Locus 4755

Sequence ID dm3.chr2R
Location 15,504,077 – 15,504,228
Length 151
Max. P 0.742616
window6523 window6524

overview

Window 3

Location 15,504,077 – 15,504,188
Length 111
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 68.65
Shannon entropy 0.50382
G+C content 0.48965
Mean single sequence MFE -24.90
Consensus MFE -14.34
Energy contribution -14.66
Covariance contribution 0.32
Combinations/Pair 1.26
Mean z-score -1.19
Structure conservation index 0.58
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.56
SVM RNA-class probability 0.742616
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 15504077 111 + 21146708
-------CCGAGCUUAAAUUGCAACCGCUGCAUUUGACGAUGCUCACGCUUUCAGUGGCUAACGCUGUACCCC--AACCGUUUGCCACAGUCAAGCUUCUGUAUCUCAAACUAUUGUCGU
-------.(((........((((.....))))(((((.(((((....((((...(((((.((((.(.......--.).)))).)))))....))))....))))))))))......))). ( -27.80, z-score =  -1.62, R)
>droSim1.chr2R 14206664 100 + 19596830
-------CCGAGCUUAAAUUGCAACCGCUGCACUUA-----------GCUUCCAGUGGCUAACGCUGUUCCCC--UACCGUUUGCCACAGUCAAGCUUCUGUAUCUCAAACUACUGUCGU
-------.(((((.......))....(.((((...(-----------((((...(((((.((((.((......--)).)))).)))))....)))))..)))).)...........))). ( -21.30, z-score =  -0.87, R)
>droSec1.super_1 13018672 100 + 14215200
-------CCGAGCUUAAAUUGCAACCGCUGCACUUA-----------GCUUCCAGUGGCUAACGCUGUUCCCC--UACCGUUCGCCGCAGUCAAGCUUCUGUAUCUCAAACUACUGUCGU
-------..(((((.....((((.....))))...)-----------)))).(((((((.((((.((......--)).)))).)))((((........))))..........)))).... ( -21.10, z-score =  -0.50, R)
>droYak2.chr2R 7467554 103 - 21139217
CCUUAAAUGUGGCUUAAAUUGCAAGCGCUGCACUUGACGAUGCUCACGCUUGCAAUGGCUAACGAUAUUACCCCCAACCGUUUUUUACUGUGAAGCUUCUGUA-----------------
.........(((((...((((((((((..(((........)))...)))))))))))))))..................(((((.......))))).......----------------- ( -23.40, z-score =  -1.17, R)
>droEre2.scaffold_4845 9701890 103 + 22589142
CCCUAAAUGGGGCUUAAACUGCAAGCGCUGCAUUUGACGAUGCUCACGCCUGCAAUGGCUAACGCUAUUCCUCAAUAGCGAUUUCCACAGUCGAGCUUCUGUA-----------------
(((.....)))((((....((((.(((..(((((....)))))...))).)))).(((..(.(((((((....))))))).)..))).....)))).......----------------- ( -30.90, z-score =  -1.79, R)
>consensus
_______CCGAGCUUAAAUUGCAACCGCUGCACUUGACGAUGCUCACGCUUCCAGUGGCUAACGCUGUUCCCC__UACCGUUUGCCACAGUCAAGCUUCUGUAUCUCAAACUA_UGUCGU
.........((((((....((((.....))))......................(((((.((((..............)))).)))))....))))))...................... (-14.34 = -14.66 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 15,504,110 – 15,504,228
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 72.14
Shannon entropy 0.47087
G+C content 0.43276
Mean single sequence MFE -22.57
Consensus MFE -10.66
Energy contribution -12.10
Covariance contribution 1.44
Combinations/Pair 1.29
Mean z-score -1.61
Structure conservation index 0.47
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.14
SVM RNA-class probability 0.563192
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 15504110 118 + 21146708
UGCUCACGCUUUCAGUGGCUAACGCUGUACCCC--AACCGUUUGCCACAGUCAAGCUUCUGUAUCUCAAACUAUUGUCGUUCUGAUUGCCAUUUGGAUAUCUUUAGCUACUUAAAGAUAC
........((((.(((((((((....(.((..(--((..(((((..((((........))))....)))))..)))..)).).(((..((....))..))).))))))))).)))).... ( -24.60, z-score =  -1.01, R)
>droSim1.chr2R 14206693 111 + 19596830
-------GCUUCCAGUGGCUAACGCUGUUCCCC--UACCGUUUGCCACAGUCAAGCUUCUGUAUCUCAAACUACUGUCGUUCUGAUAAUCAUUUCGAUAUCUUUAGCUACUCAAAGAUAC
-------.(((..(((((((((...........--....(((((..((((........))))....)))))...(((((...((.....))...)))))...)))))))))..))).... ( -22.90, z-score =  -2.45, R)
>droSec1.super_1 13018701 111 + 14215200
-------GCUUCCAGUGGCUAACGCUGUUCCCC--UACCGUUCGCCGCAGUCAAGCUUCUGUAUCUCAAACUACUGUCGUUCUGAUAAUCAUUUUGAUAUCUUUAUCUACUCAAAGAUAC
-------((((...(((((.((((.((......--)).)))).)))))....))))....((((((........((((.....))))........((((....)))).......)))))) ( -20.60, z-score =  -1.95, R)
>droYak2.chr2R 7467594 101 - 21139217
UGCUCACGCUUGCAAUGGCUAACGAUAUUACCCCCAACCGUUUUUUACUGUGAAGCUUCUGUAUCU-----------------GAUAAUCAUUUGGAUAUCUUCAACUACCUCGAGAU--
..(((..(((((((.(((..((((..............))))..))).))).))))....(((((.-----------------.(.......)..))))).............)))..-- ( -15.94, z-score =  -0.45, R)
>droEre2.scaffold_4845 9701930 102 + 22589142
UGCUCACGCCUGCAAUGGCUAACGCUAUUCCUCAAUAGCGAUUUCCACAGUCGAGCUUCUGUAUCU-----------------GAUAAUCACUGGGAUAUCUUAGGCUACGCAA-GAUAC
.(((((((((......)))...(((((((....))))))).........)).))))....((((((-----------------........(((((....)))))........)-))))) ( -28.79, z-score =  -2.21, R)
>consensus
UGCUCACGCUUCCAGUGGCUAACGCUGUUCCCC__UACCGUUUGCCACAGUCAAGCUUCUGUAUCUCAAACUA_UGUCGUUCUGAUAAUCAUUUGGAUAUCUUUAGCUACUCAAAGAUAC
.......((((...(((((.((((..............)))).)))))....)))).........................................((((((((......)))))))). (-10.66 = -12.10 +   1.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:35:18 2011