Locus 775

Sequence ID X_DroMel_CAF1
Location 2,157,134 – 2,157,230
Length 96
Max. P 0.973079
window1260 window1261

overview

Window 0

Location 2,157,134 – 2,157,230
Length 96
Sequences 4
Columns 111
Reading direction forward
Mean pairwise identity 71.75
Mean single sequence MFE -25.53
Consensus MFE -9.14
Energy contribution -9.45
Covariance contribution 0.31
Combinations/Pair 1.11
Mean z-score -2.63
Structure conservation index 0.36
SVM decision value 0.17
SVM RNA-class probability 0.615254
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2157134 96 + 22224390
-----GCGGCUUUGUAGCUAUAAAAGCCAUAAAAAAGCGUUGAAGAUGCCAAGAAGUC----ACUCAAA------GCCAGCAAAGCCAAGAAAAUGAAACGGCCAGGCGGA
-----..(((((((..(((.....))).........(((((...))))).........----...))))------))).((...(((.............)))...))... ( -20.32)
>DroPse_CAF1 50116 98 + 1
-----GCGGCUUUAUGGCCAUUAAAGCCAUAAAAAAGCAUUGAAGAUGGGAAAAAGUC----AGUCAGGCAGGCUGGCUGCCAAGCCAAGGCAAUGAAAAU----UGAGCA
-----(((((((((((((.......))))))))...............((....((((----((((.....)))))))).))..)))....((((....))----)).)). ( -32.50)
>DroAna_CAF1 44450 93 + 1
CGGCAUCGACUUUAUGACCAUAAAAGCCAUAAAAAAGCAUUGAAGAUGGCAAGAAGUCAGUCACUCAAA------GC----CAAGCCAAGAAAAUUGAACGG--------A
.(((...((((((.((.((((.((.((.........)).))....)))))).)))))).((........------))----...)))...............--------. ( -16.80)
>DroPer_CAF1 51023 98 + 1
-----GCGGCUUUAUGGCCAUUAAAGCCAUAAAAAAGCAUUGAAGAUGGGAAAAAGUC----AGUCAGGCAGGCUGGCUGCCAAGCCAAGGCAAUGAAAAU----UGAGCA
-----(((((((((((((.......))))))))...............((....((((----((((.....)))))))).))..)))....((((....))----)).)). ( -32.50)
>consensus
_____GCGGCUUUAUGGCCAUAAAAGCCAUAAAAAAGCAUUGAAGAUGGCAAAAAGUC____ACUCAAA______GCCUGCCAAGCCAAGAAAAUGAAAAG____UGAGCA
.......(((((((((((.......))))))))......((((.(((........)))......))))................)))........................ ( -9.14 =  -9.45 +   0.31)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 1

Location 2,157,134 – 2,157,230
Length 96
Sequences 4
Columns 111
Reading direction reverse
Mean pairwise identity 71.75
Mean single sequence MFE -23.57
Consensus MFE -13.56
Energy contribution -14.25
Covariance contribution 0.69
Combinations/Pair 1.35
Mean z-score -2.06
Structure conservation index 0.58
SVM decision value 1.70
SVM RNA-class probability 0.973079
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2157134 96 - 22224390
UCCGCCUGGCCGUUUCAUUUUCUUGGCUUUGCUGGC------UUUGAGU----GACUUCUUGGCAUCUUCAACGCUUUUUUAUGGCUUUUAUAGCUACAAAGCCGC-----
...((..(((((...........)))))..)).(((------(((((((----(.....((((.....))))))))......(((((.....))))))))))))..----- ( -24.50)
>DroPse_CAF1 50116 98 - 1
UGCUCA----AUUUUCAUUGCCUUGGCUUGGCAGCCAGCCUGCCUGACU----GACUUUUUCCCAUCUUCAAUGCUUUUUUAUGGCUUUAAUGGCCAUAAAGCCGC-----
......----..............((((((((((.....))))).....----...........................(((((((.....))))))))))))..----- ( -23.50)
>DroAna_CAF1 44450 93 - 1
U--------CCGUUCAAUUUUCUUGGCUUG----GC------UUUGAGUGACUGACUUCUUGCCAUCUUCAAUGCUUUUUUAUGGCUUUUAUGGUCAUAAAGUCGAUGCCG
.--------...............((((((----((------(((..((((((........(((((...............)))))......)))))))))))))).))). ( -22.80)
>DroPer_CAF1 51023 98 - 1
UGCUCA----AUUUUCAUUGCCUUGGCUUGGCAGCCAGCCUGCCUGACU----GACUUUUUCCCAUCUUCAAUGCUUUUUUAUGGCUUUAAUGGCCAUAAAGCCGC-----
......----..............((((((((((.....))))).....----...........................(((((((.....))))))))))))..----- ( -23.50)
>consensus
UGCUCA____AGUUUCAUUGCCUUGGCUUGGCAGCC______CCUGACU____GACUUCUUCCCAUCUUCAAUGCUUUUUUAUGGCUUUAAUGGCCAUAAAGCCGC_____
........................((((((((((.....)))))....................................(((((((.....))))))))))))....... (-13.56 = -14.25 +   0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:53:34 2006