Locus 2267

Sequence ID 2L_DroMel_CAF1
Location 6,159,568 – 6,159,691
Length 123
Max. P 0.955426
window3636 window3637

overview

Window 6

Location 6,159,568 – 6,159,672
Length 104
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 83.59
Mean single sequence MFE -26.01
Consensus MFE -14.39
Energy contribution -14.79
Covariance contribution 0.40
Combinations/Pair 1.18
Mean z-score -3.26
Structure conservation index 0.55
SVM decision value 1.45
SVM RNA-class probability 0.955426
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6159568 104 + 22407834
UU----------GGCAGCUACC--CUGCUGUCAGA--GCCAUCACAAAAAUUACAUUUUGCCGGCUAAUUACAAUUUCAAAUUAAAUCACAAGUAAUUAGC-UAAAAGUCAAAGACA-AA
((----------((((((....--..)))))))).--.......(((((......)))))..((((((((((....................)))))))))-)....(((...))).-.. ( -22.65)
>DroPse_CAF1 6937 120 + 1
GUCCACGCAGUCGCUCGCUUCCUUCGGCUGUCAAAAGGACGUCACAAAAAUGACAUUUUCCUGGCUAAUUACAAUUUCAAAUUAAAUCACGAGUAAUUAGCCCGAAAGUCAAAGCCAAAA
((((..(((((((...........))))))).....))))((((......))))((((((..((((((((((....................)))))))))).))))))........... ( -30.25)
>DroSim_CAF1 5401 104 + 1
UU----------GGCAGCUACC--CUGCUGUCAGA--GCCAUCACAAAAAUUACAUUUUGCCGGCUAAUUACAAUUUCAAAUUAAAUCACAAGUAAUUAGC-UGAAAGUCAAAGACA-AA
((----------((((((....--..)))))))).--.......(((((......))))).(((((((((((....................)))))))))-))...(((...))).-.. ( -24.95)
>DroYak_CAF1 5358 104 + 1
UU----------GGCAGCUACC--CGGCUGUCAGA--GCCAUCACAAAAAUUACAUUUUGCCGGCUAAUUACAAUUUCAAAUUAAAUCACAAGUAAUUAGC-UGAAAGUCAAAGACA-AA
((----------(((((((...--.))))))))).--.......(((((......))))).(((((((((((....................)))))))))-))...(((...))).-.. ( -25.15)
>DroPer_CAF1 7001 120 + 1
GUCCACGCUGUCGCUCGCUUCCUUCGGCUGUCAAAAGGACGUCACAAAAAUGACAUUUUCCCGGCUAAUUACAAUUUCAAAUUAAAUCACGAGUAAUUAGCCCGAAAGUCAAAGCCAAAA
((((..((....))..(((......)))........))))((((......))))((((((..((((((((((....................)))))))))).))))))........... ( -27.05)
>consensus
UU__________GGCAGCUACC__CGGCUGUCAGA__GCCAUCACAAAAAUUACAUUUUGCCGGCUAAUUACAAUUUCAAAUUAAAUCACAAGUAAUUAGC_UGAAAGUCAAAGACA_AA
............((((((........)))))).............................(((((((((((....................))))))))).))................ (-14.39 = -14.79 +   0.40)

alignment

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secondary structure

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dotplot

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Window 7

Location 6,159,594 – 6,159,691
Length 97
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 83.11
Mean single sequence MFE -23.06
Consensus MFE -10.33
Energy contribution -10.37
Covariance contribution 0.04
Combinations/Pair 1.06
Mean z-score -2.75
Structure conservation index 0.45
SVM decision value 0.41
SVM RNA-class probability 0.723776
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6159594 97 + 22407834
AUCACAAAAAUUACAUUUUGCCGGCUAAUUACAAUUUCAAAUUAAAUCACAAGUAAUUAGC-UAAAAGUCAAAGACA-AACAUGCCAAACA--------------------AUGGGGC-G
...................(((((((((((((....................)))))))))-)....(((...))).-......(((....--------------------.))))))-. ( -17.55)
>DroPse_CAF1 6977 119 + 1
GUCACAAAAAUGACAUUUUCCUGGCUAAUUACAAUUUCAAAUUAAAUCACGAGUAAUUAGCCCGAAAGUCAAAGCCAAAACAUGGCAAACACACGACAGGGAUGGUAUGGGAUGGGGC-A
((((......))))((((((..((((((((((....................)))))))))).))))))....(((....((((.((..(.(......))..)).))))......)))-. ( -27.85)
>DroSim_CAF1 5427 97 + 1
AUCACAAAAAUUACAUUUUGCCGGCUAAUUACAAUUUCAAAUUAAAUCACAAGUAAUUAGC-UGAAAGUCAAAGACA-AACAUGGCAAACA--------------------AUGGGGC-G
.............(((((((((((((((((((....................)))))))))-)....(((...))).-.....)))))..)--------------------)))....-. ( -19.75)
>DroYak_CAF1 5384 98 + 1
AUCACAAAAAUUACAUUUUGCCGGCUAAUUACAAUUUCAAAUUAAAUCACAAGUAAUUAGC-UGAAAGUCAAAGACA-AACAUGGCAAACA--------------------AUGGGGCCC
.............(((((((((((((((((((....................)))))))))-)....(((...))).-.....)))))..)--------------------)))...... ( -19.75)
>DroPer_CAF1 7041 114 + 1
GUCACAAAAAUGACAUUUUCCCGGCUAAUUACAAUUUCAAAUUAAAUCACGAGUAAUUAGCCCGAAAGUCAAAGCCAAAACCUGGCAAACACACGACACGGCU-----GGGAUGGGGC-A
((((......))))((((((..((((((((((....................)))))))))).))))))....(((..(.((..((..............)).-----.)).)..)))-. ( -30.39)
>consensus
AUCACAAAAAUUACAUUUUGCCGGCUAAUUACAAUUUCAAAUUAAAUCACAAGUAAUUAGC_UGAAAGUCAAAGACA_AACAUGGCAAACA____________________AUGGGGC_A
....................((((((((((((....................)))))))))......((((...........))))..........................)))..... (-10.33 = -10.37 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:32 2006