Locus 7883

Sequence ID dm3.chr3L
Location 18,141,990 – 18,142,086
Length 96
Max. P 0.925485
window10848 window10849

overview

Window 8

Location 18,141,990 – 18,142,086
Length 96
Sequences 10
Columns 105
Reading direction forward
Mean pairwise identity 68.79
Shannon entropy 0.66634
G+C content 0.56434
Mean single sequence MFE -30.36
Consensus MFE -13.81
Energy contribution -14.40
Covariance contribution 0.59
Combinations/Pair 1.18
Mean z-score -1.00
Structure conservation index 0.45
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.57
SVM RNA-class probability 0.745954
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 18141990 96 + 24543557
UGCUUUUGCGGCUUAAAGCGGCAGCAGGUCGCUUCAGUCAGUCGAAGACUUUAAGCGCACCAAGUCGCCU------GCCGCUCCAC---UCCAAAAAAUACGAGA
.((....))((.....(((((((((.((((((((.((((.......))))..))))).))).....).))------))))))....---.))............. ( -29.50, z-score =  -0.89, R)
>droMoj3.scaffold_6680 15725909 73 + 24764193
CGCUUUGGCGGCCCGCUGCGGCAUUAACUUGGCUCAGUCACUCGAAGACUUUAAACGCACCAAGUUGCCUCGU--------------------------------
.......((((....))))((((...((((((..(((((.......))))......)..))))))))))....-------------------------------- ( -18.50, z-score =   0.57, R)
>droVir3.scaffold_13049 21319206 98 + 25233164
CGCUUUGGCGGCUUGAGGCGGCCCCAAGUCGCGUCAGUCAUUCGAAGACUUUAAACGCACCAAGUUGCCUAGUUCGGCUGCACGACUACUCGACUCCU-------
......(((((((((..(((.....(((((...((........)).)))))....)))..)))))))))((((.((......))))))..........------- ( -30.10, z-score =  -0.27, R)
>droGri2.scaffold_15110 2252827 81 - 24565398
CGCUUUGGCGGCUCGAAGCGGACCCAAGUCGCUUCAGUCACUCAAAGACCUGAAGCGCACCAAGUUGUUGCCUCGGCUUCC------------------------
.(((..((((((.(...((.(((....)))(((((((((.......)).))))))))).....)..))))))..)))....------------------------ ( -27.40, z-score =  -0.98, R)
>droWil1.scaffold_180949 5452835 90 - 6375548
CGCUUUGGCGGCUCCAAACGGCACCAAGUCGCUUCAGUCAGUCAAAGACUUUAAACGCAUCAAGUUGGCCAGUUAGUUGGAGCUGUUGAU---------------
....(..(((((((((((((((...((((((((......)))....)))))..(((.......))).))).))...))))))))))..).--------------- ( -26.40, z-score =  -0.97, R)
>droAna3.scaffold_13337 4057071 98 - 23293914
CGCUUUGGCGGCUUUAAGCGGCUGCAGGUCGCUUCAGUCAGUCCAAGACUUUAAGCGCACCAAGUCGCCA------GCCGCUCCGUGGAUCCGGUGGAUGUGGU-
(((...(((((((....((((((...((((((((.((((.......))))..))))).))).)))))).)------))))))..))).((((...)))).....- ( -37.70, z-score =  -0.90, R)
>droEre2.scaffold_4784 10014937 95 - 25762168
CGCUUUGGCGGCUUUAAGCGGCAGCAGGUCGCUUCAGUCAGUCCAAGACUUUAAGCGCACCAAGUCGCCU------GCCGCUCCAC---UCGAAAAG-GCCAAGA
.(((((..(((.....(((((((((.((((((((.((((.......))))..))))).))).....).))------))))))....---)))..)))-))..... ( -33.90, z-score =  -1.30, R)
>droYak2.chr3L 8291497 102 - 24197627
CGCUUUGGCGGCUUUAAGCGGCCGCAGGUCGCUUCAGUCAGUCCAAGACUUUAAGCGCACCAAGUCGCCUUCGCCUGCAGCUCCAC---UCAAAAAAAGCCGAGA
.(((((((((((((...((....)).((((((((.((((.......))))..))))).)))))))))))...((.....)).....---......)))))..... ( -32.30, z-score =  -0.54, R)
>droSec1.super_19 137854 95 + 1257711
CGCUUUUGCGGCUUAAAGCGGCAGCAGGUCGCUUCAGUCAGUCCAAGACUUUAAGCGCACCAAGUCGCCU------GCCGCUCCAC---UCCAAAAA-GCCGAGA
.((((((..((.....(((((((((.((((((((.((((.......))))..))))).))).....).))------))))))....---.)).))))-))..... ( -33.90, z-score =  -2.21, R)
>droSim1.chr3L 17469967 95 + 22553184
CGCUUUUGCGGCUUAAAGCGGCAGCAGGUCGCUUCAGUCAGUCCAAGACUUUAAGCGCACCAAGUCGCCU------GCCGCUCCAC---UCCAAAAA-GCCGAGU
.((((((..((.....(((((((((.((((((((.((((.......))))..))))).))).....).))------))))))....---.)).))))-))..... ( -33.90, z-score =  -2.53, R)
>consensus
CGCUUUGGCGGCUUAAAGCGGCAGCAGGUCGCUUCAGUCAGUCCAAGACUUUAAGCGCACCAAGUCGCCU______GCCGCUCCAC___UCCAAAAA___CGAG_
.......((((((..(((((((.....))))))).((((.......))))............))))))..................................... (-13.81 = -14.40 +   0.59)

alignment

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secondary structure

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dotplot

Postscript

Window 9

Location 18,141,990 – 18,142,086
Length 96
Sequences 10
Columns 105
Reading direction reverse
Mean pairwise identity 68.79
Shannon entropy 0.66634
G+C content 0.56434
Mean single sequence MFE -34.71
Consensus MFE -15.17
Energy contribution -15.53
Covariance contribution 0.36
Combinations/Pair 1.26
Mean z-score -1.42
Structure conservation index 0.44
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.32
SVM RNA-class probability 0.925485
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 18141990 96 - 24543557
UCUCGUAUUUUUUGGA---GUGGAGCGGC------AGGCGACUUGGUGCGCUUAAAGUCUUCGACUGACUGAAGCGACCUGCUGCCGCUUUAAGCCGCAAAAGCA
....((.((((.(((.---.(((((((((------((.((....(((.(((((..((((.......)))).)))))))))))))))))))))..))).)))))). ( -38.50, z-score =  -2.22, R)
>droMoj3.scaffold_6680 15725909 73 - 24764193
--------------------------------ACGAGGCAACUUGGUGCGUUUAAAGUCUUCGAGUGACUGAGCCAAGUUAAUGCCGCAGCGGGCCGCCAAAGCG
--------------------------------....(((((((((((........((((.......))))..))))))))...(((......))).)))...... ( -22.30, z-score =  -0.01, R)
>droVir3.scaffold_13049 21319206 98 - 25233164
-------AGGAGUCGAGUAGUCGUGCAGCCGAACUAGGCAACUUGGUGCGUUUAAAGUCUUCGAAUGACUGACGCGACUUGGGGCCGCCUCAAGCCGCCAAAGCG
-------......(((....))).((.(((......)))...((((((((((...((((.......)))))))))(.(((((((...))))))).)))))).)). ( -30.50, z-score =   0.50, R)
>droGri2.scaffold_15110 2252827 81 + 24565398
------------------------GGAAGCCGAGGCAACAACUUGGUGCGCUUCAGGUCUUUGAGUGACUGAAGCGACUUGGGUCCGCUUCGAGCCGCCAAAGCG
------------------------((..((((((((....(((..(..((((((((.((.......))))))))))..)..)))..)))))).))..))...... ( -32.50, z-score =  -1.52, R)
>droWil1.scaffold_180949 5452835 90 + 6375548
---------------AUCAACAGCUCCAACUAACUGGCCAACUUGAUGCGUUUAAAGUCUUUGACUGACUGAAGCGACUUGGUGCCGUUUGGAGCCGCCAAAGCG
---------------.......(((((((...((.(((..(((.....(((((..((((.......)))).)))))....)))))))))))))))(((....))) ( -25.20, z-score =  -1.19, R)
>droAna3.scaffold_13337 4057071 98 + 23293914
-ACCACAUCCACCGGAUCCACGGAGCGGC------UGGCGACUUGGUGCGCUUAAAGUCUUGGACUGACUGAAGCGACCUGCAGCCGCUUAAAGCCGCCAAAGCG
-..........(((......))).(((((------(((((.((.(((.(((((..((((.......)))).))))))))...)).))))...))))))....... ( -35.10, z-score =  -1.43, R)
>droEre2.scaffold_4784 10014937 95 + 25762168
UCUUGGC-CUUUUCGA---GUGGAGCGGC------AGGCGACUUGGUGCGCUUAAAGUCUUGGACUGACUGAAGCGACCUGCUGCCGCUUAAAGCCGCCAAAGCG
..(((((-......(.---((.(((((((------((.((....(((.(((((..((((.......)))).)))))))))))))))))))...)))))))).... ( -35.30, z-score =  -0.71, R)
>droYak2.chr3L 8291497 102 + 24197627
UCUCGGCUUUUUUUGA---GUGGAGCUGCAGGCGAAGGCGACUUGGUGCGCUUAAAGUCUUGGACUGACUGAAGCGACCUGCGGCCGCUUAAAGCCGCCAAAGCG
....(((...((((((---(((..(((((((((.(((....))).)..(((((..((((.......)))).))))).)))))))))))))))))..)))...... ( -40.50, z-score =  -1.21, R)
>droSec1.super_19 137854 95 - 1257711
UCUCGGC-UUUUUGGA---GUGGAGCGGC------AGGCGACUUGGUGCGCUUAAAGUCUUGGACUGACUGAAGCGACCUGCUGCCGCUUUAAGCCGCAAAAGCG
.....((-(((((((.---.(((((((((------((.((....(((.(((((..((((.......)))).)))))))))))))))))))))..))).)))))). ( -43.60, z-score =  -3.16, R)
>droSim1.chr3L 17469967 95 - 22553184
ACUCGGC-UUUUUGGA---GUGGAGCGGC------AGGCGACUUGGUGCGCUUAAAGUCUUGGACUGACUGAAGCGACCUGCUGCCGCUUUAAGCCGCAAAAGCG
.....((-(((((((.---.(((((((((------((.((....(((.(((((..((((.......)))).)))))))))))))))))))))..))).)))))). ( -43.60, z-score =  -3.29, R)
>consensus
_CUCG___UUUUUGGA___GUGGAGCGGC______AGGCGACUUGGUGCGCUUAAAGUCUUGGACUGACUGAAGCGACCUGCUGCCGCUUAAAGCCGCCAAAGCG
....................................(((.....(((.((((...((((.......))))..)))))))....)))((.....))(((....))) (-15.17 = -15.53 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:35:17 2011