Locus 2283

Sequence ID dm3.chr2L
Location 17,592,558 – 17,592,657
Length 99
Max. P 0.857998
window3151 window3152

overview

Window 1

Location 17,592,558 – 17,592,657
Length 99
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 74.25
Shannon entropy 0.49771
G+C content 0.36554
Mean single sequence MFE -22.77
Consensus MFE -9.69
Energy contribution -11.63
Covariance contribution 1.95
Combinations/Pair 1.24
Mean z-score -2.06
Structure conservation index 0.43
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.94
SVM RNA-class probability 0.857998
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 17592558 99 + 23011544
UGAGUCAAUUUCCGAAUAUGCUCGUAAAGACGAGCAUAAAUUAUAUAU--UUCUCUGUUAAUCGGAUUGCUCAGUGAGCUAAUUACUUGCUACCUUAUAAA
.(((.(((..(((((.(((((((((....)))))))))(((.....))--)..........)))))))))))((..((.......))..)).......... ( -25.00, z-score =  -3.21, R)
>dp4.chr4_group3 851393 79 - 11692001
CUAGUUGAUUUCGCAGGCUGCG-GGGCAGAGGAGCUUAACAAACUUGU--UCUCUUCGCAAACCUGUUAAUUACCCAAUUAA-------------------
.((((((..((.(((((.((((-(((....(((((...........))--))))))))))..))))).)).....)))))).------------------- ( -20.00, z-score =  -0.97, R)
>droEre2.scaffold_4845 15930860 101 - 22589142
UGAGUCAAUUUCGAAAUAUGCUCGUAGAGACGAGCAUAAUUUAUAUAUAUUUCUCUUGGAAGCGGGUUGCUCACUGAGCUAAUUACUACCUACCUUAUGAA
.(((.........((((((((((((....)))))))).))))..........)))..((.((..(...((((...))))...)..)).))........... ( -21.91, z-score =  -1.04, R)
>droYak2.chr2R 17632917 99 - 21139217
UGAGUCAAUUUCCGAAUAUGCUCGUAAAGACGAGCAUAAUUUAUAUAU--UUCUCGUGGAAUCGGGUUGCUUAAUGAGCUAAUUACUUGCUACCUUAUGAA
((((.((((..((((.(((((((((....))))))))).........(--(((....))))))))))))))))...(((.........))).......... ( -24.30, z-score =  -2.14, R)
>droSec1.super_7 1233814 99 + 3727775
UGAGUCAAUUUCCGAAUAUGCUCAUAAAGACGAGCAUAAAUUAUAUAU--UUCUCUGCCAAUCGGGUUGCUCAACGAGCUAAUUACUUGCUACCUUAUAAA
((((.((((..((((.(((((((........)))))))(((.....))--)..........))))))))))))...(((.........))).......... ( -19.40, z-score =  -1.58, R)
>droSim1.chr2L 17296185 99 + 22036055
UGAGUCAAUUUCCGAAUAUGCUCGUAAAGACGAGCAUAAAUUAUAUAU--UUCUCUGUGAAUCGGGUUGCUCAAUGAGCUAAUUACUUGCUACCUUAUAAA
((((.((((..((((.(((((((((....)))))))))..(((((...--.....))))).))))))))))))...(((.........))).......... ( -26.00, z-score =  -3.41, R)
>consensus
UGAGUCAAUUUCCGAAUAUGCUCGUAAAGACGAGCAUAAAUUAUAUAU__UUCUCUGGGAAUCGGGUUGCUCAAUGAGCUAAUUACUUGCUACCUUAUAAA
((((.((((..((((.(((((((((....))))))))).......................))))))))))))............................ ( -9.69 = -11.63 +   1.95)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 2

Location 17,592,558 – 17,592,657
Length 99
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 74.25
Shannon entropy 0.49771
G+C content 0.36554
Mean single sequence MFE -20.73
Consensus MFE -10.03
Energy contribution -11.17
Covariance contribution 1.14
Combinations/Pair 1.20
Mean z-score -1.51
Structure conservation index 0.48
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.31
SVM RNA-class probability 0.638453
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 17592558 99 - 23011544
UUUAUAAGGUAGCAAGUAAUUAGCUCACUGAGCAAUCCGAUUAACAGAGAA--AUAUAUAAUUUAUGCUCGUCUUUACGAGCAUAUUCGGAAAUUGACUCA
.......((((((((....)).))).)))(((((((((((.......(...--.)........(((((((((....))))))))).)))))..))).))). ( -25.00, z-score =  -3.13, R)
>dp4.chr4_group3 851393 79 + 11692001
-------------------UUAAUUGGGUAAUUAACAGGUUUGCGAAGAGA--ACAAGUUUGUUAAGCUCCUCUGCCC-CGCAGCCUGCGAAAUCAACUAG
-------------------....((((....((..((((((.(((.((((.--...((((.....)))).))))....-)))))))))..)).)))).... ( -15.60, z-score =   0.21, R)
>droEre2.scaffold_4845 15930860 101 + 22589142
UUCAUAAGGUAGGUAGUAAUUAGCUCAGUGAGCAACCCGCUUCCAAGAGAAAUAUAUAUAAAUUAUGCUCGUCUCUACGAGCAUAUUUCGAAAUUGACUCA
...........((.(((.....((((...)))).....))).))..(((..............(((((((((....)))))))))..(((....)))))). ( -21.50, z-score =  -1.40, R)
>droYak2.chr2R 17632917 99 + 21139217
UUCAUAAGGUAGCAAGUAAUUAGCUCAUUAAGCAACCCGAUUCCACGAGAA--AUAUAUAAAUUAUGCUCGUCUUUACGAGCAUAUUCGGAAAUUGACUCA
.......(((.((...((((......)))).)).)))(((((((...(...--.)........(((((((((....)))))))))...)).)))))..... ( -19.70, z-score =  -1.81, R)
>droSec1.super_7 1233814 99 - 3727775
UUUAUAAGGUAGCAAGUAAUUAGCUCGUUGAGCAACCCGAUUGGCAGAGAA--AUAUAUAAUUUAUGCUCGUCUUUAUGAGCAUAUUCGGAAAUUGACUCA
.....((.(.(((((....)).)))).))((((((.((((.......(...--.)........(((((((((....))))))))).))))...))).))). ( -19.80, z-score =  -0.38, R)
>droSim1.chr2L 17296185 99 - 22036055
UUUAUAAGGUAGCAAGUAAUUAGCUCAUUGAGCAACCCGAUUCACAGAGAA--AUAUAUAAUUUAUGCUCGUCUUUACGAGCAUAUUCGGAAAUUGACUCA
........(.(((((....)).))))..(((((((.(((((((.....)))--..........(((((((((....))))))))).))))...))).)))) ( -22.80, z-score =  -2.53, R)
>consensus
UUUAUAAGGUAGCAAGUAAUUAGCUCAUUGAGCAACCCGAUUCCCAGAGAA__AUAUAUAAUUUAUGCUCGUCUUUACGAGCAUAUUCGGAAAUUGACUCA
......................(((.....))).............(((..............(((((((((....)))))))))............))). (-10.03 = -11.17 +   1.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:48:23 2011