Locus 3609

Sequence ID 2R_DroMel_CAF1
Location 11,988,414 – 11,988,504
Length 90
Max. P 0.523094
window5878

overview

Window 8

Location 11,988,414 – 11,988,504
Length 90
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 82.40
Mean single sequence MFE -24.89
Consensus MFE -17.31
Energy contribution -17.95
Covariance contribution 0.64
Combinations/Pair 1.20
Mean z-score -1.44
Structure conservation index 0.70
SVM decision value -0.02
SVM RNA-class probability 0.523094
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11988414 90 - 20766785
CCAGCGGAACUAGUUCCACGAAUGGAUUUGCAUAUCCGGAAGUGGA-GUGGUGGGCAGUGCCCAAAACAAUCUCA--CAGAGUAUUC----------ACCAAU
.....((.......(((((...(((((......)))))...)))))-((..(((((...)))))..)).......--..........----------.))... ( -25.90)
>DroSec_CAF1 39509 90 - 1
CCAGCGGAACUAGUUCCACGAAUGGAUUUGCAUAUCUGGAAGUGGA-GUGGUGGGCAGUGCCCAAAACAAUCUCG--AAGAGUAUUC----------ACCAAU
.....((..(((.(((((.(((((......))).))))))).))).-((..(((((...)))))..))......(--((.....)))----------.))... ( -23.50)
>DroSim_CAF1 43160 90 - 1
CCAGCGGAACUAGUUCCACGAAUGGAUUUGCAUAUCCGGAAGUGGA-GUGGUGGGCAGUGCUCAAAACAAUCUCG--AAGAGUAUUC----------ACCAAU
........((((.((((((...(((((......)))))...)))))-)))))((..(((((((............--..))))))).----------.))... ( -25.64)
>DroEre_CAF1 39839 90 - 1
CCAGCGGAACUAGUUCCACGAAUGGAUUUGCAUAUCCGGAAGUGGA-GUGCUGGGCACUGCCCGAAACAAUCUCA--AAGAAUACUC----------ACCAAU
.....((.......(((((...(((((......)))))...)))))-((..(((((...)))))..)).......--..........----------.))... ( -24.10)
>DroYak_CAF1 40339 92 - 1
CCAGCGGAACUAGUUCCACGAAUGGAUUUGCAUAUCCGGAAGUGGA-GCGGUGGGCACUGCCCGAAACAAACUGAAAAAGAAUAUUC----------ACCAAU
............(((((((...(((((......)))))...)))))-))(((((((...))))..........(((........)))----------)))... ( -27.20)
>DroAna_CAF1 43026 99 - 1
CAAACGGAACUGGUUCCACGGAAGGAUUUGCAUAUUCACGAGUGCAUGUGGUAGGCACA--CAUAAAAAAUCCCU--UAGAAACUUCCGGAAACUCAACCAAA
.....((((....)))).((((((..(((((((........))))(((((.......))--)))...........--.)))..)))))).............. ( -23.00)
>consensus
CCAGCGGAACUAGUUCCACGAAUGGAUUUGCAUAUCCGGAAGUGGA_GUGGUGGGCACUGCCCAAAACAAUCUCA__AAGAAUAUUC__________ACCAAU
.....((.((((..(((((...(((((......)))))...)))))..))))((((...))))...................................))... (-17.31 = -17.95 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:48 2006