGGCGGAGUGGAAACACGGCGAGAAAAAUGGGAUAUUAA
......((((....))))..(((((--...((.(((....)))(((...((((.((((.(.(((((((........))))))).)...)))).)))))))..))...)))))....... ( -36.20)
>DroSec_CAF1 41994 117 + 1
GAAAGGGGCGUGGUGGCCGGCCUGU--GUGUCAUGCAAAUGCGGCUAAUGUGUGUCCAACACUCAUGAGUCACAAAUCAUGGGCGGAGUGGAAACACUGCGAGAAAAGUGGGAUAUUAA
.......((((..((((((.(...(--((.....)))...)))))))))))((((((.((.(((((((........)))))))((.((((....)))).))......)).))))))... ( -38.30)
>DroEre_CAF1 40259 115 + 1
GAAAGGGGCGUGGCAGCCGACCUGUGUGUGUCAUGCAAAUGCAGCUAAU----GUCCAACACUCAUGAGUCACAAAUUAUGGGCGCAGUGAGAGCACUGCGAGAAAAGUGGUGUAUGAA
.....(((((((((....((((.....).))).(((....)))))).))----)))).((((.(((...((.((.....))..(((((((....))))))).))...)))))))..... ( -35.00)
>DroYak_CAF1 44655 113 + 1
GAAAGGGGCGUGGCGGGCGACCUGU--GUGUCAUGCAAAUGCAGCUAAU----GUCCAGCACUCAUGAGUCACAAAUCAUGGGUGGAGUGGGAACACAGCGAGAAAAAUGGGGUAUGAA
.......((((((((.((.....))--.))))))))...........((----..((..(((((((((........)))))))))..(((....))).............))..))... ( -35.10)
>consensus
GAAAGGGGCGUGGCGGCCGACCUGU__GUGUCAUGCAAAUGCAGCUAAU____GUCCAACACUCAUGAGUCACAAAUCAUGGGCGGAGUGGAAACACUGCGAGAAAAAUGGGAUAUGAA
.....((((.((((....(((........))).(((....)))))))......))))....(((((((........)))))))((.((((....)))).)).................. (-25.30 = -24.55 +  -0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:11:32 2006