Locus 1886

Sequence ID 3R_DroMel_CAF1
Location 5,401,571 – 5,401,681
Length 110
Max. P 0.813035
window3095

overview

Window 5

Location 5,401,571 – 5,401,681
Length 110
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 76.33
Mean single sequence MFE -30.62
Consensus MFE -18.50
Energy contribution -19.22
Covariance contribution 0.72
Combinations/Pair 1.08
Mean z-score -1.65
Structure conservation index 0.60
SVM decision value 0.65
SVM RNA-class probability 0.813035
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5401571 110 - 27905053
AACAGGUCUUCACCUUGAUCAAGGAGGGCGUCAUUCCGCCAUUCUGUGACCUCCUUUCAUGCCAGGAUACGCAAGUUAUAAAUGUAAGUAUA---AUUUGCGUCUCUUCACAU
...(((((....((((....))))..((((......)))).......)))))......(((..((((.((((((((((((........))))---)))))))).))))..))) ( -33.20)
>DroPse_CAF1 7672 106 - 1
AGCAGGUCUUCACACUGAUCAAGGAGGGUGUCAUCCCGCCGUUCUGUGAUCUCCUCUCAUGCCAGGAUACGCAAGUUAUCAAUGUAAGAGAUGUCCCCUGCGUA-------CG
.(((((..........(((((((((.((((......)))).)))).)))))...((((.(((...(((((....).))))...))).)))).....)))))...-------.. ( -35.50)
>DroGri_CAF1 478 92 - 1
AACAGGUGUUCACAUUAAUAAAGGAGGGCGUCAUUCCGCCUUUCUGCGAUCUGCUCUCGUGCCAGGAUACACAAGUGAUCAAUGUAAGC---------------------CAC
....(((....(((((.....(((((((((......)))))))))..((((....((.(((........))).)).)))))))))..))---------------------).. ( -26.20)
>DroEre_CAF1 4629 107 - 1
AACAGGUCUUCACCCUGAUCAAGGAGGGCGUUAUUCCGCCAUUCUGUGAGCUGCUUUCGUGCCAGGAUACGCAAGUUAUAAAUGUAAG---A---AUCUGCGACUCAUUGUAG
..((((.......))))....((((.((((......)))).))))(((((.(((.(((.(((......((....)).......))).)---)---)...))).)))))..... ( -26.92)
>DroAna_CAF1 392 96 - 1
AACAGGUCUUUACUCUGAUCAAGGAGGGCGUCAUUCCGCCGUUCUGUGAUCUCCUUUCGUGCCAGGAUACGCAAGUUAUCAAUGUAAGG-----------CAUUUUU------
.....(((((.((...(((((((((.((((......)))).)))).)))))..............(((((....).))))...))))))-----------)......------ ( -26.40)
>DroPer_CAF1 7809 106 - 1
AGCAGGUCUUCACACUGAUCAAGGAGGGUGUCAUCCCGCCGUUCUGUGAUCUCCUCUCAUGCCAGGAUACGCAAGUUAUCAAUGUAAGAGAUGUCCCCUGCGUA-------CG
.(((((..........(((((((((.((((......)))).)))).)))))...((((.(((...(((((....).))))...))).)))).....)))))...-------.. ( -35.50)
>consensus
AACAGGUCUUCACACUGAUCAAGGAGGGCGUCAUUCCGCCGUUCUGUGAUCUCCUCUCAUGCCAGGAUACGCAAGUUAUCAAUGUAAGA________CUGCGUA_______AG
.((((((.........(((((((((.((((......)))).)))).))))).........)))..(((((....)).)))..)))............................ (-18.50 = -19.22 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:53 2006