Locus 3310

Sequence ID 3L_DroMel_CAF1
Location 9,707,625 – 9,707,732
Length 107
Max. P 0.515301
window5147

overview

Window 7

Location 9,707,625 – 9,707,732
Length 107
Sequences 6
Columns 112
Reading direction reverse
Mean pairwise identity 82.39
Mean single sequence MFE -41.87
Consensus MFE -27.95
Energy contribution -28.78
Covariance contribution 0.84
Combinations/Pair 1.21
Mean z-score -1.54
Structure conservation index 0.67
SVM decision value -0.04
SVM RNA-class probability 0.515301
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9707625 107 - 23771897
CUGGGUUCUGCCGCUU---UUGCUGUGGCUUCUCUGCAUGGGAUUCCCCAUUCUGCAUG-GCGC-CGAUCUCUGCCAGCCCAUCGGAUGGCGGAACUUCCAGUGCAGCGAGG
.........(((((..---.....)))))(((.((((((((((((((((((.(((.(((-(.((-.(........).))))))))))))).)))).))))).))))).))). ( -42.00)
>DroSec_CAF1 2716 107 - 1
CUGGGUUCUGUCGCUU---UUGCUGUGCCUUCUCUGCGUGGGAUUCCCCAUCCUGCAUG-GCGC-CGAUCUCUGCCAGCCCAUCGGCUGGCGCAACUUCCAGUGCAACGAAG
(((((....((.((..---...(.(((((.....((((((((....)))))...))).)-))))-.)......(((((((....))))))))).)).))))).......... ( -38.30)
>DroSim_CAF1 2221 107 - 1
CUGGGUUCUGCCGCUU---UUGCUGUGGCUUCUCUGCGUGGGAUUCCCCAUACUGCAUG-GCGC-CGAUCUCUGCCAGCCCAUCGGCUGGCGGAACUUCCAGUGCAACGAAG
(((((.((.((.(((.---.(((.((.((......))(((((....))))))).))).)-))))-.))..((((((((((....))))))))))...))))).......... ( -42.90)
>DroEre_CAF1 2243 107 - 1
UUGGGUUCUGCCGCUC---UUUCUGUGCCUUCUCUGCGCGGGAUUCCCCAGCCUGCAUG-GAGC-UGAUCUCUGCCAGCCCGUCGGGUGGCGGAACUUCCAGUGCAACGAGG
((((((((((((....---.((((((((.......)))))))).......(((((.(((-(.((-((........)))))))))))))))))))))..)))).......... ( -42.40)
>DroYak_CAF1 11149 107 - 1
UUGGGUUCUGCCGCUU---UUUCUGUGGCUUCUCUGCGCGGGAUUCCCCAGCCUGCAUG-GUGC-CGAUCUCUGCCAGCCCAUCGGCUGGCGGAACUUCCAGUGCAACGAGG
.........(((((..---.....)))))..((((((((((((((((((((((.(.(((-(.((-.(........).))))))))))))).)))).)))).)))))..))). ( -44.30)
>DroAna_CAF1 1874 110 - 1
AUGGACUCUGUUGCCUUGCUUUUUGUGGCUCUUCUCGAAGGGGCUUCCC--UCCACAAGAGCUCAAGAUCUUUGCCAGCCCCGAGGUUGGCGCAACUUCGAGUGCCUUGAAG
..((((((.(((((......(((((.(((((((...(.((((....)))--).)..)))))))))))).....(((((((....))))))))))))...)))).))...... ( -41.30)
>consensus
CUGGGUUCUGCCGCUU___UUGCUGUGGCUUCUCUGCGUGGGAUUCCCCAUCCUGCAUG_GCGC_CGAUCUCUGCCAGCCCAUCGGCUGGCGGAACUUCCAGUGCAACGAAG
.((((....(((((..........))))).((((.....))))...))))..........((((..((..((((((((((....))))))))))...))..))))....... (-27.95 = -28.78 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:31 2006