Locus 15746

Sequence ID dm3.chrX
Location 20,784,516 – 20,784,652
Length 136
Max. P 0.943373
window21694 window21695

overview

Window 4

Location 20,784,516 – 20,784,617
Length 101
Sequences 5
Columns 105
Reading direction forward
Mean pairwise identity 95.22
Shannon entropy 0.08205
G+C content 0.39493
Mean single sequence MFE -31.06
Consensus MFE -25.24
Energy contribution -24.88
Covariance contribution -0.36
Combinations/Pair 1.13
Mean z-score -2.77
Structure conservation index 0.81
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.49
SVM RNA-class probability 0.943373
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 20784516 101 + 22422827
UGCCACGCCCCAUUUGAAAUGGAAAUGUUCUCAGCCAUUUUAUAUUGUGUUUAAUACAUUCUAAAGGAGUGGGAACGCAG----GCGAAUGGCUUUCAAUGAGAA
.((((((((.....((((((((...((....)).))))))))...(((((((....(((((.....))))).))))))))----)))..))))............ ( -31.70, z-score =  -2.85, R)
>droEre2.scaffold_4690 17366167 105 + 18748788
UGCCACGCCCCAUUUAAAAUGGAAAUGUUCUCAGCCAUUUUAUAUUGUGUUUAAUACAUUUUAAAGGAGUGGGAACGAAGGCGGGCGAAUGGCUUUCAAUGAAAA
.(((.((((((((.....))))...((((((((.((..((((...(((((...)))))...))))))..))))))))..)))))))(((.....)))........ ( -30.00, z-score =  -2.05, R)
>droYak2.chrX 20000640 101 + 21770863
UGCCACGCCCCAUUUAAAAUGGAAAUGUUCUCAGCCAUUUUAUAUUGUGUUUAAUACUUUUUAAAGGAGUGGGAACGUAG----GCGAAUGGCUUUCAAUGAAAA
.((((((((((((.....))))..(((((((((.((..((((.(..((((...))))..).))))))..))))))))).)----)))..))))............ ( -27.60, z-score =  -2.28, R)
>droSec1.super_8 3046787 101 + 3762037
UGCCACGCCCCAUUUAAAAUGGAAAUGUUCUCAGCCAUUUUAUAUUGUGUUUAAUACAUUCCAAAGGAGUGGGAACGCAG----GCGAAUGGCUUUCAAUGAGAA
.((((((((.....((((((((...((....)).))))))))...(((((((....((((((...)))))).))))))))----)))..))))............ ( -33.00, z-score =  -3.32, R)
>droSim1.chrX_random 403355 101 + 5698898
UGCCACGCCCCAUUUAAAAUGGAAAUGUUCUCAGCCAUUUUAUAUUGUGUUUAAUACAUUCCAAAGGAGUGGGAACGCAG----GCGAAUGGCUUUCAAUGAGAA
.((((((((.....((((((((...((....)).))))))))...(((((((....((((((...)))))).))))))))----)))..))))............ ( -33.00, z-score =  -3.32, R)
>consensus
UGCCACGCCCCAUUUAAAAUGGAAAUGUUCUCAGCCAUUUUAUAUUGUGUUUAAUACAUUCUAAAGGAGUGGGAACGCAG____GCGAAUGGCUUUCAAUGAGAA
.(((((((......((((((((...((....)).))))))))..((((((((....((((((...)))))).))))))))....)))..))))............ (-25.24 = -24.88 +  -0.36)

alignment

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secondary structure

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dotplot

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Window 5

Location 20,784,544 – 20,784,652
Length 108
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 94.80
Shannon entropy 0.08981
G+C content 0.31978
Mean single sequence MFE -22.45
Consensus MFE -18.98
Energy contribution -19.18
Covariance contribution 0.20
Combinations/Pair 1.12
Mean z-score -2.22
Structure conservation index 0.85
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.02
SVM RNA-class probability 0.875360
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 20784544 108 + 22422827
UCUCAGCCAUUUUAUAUUGUGUUUAAUACAUUCUAAAGGAGUGGGAACGCAG----GCGAAUGGCUUUCAAUGAGAAAUUUUCAACAAUCAAAAAAAUUACACACAUUUUUC
((((((((((((....((((((((....(((((.....))))).))))))))----..)))))))......))))).................................... ( -25.10, z-score =  -3.35, R)
>droEre2.scaffold_4690 17366195 112 + 18748788
UCUCAGCCAUUUUAUAUUGUGUUUAAUACAUUUUAAAGGAGUGGGAACGAAGGCGGGCGAAUGGCUUUCAAUGAAAAAUUUGCAACAAUCAAAAAAAUUACACACAUUUUUC
(((((.((..((((...(((((...)))))...))))))..)))))..((((((.(.....).))))))...(((((((.((....................)).))))))) ( -17.45, z-score =   0.04, R)
>droYak2.chrX 20000668 108 + 21770863
UCUCAGCCAUUUUAUAUUGUGUUUAAUACUUUUUAAAGGAGUGGGAACGUAG----GCGAAUGGCUUUCAAUGAAAAAUUUUCAACAAUCAAAAAAAUUACACACAUUUUUC
....((((((((....((((((((..((((((.....)))))).))))))))----..)))))))).....((((.....))))............................ ( -16.50, z-score =  -0.54, R)
>droSec1.super_8 3046815 108 + 3762037
UCUCAGCCAUUUUAUAUUGUGUUUAAUACAUUCCAAAGGAGUGGGAACGCAG----GCGAAUGGCUUUCAAUGAGAAAUUUUUAAAAAUCAAAAAAAUUACACACAUUUUUC
((((((((((((....((((((((....((((((...)))))).))))))))----..)))))))......)))))(((((((.........)))))))............. ( -26.70, z-score =  -3.63, R)
>droSim1.chrX_random 403383 108 + 5698898
UCUCAGCCAUUUUAUAUUGUGUUUAAUACAUUCCAAAGGAGUGGGAACGCAG----GCGAAUGGCUUUCAAUGAGAAAUUUUCAACAAUCAAAAAAAUUACACACAUUUUUC
((((((((((((....((((((((....((((((...)))))).))))))))----..)))))))......))))).................................... ( -26.50, z-score =  -3.60, R)
>consensus
UCUCAGCCAUUUUAUAUUGUGUUUAAUACAUUCUAAAGGAGUGGGAACGCAG____GCGAAUGGCUUUCAAUGAGAAAUUUUCAACAAUCAAAAAAAUUACACACAUUUUUC
((((((((((((....((((((((....((((((...)))))).))))))))......)))))))......))))).................................... (-18.98 = -19.18 +   0.20)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:05:04 2011