Locus 1703

Sequence ID 2R_DroMel_CAF1
Location 6,440,564 – 6,440,671
Length 107
Max. P 0.594592
window2845

overview

Window 5

Location 6,440,564 – 6,440,671
Length 107
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 80.62
Mean single sequence MFE -24.25
Consensus MFE -14.03
Energy contribution -13.78
Covariance contribution -0.25
Combinations/Pair 1.17
Mean z-score -1.86
Structure conservation index 0.58
SVM decision value 0.12
SVM RNA-class probability 0.594592
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6440564 107 - 20766785
CACCUCAACAUAAAAUUUAAGGCGAUUAAAAUGUCAAACACGACAAAGCGUGCGGUAUUAAAAAUGCCAACAACGUGGCAACAGCCAGUAC-AGUGAGUUGCGGGGCG-----------
..((((..(...........)((((((....((((......))))....(((((((((.....))))).......((((....))))))))-....))))))))))..----------- ( -25.90)
>DroVir_CAF1 8855 110 - 1
CACCUCAACAUAAAAUUUAAGGCGAUUAAAAUGUCAAACACGACAAAGCGUGCGGUAUUAAAAAUGCCAACAACGUGGCAACAAUCGC-----AAACACAGCCACACACACACAC----
....................(((........((((......))))..(..((((((........(((((......)))))...)))))-----)..)...)))............---- ( -20.70)
>DroYak_CAF1 14761 113 - 1
CACCUCAACAUAAAAUUUAAGGCGAUUAAAAUGUCAAACACGACAAAGCGUGCGGUAUUAAAAAUGCCAACAACGUGGCAACAGCCAGUAC-GGGGAACUGGAUGGGAGC-----GGGG
..((((.........................((((......))))..(((((((((((.....))))).......((((....))))))))-((....))........))-----)))) ( -26.50)
>DroMoj_CAF1 13633 110 - 1
CACCUCAACAUAAAAUUUAAGGCGAUUAAAAUGUCAAACACGACAAAGCGUGCGGUAUUAAAAACGCCAACAACGUGGCAACAAUCAC-----ACUCACACAUACACACGCACAC----
(.(((.((........)).))).).......((((......))))..(((((.(((.......))((((......)))).........-----...........).)))))....---- ( -17.90)
>DroAna_CAF1 13413 113 - 1
CACCUCAACAUAAAAUUUAAGGCGAUUAAAAUGUCAAACACGACAAAGCGUGCGGUAUUAAAAAUGCCAACAACGUGGCAACAGCCAACAGGAGAGAG-UGCAGGAUGAG-----AGGG
..((((.........................((((......))))...(.((((((((.....)))))..(....((((....))))....)......-.))).)....)-----))). ( -25.30)
>DroPer_CAF1 13676 113 - 1
CACCUCAACAUAAAAUUUAAGGCGAUUAAAAUGUCAAACACGACAAAGCGUGCGGUAUUAAAAACGCCAACAGCGUGGCAACAGCCAGCAG-AGAGCACUGCCAAAGAGG-----GGGG
..((((....((.....)).((((.......((((......))))....(((((((.........)))....((.((((....))))))..-...))))))))...))))-----.... ( -29.20)
>consensus
CACCUCAACAUAAAAUUUAAGGCGAUUAAAAUGUCAAACACGACAAAGCGUGCGGUAUUAAAAAUGCCAACAACGUGGCAACAGCCAG_A__AGAGAACUGCAAGACACG_________
....................((((.((..(((..(...((((......)))).)..)))..)).)))).......((((....))))................................ (-14.03 = -13.78 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:11:10 2006