Locus 4600

Sequence ID dm3.chr2R
Location 14,456,645 – 14,456,757
Length 112
Max. P 0.949709
window6305 window6306

overview

Window 5

Location 14,456,645 – 14,456,757
Length 112
Sequences 5
Columns 121
Reading direction forward
Mean pairwise identity 74.64
Shannon entropy 0.43590
G+C content 0.35419
Mean single sequence MFE -26.42
Consensus MFE -14.82
Energy contribution -16.50
Covariance contribution 1.68
Combinations/Pair 1.17
Mean z-score -1.84
Structure conservation index 0.56
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.01
SVM RNA-class probability 0.872209
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 14456645 112 + 21146708
---CUGCUUAAGUAACCACUUUCAGCGGUUUGGCAAUAAAGCGAAUUUUUAUUGC----UAUUUGCAGGAGGAAAUCUAAAUUUCGUUUUCAAGAUUUUCUACUGAGUGGUCCUAAGUC--
---..(((((.(..(((((((...((((..(((((((((((.....)))))))))----)).))))((.((((((((((((......)))..))))))))).)))))))))).))))).-- ( -31.50, z-score =  -2.97, R)
>droEre2.scaffold_4845 8659354 108 + 22589142
---CUUUUUAAGUAACUACUUUUACCGCCUAAGUAAUAAAGUGCACUUUUAUUGC----UUCUUGUAGGUG---AUCUAGAUUUGUAUUU--AGAUUUUCUCCUGAGCUCUUCAGAGACG-
---........((((......))))((((((((((((((((.....)))))))))----).....))))))---((((((((....))))--))))..((((.((((...))))))))..- ( -22.60, z-score =  -1.37, R)
>droYak2.chr2R 6406421 120 - 21139217
CUUCUGCAGUAGUUACUACUUUCAGCGGUUAAGUAAUAAAGUUCGUUUUUAUUGCAUUUUAUUUGUCCGAGAAAAUG-GAAUUUGUAAUUUUAGAUUUUCCCUUAAGCGCUUUAGUUUCUG
.........(((..((((.....((((.(((((((((((((.....))))))))).............(((((..((-((((.....))))))..)))))..)))).)))).))))..))) ( -21.40, z-score =  -0.65, R)
>droSec1.super_1 11925225 114 + 14215200
---CUGCUUAAGUAACCACUUUCAGCGGUUUGGCAGUAAAGUGAAUUUUUAUUGC----UAUUUGUAGGAGAAAAUCUAAAUUUCGUUUUCCAGAUUUUCCCCUGAGCGGUCCUAAGUCUA
---((((((....((((.(.....).))))(((((((((((.....)))))))))----)).....(((.(((((((((((......)))..)))))))).)))))))))........... ( -29.00, z-score =  -2.19, R)
>droSim1.chr2R 13172431 114 + 19596830
---CUGCUUAAGUAACCACUUUCAGCGGUUUGGCAGUAAAGUGAAUUUUUAUUGC----UAUUUGUAGGAGAAAAUCUAAAUUUCGUUUUCCAGAUUUUCCCCUGAGCGAUCCUAAGUCUA
---(((((.((((....))))..)))))..(((((((((((.....)))))))))----)).(((((((.(((((((((((......)))..)))))))).)))..))))........... ( -27.60, z-score =  -2.04, R)
>consensus
___CUGCUUAAGUAACCACUUUCAGCGGUUUGGCAAUAAAGUGAAUUUUUAUUGC____UAUUUGUAGGAGAAAAUCUAAAUUUCGUUUUCCAGAUUUUCCCCUGAGCGCUCCUAAGUCU_
...(((((.((((....))))..)))))....(((((((((.....)))))))))..........((((.((((((((..............)))))))).))))................ (-14.82 = -16.50 +   1.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 14,456,645 – 14,456,757
Length 112
Sequences 5
Columns 121
Reading direction reverse
Mean pairwise identity 74.64
Shannon entropy 0.43590
G+C content 0.35419
Mean single sequence MFE -23.94
Consensus MFE -13.32
Energy contribution -16.72
Covariance contribution 3.40
Combinations/Pair 1.17
Mean z-score -2.13
Structure conservation index 0.56
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.55
SVM RNA-class probability 0.949709
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 14456645 112 - 21146708
--GACUUAGGACCACUCAGUAGAAAAUCUUGAAAACGAAAUUUAGAUUUCCUCCUGCAAAUA----GCAAUAAAAAUUCGCUUUAUUGCCAAACCGCUGAAAGUGGUUACUUAAGCAG---
--(.((((((((((((((((((.((((((.((........)).)))))).))..........----((((((((.......))))))))......)))))..)))))..)))))))..--- ( -25.20, z-score =  -2.68, R)
>droEre2.scaffold_4845 8659354 108 - 22589142
-CGUCUCUGAAGAGCUCAGGAGAAAAUCU--AAAUACAAAUCUAGAU---CACCUACAAGAA----GCAAUAAAAGUGCACUUUAUUACUUAGGCGGUAAAAGUAGUUACUUAAAAAG---
-..(((((((.....))).))))..((((--(.((....)).)))))---...((((.....----(((.......)))..(((((..(....)..))))).))))............--- ( -13.80, z-score =   1.05, R)
>droYak2.chr2R 6406421 120 + 21139217
CAGAAACUAAAGCGCUUAAGGGAAAAUCUAAAAUUACAAAUUC-CAUUUUCUCGGACAAAUAAAAUGCAAUAAAAACGAACUUUAUUACUUAACCGCUGAAAGUAGUAACUACUGCAGAAG
..........((((.(((((.....................((-(........)))............((((((.......)))))).))))).))))....(((((....)))))..... ( -16.30, z-score =  -0.77, R)
>droSec1.super_1 11925225 114 - 14215200
UAGACUUAGGACCGCUCAGGGGAAAAUCUGGAAAACGAAAUUUAGAUUUUCUCCUACAAAUA----GCAAUAAAAAUUCACUUUACUGCCAAACCGCUGAAAGUGGUUACUUAAGCAG---
..(.((((((((((((.(((((((((((((((........))))))))))))))).......----(((.((((.......)))).)))............))))))..)))))))..--- ( -32.20, z-score =  -4.09, R)
>droSim1.chr2R 13172431 114 - 19596830
UAGACUUAGGAUCGCUCAGGGGAAAAUCUGGAAAACGAAAUUUAGAUUUUCUCCUACAAAUA----GCAAUAAAAAUUCACUUUACUGCCAAACCGCUGAAAGUGGUUACUUAAGCAG---
..(.((((((.......(((((((((((((((........))))))))))))))).......----(((.((((.......)))).)))..((((((.....)))))).)))))))..--- ( -32.20, z-score =  -4.14, R)
>consensus
_AGACUUAGGACCGCUCAGGGGAAAAUCUGGAAAACGAAAUUUAGAUUUUCUCCUACAAAUA____GCAAUAAAAAUUCACUUUAUUGCCAAACCGCUGAAAGUGGUUACUUAAGCAG___
.........(((((((.((((((((((((.((........)).))))))))))))...........((((((((.......))))))))............)))))))............. (-13.32 = -16.72 +   3.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:32:18 2011