Locus 1325

Sequence ID 2L_DroMel_CAF1
Location 3,496,676 – 3,496,785
Length 109
Max. P 0.613076
window2167

overview

Window 7

Location 3,496,676 – 3,496,785
Length 109
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 76.55
Mean single sequence MFE -20.68
Consensus MFE -14.80
Energy contribution -16.05
Covariance contribution 1.25
Combinations/Pair 1.12
Mean z-score -0.98
Structure conservation index 0.72
SVM decision value 0.16
SVM RNA-class probability 0.613076
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3496676 109 + 22407834
AAAUGUCAAAUUCAAUUUUCGCCAGGCGUCAGAGUAAAUUACUUUGGAAAAUUGCCUUUUGUCAACGCCCACGCCUCGAGGGCAAC------UAGAAAAAAAUA--CAAUAAAAGCG
...((.((((..((((((((((...))..(((((((...)))))))))))))))...)))).))..((((.((...)).))))...------............--........... ( -24.10)
>DroVir_CAF1 2276 101 + 1
AAAUGUCAAUUUCCAUUUUCGCCAGGCGUCAAAUUAAAUUACUUUGGAAAAUUGCCUUUUGUCAACGCCCACGCGCCGCAAGCG-------------UAAAAUCAACAAAAAA---U
..............((((((((.(((((.....(((((....))))).....))))).((((...(((....)))..)))))))-------------.)))))..........---. ( -13.50)
>DroGri_CAF1 20869 101 + 1
AAAUGUCAAUUUCAAUUUUCGCCAGGCGUCACAGUUAAUUACUUUGGAAAAUUGCAUUUUGUUAACGCCCACGUGCCGCAGGCGAA-----------UAAAGUC--CAUGAAA---U
.....(((.........((((((..(((.(((.((((((.....((........))....))))))(....)))).))).))))))-----------.......--..)))..---. ( -20.17)
>DroYak_CAF1 3483 100 + 1
AAAUGUCAAAUUCAAUUUUCGCCAGGCGUCAGAGUAAAUUACUUUGGAAAAUUGCCUUUUGUCAACGCCCACGCGCCCAGGGCAAC------AGGAAA-AAA----------AACAC
...((.((((..((((((((((...))..(((((((...)))))))))))))))...)))).))..((((.........))))...------......-...----------..... ( -22.90)
>DroAna_CAF1 1973 113 + 1
AAAUGUCAAAUUCAAUUUUCGCUAGGCGUCAAAUUAAAUUACUUUGGAAAAUUGCCUUUUGUCAACGCCCACGCCUUUGGGGGAUUUUUUUUUAGAAAAAAAUA--UG--AAAAGCU
...((.((((..((((((((((...))..((((.........))))))))))))...)))).)).(.((((......)))).)((((((((....)))))))).--..--....... ( -19.00)
>DroPer_CAF1 1841 106 + 1
AAAUGUCAAAUUCAAUUUUCGCCAGGCGUCAAAGUAAAUUACUUUGGAAAAUUGCCUUUUGUCAACGCCCACGCCCCCAGGGUAAC------AGGCAGAAA-----CAACAACAACA
...((.((((..((((((((((...))..(((((((...)))))))))))))))...)))).))..(((...((((...))))...------.))).....-----........... ( -24.40)
>consensus
AAAUGUCAAAUUCAAUUUUCGCCAGGCGUCAAAGUAAAUUACUUUGGAAAAUUGCCUUUUGUCAACGCCCACGCCCCGAGGGCAAC________GAAAAAAAU___CAA_AAAA_CU
...((.((((..((((((((((...))..((((((.....))))))))))))))...)))).))..((((.........)))).................................. (-14.80 = -16.05 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:59:42 2006