Locus 13480

Sequence ID dm3.chrX
Location 6,806,672 – 6,806,765
Length 93
Max. P 0.993082
window18568 window18569

overview

Window 8

Location 6,806,672 – 6,806,765
Length 93
Sequences 8
Columns 110
Reading direction forward
Mean pairwise identity 66.96
Shannon entropy 0.65389
G+C content 0.44775
Mean single sequence MFE -30.94
Consensus MFE -13.60
Energy contribution -14.98
Covariance contribution 1.38
Combinations/Pair 1.62
Mean z-score -2.15
Structure conservation index 0.44
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.59
SVM RNA-class probability 0.993082
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 6806672 93 + 22422827
-----CAGCAACAAAUAGCCAAACAAAAAGUUUUGGCUUUAGUUUUUGCAUUCGGCUUCGGAUUUGGCCUAUGGCCAUAACGAGAUGGCCGAUUUCGA------------
-----..((((.((..(((((((........)))))))....)).))))..(((((((((....(((((...)))))...)))...))))))......------------ ( -31.50, z-score =  -3.36, R)
>droSim1.chrX 5336990 89 + 17042790
-----CAGCAACAAAUAGCCAAACAAAAAGUUUUGGCUUUAGUUUUUGCAUUCGGCUUCGGAUUUGGCCUAUGGCCAUAACGAGAUGGCCGAUU----------------
-----..((((.((..(((((((........)))))))....)).))))..(((((((((....(((((...)))))...)))...))))))..---------------- ( -31.50, z-score =  -3.79, R)
>droSec1.super_24 20210 105 + 912625
-----CAGCAACAAAUAGCCAAACAAAAAGUUUUGGCUUUAGUUUUUGCAUUCGGCUUCGGAUUUGGCCUAUGGCCAUAACGAGAUGGCCGAUUGGGCUGGGAGGGUUGA
-----..((((.((..(((((((........)))))))....)).))))..(((((((....((..((((((((((((......)))))))..)))))..)).))))))) ( -36.40, z-score =  -2.55, R)
>droYak2.chrX 7223123 101 - 21770863
-----CAGCAGCAAAUAGCUAAACAAAAAGUUUUGGCUUUAGUUUUUGCAUUCGGCUUCGGAUUUGGCCUAUGGCCAUAACGAGAUGGCCGAUAGGAACGGGUUGA----
-----((((.(((((.((((((.((((....))))...)))))))))))..(((((((((....(((((...)))))...)))...)))))).........)))).---- ( -32.70, z-score =  -2.48, R)
>droEre2.scaffold_4690 15732422 101 + 18748788
-----CAGCAACAAAUAGCCAAACAAAAAGUUUUGGCUUUAGUUUUUGCAUUCGGUUUCGGAUUUGGCCUAUGGCCAUAACGAGAUGGCCGAUGCGGAUGGGUUGA----
-----(((((((....(((((((........)))))))...)))(((((((.((((((((....(((((...)))))...))))...)))))))))))...)))).---- ( -33.90, z-score =  -2.64, R)
>droAna3.scaffold_13117 1651517 99 - 5790199
-----AAGCG--AAAUGGCUAAACAAAAAGUUUUGGCUUUAGUUUUUGCAUUUGGCUUUGGAUUUGGCCUAAGGCCAUAACGAGAUGAGACAAGGGGGGGGAAGAA----
-----..(((--(((.(((((((........))))))).....))))))...(((((((((.......))))))))).............................---- ( -22.20, z-score =  -0.16, R)
>droWil1.scaffold_180777 2890774 74 + 4753960
----------------AGUCAGGCAAAAACUAUACAAAAAAGUUUUGGC-UUUGGCUUUGCCUUUGGCCUAUGGCAAUAACAAGGCUUACA-------------------
----------------((((((((.((((((.........)))))).))-.))))))..(((((..(((...)))......))))).....------------------- ( -18.10, z-score =  -0.37, R)
>droVir3.scaffold_12928 7543647 98 - 7717345
UGAGGCAGGGCCAAA-AACUCAGCAAAAAGUUUUGGCUUUGGCUCUGGCUGUUGCCCCAAGGCAGCGAACGGGCUAAAAGCGAGCCGAGCCAGGUGAAA-----------
.(((.((((((((((-(.((........))))))))))))).)))(((((((((((....)))))).....((((.......)))).))))).......----------- ( -41.20, z-score =  -1.85, R)
>consensus
_____CAGCAACAAAUAGCCAAACAAAAAGUUUUGGCUUUAGUUUUUGCAUUCGGCUUCGGAUUUGGCCUAUGGCCAUAACGAGAUGGCCGAUGGGGA____________
.......(((......(((((((........)))))))........)))....((((........))))..(((((((......)))))))................... (-13.60 = -14.98 +   1.38)

alignment

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secondary structure

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dotplot

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Window 9

Location 6,806,672 – 6,806,765
Length 93
Sequences 8
Columns 110
Reading direction reverse
Mean pairwise identity 66.96
Shannon entropy 0.65389
G+C content 0.44775
Mean single sequence MFE -24.23
Consensus MFE -9.24
Energy contribution -9.21
Covariance contribution -0.03
Combinations/Pair 1.58
Mean z-score -1.81
Structure conservation index 0.38
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.34
SVM RNA-class probability 0.928241
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 6806672 93 - 22422827
------------UCGAAAUCGGCCAUCUCGUUAUGGCCAUAGGCCAAAUCCGAAGCCGAAUGCAAAAACUAAAGCCAAAACUUUUUGUUUGGCUAUUUGUUGCUG-----
------------......(((((....(((...(((((...)))))....))).)))))..((((.......(((((((.(.....)))))))).....))))..----- ( -27.00, z-score =  -2.71, R)
>droSim1.chrX 5336990 89 - 17042790
----------------AAUCGGCCAUCUCGUUAUGGCCAUAGGCCAAAUCCGAAGCCGAAUGCAAAAACUAAAGCCAAAACUUUUUGUUUGGCUAUUUGUUGCUG-----
----------------..(((((....(((...(((((...)))))....))).)))))..((((.......(((((((.(.....)))))))).....))))..----- ( -27.00, z-score =  -2.99, R)
>droSec1.super_24 20210 105 - 912625
UCAACCCUCCCAGCCCAAUCGGCCAUCUCGUUAUGGCCAUAGGCCAAAUCCGAAGCCGAAUGCAAAAACUAAAGCCAAAACUUUUUGUUUGGCUAUUUGUUGCUG-----
..........((((.((.(((((....(((...(((((...)))))....))).))))).))....(((...(((((((.(.....))))))))....)))))))----- ( -28.90, z-score =  -3.00, R)
>droYak2.chrX 7223123 101 + 21770863
----UCAACCCGUUCCUAUCGGCCAUCUCGUUAUGGCCAUAGGCCAAAUCCGAAGCCGAAUGCAAAAACUAAAGCCAAAACUUUUUGUUUAGCUAUUUGCUGCUG-----
----..........(((((.((((((......)))))))))))..........((((((((((.(((...((((......))))...))).)).)))))..))).----- ( -22.70, z-score =  -1.58, R)
>droEre2.scaffold_4690 15732422 101 - 18748788
----UCAACCCAUCCGCAUCGGCCAUCUCGUUAUGGCCAUAGGCCAAAUCCGAAACCGAAUGCAAAAACUAAAGCCAAAACUUUUUGUUUGGCUAUUUGUUGCUG-----
----.((((......(((((((.....(((...(((((...)))))....)))..))).)))).........(((((((.(.....))))))))....))))...----- ( -26.20, z-score =  -2.50, R)
>droAna3.scaffold_13117 1651517 99 + 5790199
----UUCUUCCCCCCCCUUGUCUCAUCUCGUUAUGGCCUUAGGCCAAAUCCAAAGCCAAAUGCAAAAACUAAAGCCAAAACUUUUUGUUUAGCCAUUU--CGCUU-----
----.............................(((((...)))))......((((.(((((...((((.((((......))))..))))...)))))--.))))----- ( -16.00, z-score =  -1.88, R)
>droWil1.scaffold_180777 2890774 74 - 4753960
-------------------UGUAAGCCUUGUUAUUGCCAUAGGCCAAAGGCAAAGCCAAA-GCCAAAACUUUUUUGUAUAGUUUUUGCCUGACU----------------
-------------------.....(((((......(((...)))..))))).........-((.((((((.........)))))).))......---------------- ( -13.40, z-score =   0.70, R)
>droVir3.scaffold_12928 7543647 98 + 7717345
-----------UUUCACCUGGCUCGGCUCGCUUUUAGCCCGUUCGCUGCCUUGGGGCAACAGCCAGAGCCAAAGCCAAAACUUUUUGCUGAGUU-UUUGGCCCUGCCUCA
-----------.......((((((((((.((.....))......(.((((....)))).))))).))))))..((((((((((......))).)-))))))......... ( -32.60, z-score =  -0.50, R)
>consensus
____________UCCCAAUCGGCCAUCUCGUUAUGGCCAUAGGCCAAAUCCGAAGCCGAAUGCAAAAACUAAAGCCAAAACUUUUUGUUUGGCUAUUUGUUGCUG_____
....................((((((......))))))...(((..........)))....(((((((.............)))))))..(((........)))...... ( -9.24 =  -9.21 +  -0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:22:16 2011