Locus 4700

Sequence ID dm3.chr2R
Location 15,100,710 – 15,100,832
Length 122
Max. P 0.584556
window6450 window6451

overview

Window 0

Location 15,100,710 – 15,100,832
Length 122
Sequences 6
Columns 123
Reading direction forward
Mean pairwise identity 70.08
Shannon entropy 0.59678
G+C content 0.37143
Mean single sequence MFE -25.58
Consensus MFE -13.35
Energy contribution -15.05
Covariance contribution 1.70
Combinations/Pair 1.08
Mean z-score -0.79
Structure conservation index 0.52
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.19
SVM RNA-class probability 0.584556
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 15100710 122 + 21146708
UCCUGCAGCUUUUCUGCUACAAUGAGCAGCGUUAAGCUGCUUUCUCAAUAUCAGUGAAGAUAUUUUUAAAAGGAGAUACACGUAAAAA-UAUUAAAAAUGGUUAGAUAGCAGCUAUGAAAGAC
........((((((((((......))))).....(((((((.(((....((((.....((((((((((...(........).))))))-)))).....)))).))).)))))))..))))).. ( -29.30, z-score =  -1.55, R)
>droEre2.scaffold_4845 9300435 104 + 22589142
CUCUGCAGCUUUUCCGCUGCAAUGAGCAGCGUUAAGCUGCUUUCCCAAUUGCAGUGAAGAUAUUUGGUAAAAGGGACACACGAAAAA--UAUUAAAAACCUAUUGC-----------------
....(((((((...((((((.....))))))..)))))))..((((..((((...(((....))).))))..))))...........--.................----------------- ( -29.20, z-score =  -2.18, R)
>droYak2.chr2R 7060765 121 - 21139217
CUCUGCAGCUUUUCUGCUGCAAUGAGCAGCGUUAAGCUGCUUUCUCGAUUCCAGUGAAGAGAUUUCCUCAAAAGGACACACGAAAAA--UAUUACAAAGUUUUUGAUAACCACUAGUUAAUGC
...((((((......))))))..(((((((.....)))))))..........((((........((((....))))....((((((.--..........)))))).....))))......... ( -27.90, z-score =  -0.80, R)
>droSec1.super_1 12615438 123 + 14215200
UCCUGCAGCUUUUCUGCUGCAAUGAGCAGCGUUAAGCUGCUUUCUCAAUUCCAGCGAAGAUAUUUUCUAAAAGAGAUACACGAAAAAAAUAUUAAAAAUUGUUUGAUAGCAACUAUGAAAGAC
...((((((......))))))..(((((((.....)))))))...........((........((((.....)))).............(((((((.....)))))))))............. ( -26.00, z-score =  -0.71, R)
>droSim1.chr2R 13810859 123 + 19596830
UCCUGCAGCUUUUCUGCUGCAAUGAGCAGCGUUAAGCUGCUUUCUCAAUUCCAGCGAAGAUAUUUUCUAAAAGAGAUACACGAAAAAAAUAUUAAAAAUUGUUUGAUAGCAACUAUGAAAGAC
...((((((......))))))..(((((((.....)))))))...........((........((((.....)))).............(((((((.....)))))))))............. ( -26.00, z-score =  -0.71, R)
>droVir3.scaffold_13324 2738609 96 + 2960039
----------UUUCUGCUGCGAUG-----CGUAAAGCUGCUUUC--------AGCACAACCAUUUC--AAAUCAAAGGCAGGACUUGG--CUUUAAAAUGUUUUUUUUUCAACUACUUUAAGC
----------.(((((((..((((-----(.....))(((....--------.)))..........--..)))...)))))))....(--(((......(((........)))......)))) ( -15.10, z-score =   1.21, R)
>consensus
UCCUGCAGCUUUUCUGCUGCAAUGAGCAGCGUUAAGCUGCUUUCUCAAUUCCAGCGAAGAUAUUUUCUAAAAGAGAUACACGAAAAAA_UAUUAAAAAUUGUUUGAUAGCAACUAUGAAAGAC
....(((((((...((((((.....))))))..)))))))................................................................................... (-13.35 = -15.05 +   1.70)

alignment

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secondary structure

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dotplot

Postscript

Window 1

Location 15,100,710 – 15,100,832
Length 122
Sequences 6
Columns 123
Reading direction reverse
Mean pairwise identity 70.08
Shannon entropy 0.59678
G+C content 0.37143
Mean single sequence MFE -27.69
Consensus MFE -13.11
Energy contribution -14.67
Covariance contribution 1.56
Combinations/Pair 1.08
Mean z-score -1.01
Structure conservation index 0.47
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.17
SVM RNA-class probability 0.576309
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 15100710 122 - 21146708
GUCUUUCAUAGCUGCUAUCUAACCAUUUUUAAUA-UUUUUACGUGUAUCUCCUUUUAAAAAUAUCUUCACUGAUAUUGAGAAAGCAGCUUAACGCUGCUCAUUGUAGCAGAAAAGCUGCAGGA
(..((((..(((((((.(((...........(((-(......)))).............((((((......)))))).))).)))))))....(((((.....))))).))))..)....... ( -28.00, z-score =  -1.81, R)
>droEre2.scaffold_4845 9300435 104 - 22589142
-----------------GCAAUAGGUUUUUAAUA--UUUUUCGUGUGUCCCUUUUACCAAAUAUCUUCACUGCAAUUGGGAAAGCAGCUUAACGCUGCUCAUUGCAGCGGAAAAGCUGCAGAG
-----------------.................--....((.....((((..........................))))..(((((((..((((((.....))))))...))))))).)). ( -27.97, z-score =  -1.47, R)
>droYak2.chr2R 7060765 121 + 21139217
GCAUUAACUAGUGGUUAUCAAAAACUUUGUAAUA--UUUUUCGUGUGUCCUUUUGAGGAAAUCUCUUCACUGGAAUCGAGAAAGCAGCUUAACGCUGCUCAUUGCAGCAGAAAAGCUGCAGAG
..((((...(((...........)))...)))).--(((((((....(((...((((((....))))))..)))..)))))))(((((((...(((((.....)))))....))))))).... ( -36.30, z-score =  -2.52, R)
>droSec1.super_1 12615438 123 - 14215200
GUCUUUCAUAGUUGCUAUCAAACAAUUUUUAAUAUUUUUUUCGUGUAUCUCUUUUAGAAAAUAUCUUCGCUGGAAUUGAGAAAGCAGCUUAACGCUGCUCAUUGCAGCAGAAAAGCUGCAGGA
(..((((..(((((((.((...(((((((..(((((((((....(.....)....))))))))).......))))))).)).)))))))....(((((.....))))).))))..)....... ( -27.50, z-score =  -0.37, R)
>droSim1.chr2R 13810859 123 - 19596830
GUCUUUCAUAGUUGCUAUCAAACAAUUUUUAAUAUUUUUUUCGUGUAUCUCUUUUAGAAAAUAUCUUCGCUGGAAUUGAGAAAGCAGCUUAACGCUGCUCAUUGCAGCAGAAAAGCUGCAGGA
(..((((..(((((((.((...(((((((..(((((((((....(.....)....))))))))).......))))))).)).)))))))....(((((.....))))).))))..)....... ( -27.50, z-score =  -0.37, R)
>droVir3.scaffold_13324 2738609 96 - 2960039
GCUUAAAGUAGUUGAAAAAAAAACAUUUUAAAG--CCAAGUCCUGCCUUUGAUUU--GAAAUGGUUGUGCU--------GAAAGCAGCUUUACG-----CAUCGCAGCAGAAA----------
(((((((((.(((........)))))))).)))--)((((((........)))))--)......((.((((--------(...((........)-----)....))))).)).---------- ( -18.90, z-score =   0.49, R)
>consensus
GUCUUUCAUAGUUGCUAUCAAAAAAUUUUUAAUA_UUUUUUCGUGUAUCUCUUUUAGAAAAUAUCUUCACUGGAAUUGAGAAAGCAGCUUAACGCUGCUCAUUGCAGCAGAAAAGCUGCAGGA
...................................................................................(((((((...(((((.....)))))....))))))).... (-13.11 = -14.67 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:34:17 2011