Locus 4690

Sequence ID 2R_DroMel_CAF1
Location 15,357,875 – 15,358,007
Length 132
Max. P 0.696838
window7550 window7551

overview

Window 0

Location 15,357,875 – 15,357,989
Length 114
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 90.44
Mean single sequence MFE -23.23
Consensus MFE -19.30
Energy contribution -19.63
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.97
Structure conservation index 0.83
SVM decision value 0.34
SVM RNA-class probability 0.696838
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15357875 114 - 20766785
AAUUCAAAUCACAAACUCGGUAUUUAUUUGCGAAGCGUAAAUGAUUACCACUUAAAAUGUGCUCGACUGCCACCUAAAAACCAAUUGUUGGAAAAAGCACAACCAACCGAAUGG------
.((((.............((((.(((((((((...))))))))).))))........((((((......(((.(............).)))....)))))).......))))..------ ( -24.30)
>DroVir_CAF1 212126 106 - 1
AAUUCAAAUCACAAACUCGGUAUUUAUUUGCGAAGCGUAAAUGAUUACCACUUAAAAUGUGCUCGACUGCCACCUAAAAACCAAUUGUUGGGAAAAGCACAACCGA--------------
..................((((.(((((((((...))))))))).))))........((((((....(.(((.(............).))).)..)))))).....-------------- ( -21.70)
>DroGri_CAF1 183466 106 - 1
AAUUCAAAUCACAAACUCGGUAUUUAUUUGCGAAGCGUAAAUGAUUACCACUUAAAAUGUGCUCGACUGCCACCUAAAAACCAAUUGUUGGGAAAAGGACAACCGA--------------
..................((((.(((((((((...))))))))).))))........((.((......))))(((.....(((.....)))....)))........-------------- ( -19.50)
>DroWil_CAF1 322623 119 - 1
AAUUCAAAUCACAAACUCGGUAUUUAUUUGCGAAGCGUAAAUGAUUACCACUUAAAAUGUGCUCGACUGCCACCUAAAAACCAAUUGUUGGAAAAAGCACAACGAACGGAGUGAACAGA-
........((((......((((.(((((((((...))))))))).))))........((((((......(((.(............).)))....)))))).........)))).....- ( -26.60)
>DroMoj_CAF1 222555 106 - 1
AAUUCAAAUCAGAAACUCGGUAUUUAUUUGCGAAGCGUAAAUGAUUACCACUUAAAAUGUGCUCGACUGCCACCUAAAAACCAAUUGUUAGGAAAAGCACAACCGA--------------
..................((((.(((((((((...))))))))).))))........((((((.(.....).(((((..........)))))...)))))).....-------------- ( -21.70)
>DroAna_CAF1 137161 120 - 1
AAUUCAAAUCACAAACUCGGUAUUUAUUUGCGAAGCGUAAAUGAUUACCACUUAAAAUGUGCUCGACUGCCACCUAAAAACCAAUUGUUGGAAAAAGCACAACCAAGCGAGAGGCCAGAG
...............(((((((.(((((((((...))))))))).))))........((((((......(((.(............).)))....)))))).........)))....... ( -25.60)
>consensus
AAUUCAAAUCACAAACUCGGUAUUUAUUUGCGAAGCGUAAAUGAUUACCACUUAAAAUGUGCUCGACUGCCACCUAAAAACCAAUUGUUGGAAAAAGCACAACCAA______________
..................((((.(((((((((...))))))))).))))........((((((......(((.(............).)))....))))))................... (-19.30 = -19.63 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 15,357,909 – 15,358,007
Length 98
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 82.58
Mean single sequence MFE -22.32
Consensus MFE -14.90
Energy contribution -14.90
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.66
Structure conservation index 0.67
SVM decision value 0.02
SVM RNA-class probability 0.544721
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15357909 98 - 20766785
AAA-----------UGGAAAUG-----------GCAGGAAAAUUCAAAUCACAAACUCGGUAUUUAUUUGCGAAGCGUAAAUGAUUACCACUUAAAAUGUGCUCGACUGCCACCUAAAAA
...-----------.((...((-----------((((((....)).............((((.(((((((((...))))))))).)))).................))))))))...... ( -22.80)
>DroVir_CAF1 212152 98 - 1
GUC-----------UGCGAAGGGGGC-----------GAAAAUUCAAAUCACAAACUCGGUAUUUAUUUGCGAAGCGUAAAUGAUUACCACUUAAAAUGUGCUCGACUGCCACCUAAAAA
...-----------.....(((.(((-----------((....)).............((((.(((((((((...))))))))).))))...................))).)))..... ( -21.40)
>DroGri_CAF1 183492 104 - 1
GUA-----------UUCAAGCGG-----CAGCAGGGAGAAAAUUCAAAUCACAAACUCGGUAUUUAUUUGCGAAGCGUAAAUGAUUACCACUUAAAAUGUGCUCGACUGCCACCUAAAAA
...-----------.......((-----(((..(((.((....)).............((((.(((((((((...))))))))).))))............)))..)))))......... ( -25.60)
>DroWil_CAF1 322662 94 - 1
--------------GGGCAAU------------GAAAGAAAAUUCAAAUCACAAACUCGGUAUUUAUUUGCGAAGCGUAAAUGAUUACCACUUAAAAUGUGCUCGACUGCCACCUAAAAA
--------------(((((.(------------(((......))))............((((.(((((((((...))))))))).))))..........)))))................ ( -20.60)
>DroMoj_CAF1 222581 109 - 1
GAU-----------GACGAGGGGGGUCCCUGCUGCCAGAAAAUUCAAAUCAGAAACUCGGUAUUUAUUUGCGAAGCGUAAAUGAUUACCACUUAAAAUGUGCUCGACUGCCACCUAAAAA
...-----------...(..((.((((...((..........(((......)))....((((.(((((((((...))))))))).))))...........))..)))).))..)...... ( -24.90)
>DroAna_CAF1 137201 109 - 1
AAAUGAAAUGGAGAUGGAAAUG-----------GAAGGAAAAUUCAAAUCACAAACUCGGUAUUUAUUUGCGAAGCGUAAAUGAUUACCACUUAAAAUGUGCUCGACUGCCACCUAAAAA
..........(((.((((....-----------(((......)))...)).))..)))((((.(((((((((...))))))))).))))........((.((......))))........ ( -18.60)
>consensus
GAA___________UGCAAAUG___________GAAAGAAAAUUCAAAUCACAAACUCGGUAUUUAUUUGCGAAGCGUAAAUGAUUACCACUUAAAAUGUGCUCGACUGCCACCUAAAAA
..........................................................((((.(((((((((...))))))))).))))........((.((......))))........ (-14.90 = -14.90 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:26:56 2006