Locus 3603

Sequence ID 3R_DroMel_CAF1
Location 9,724,886 – 9,724,987
Length 101
Max. P 0.843123
window5809

overview

Window 9

Location 9,724,886 – 9,724,987
Length 101
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 77.07
Mean single sequence MFE -29.65
Consensus MFE -15.95
Energy contribution -17.15
Covariance contribution 1.20
Combinations/Pair 1.21
Mean z-score -2.00
Structure conservation index 0.54
SVM decision value 0.76
SVM RNA-class probability 0.843123
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9724886 101 + 27905053
----AAGAAA------------AACGCGUGAAAAUGUGGCCACAAAAUUCGAUGCCGAUCCAUCAUAAUUUCUUGGGUCGCGUGGAUUUACAAGCGCCCAAAUUAUCGGCAGAUCGU
----..((..------------..(((((....)))))(((.........((((......))))........(((((.(((.((......)).))))))))......)))...)).. ( -28.20)
>DroPse_CAF1 45401 105 + 1
GCCUGAUUAC------------AACGCGUGAAAAUGCAGCCACAAAAGUUGAUGUCGAUCCAUCAUAAUUUUGUGGGUCGCGUGGAUUUACAAGCGUUCAAAUUAUCAAGAGAUCGU
...((((...------------((((((((((.(((((.((((((((..(((((......)))))...)))))))).).))))...)))))..)))))......))))......... ( -29.20)
>DroYak_CAF1 50328 101 + 1
----ACGGAA------------AACGCGUGAAAAUGUGGCCACAAACGUCGGUGCCGAUCCAUCAUAAUUUCUGGGCUCGCGUGGAUUUACAAGCGCCCAAAUUAUCGGUAGAUCGU
----..((..------------..(((((....)))))(((((....)).))).))((((.(((((((((..(((((..((.((......)).))))))))))))).))).)))).. ( -30.80)
>DroMoj_CAF1 36798 95 + 1
----ACGG---------UGCU-CAAGCGUGAAAAUGCAGCCACAAUAU--------CAUCCAUCAUAAUUUUGUGAACCGCGUGGAUUUACAAGCGUUCAAAUUAUGAGCGGAUCGU
----((((---------((((-...((((....)))))).))).....--------.((((.((((((((...(((((.((.((......)).)))))))))))))))..))))))) ( -26.90)
>DroAna_CAF1 45507 113 + 1
----CCGAAAAUUCUUGAUUACAACGCGUGAAAAUGCAGCCACAAAAGUUGAUGUCGAUCCAUCAUAAUUUCGAGGGUCGCGUGGAUUUACAAGCGUUCAAAUUAUCAAGAGAUCGG
----((((...((((((((...((((((((..........)))..(((((.(((.((((((.((........))))))))))).)))))....)))))......)))))))).)))) ( -33.60)
>DroPer_CAF1 45442 105 + 1
GCCUGAUUAC------------AACGCGUGAAAAUGCAGCCACAAAAGUUGAUGUCGAUCCAUCAUAAUUUUGUGGGUCGCGUGGAUUUACAAGCGUUCAAAUUAUCAAGAGAUCGU
...((((...------------((((((((((.(((((.((((((((..(((((......)))))...)))))))).).))))...)))))..)))))......))))......... ( -29.20)
>consensus
____AAGAAA____________AACGCGUGAAAAUGCAGCCACAAAAGUUGAUGUCGAUCCAUCAUAAUUUCGUGGGUCGCGUGGAUUUACAAGCGUUCAAAUUAUCAAGAGAUCGU
.........................((((....))))..................(((((....(((((((...(((.(((.((......)).))))))))))))).....))))). (-15.95 = -17.15 +   1.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:05:37 2006