Locus 7725

Sequence ID dm3.chr3L
Location 16,890,820 – 16,890,942
Length 122
Max. P 0.650438
window10633 window10634

overview

Window 3

Location 16,890,820 – 16,890,921
Length 101
Sequences 8
Columns 108
Reading direction forward
Mean pairwise identity 69.54
Shannon entropy 0.62338
G+C content 0.52602
Mean single sequence MFE -32.80
Consensus MFE -13.69
Energy contribution -14.09
Covariance contribution 0.39
Combinations/Pair 1.50
Mean z-score -1.11
Structure conservation index 0.42
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.10
SVM RNA-class probability 0.541908
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 16890820 101 + 24543557
UGUGUGUCGCCUGGCAAAUCAAGAGUGUCCG-----UGUGAGUGAGUGCUCGCUGUCACGGGCUCUGGUUUUUAUCGCCCGCCGCACGCAGUUCACGUUUAUUGCA--
.(((((.((...(((((((((.((((..(((-----((..(((((....)))))..))))))))))))))).....))))).)))))(((((........))))).-- ( -36.90, z-score =  -1.52, R)
>droSim1.chr3L 16238494 101 + 22553184
UGUGUGUCGCCUGGCGAAUCGAGAGUGUCCG-----UGUGAGUGAGUGCUCGCUGUCACGGGCUCUGGUUUUUAUCGCCCGCCGCACGCAGUUCACGUUUAUUGCA--
.(((((.((...(((((..(.(((((..(((-----((..(((((....)))))..)))))))))).)......))))))).)))))(((((........))))).-- ( -39.90, z-score =  -1.80, R)
>droSec1.super_0 8961553 101 + 21120651
UGUGUGUCGCCUGGCGAAUCGAGAGUGUCCG-----UGUGAGUGAAUGCUCGCUGUCACGGGCUCUGGUUUUUAUCGCCCGCCGCACGCAGUUCACGUUUAUUGCA--
.(((((.((...(((((..(.(((((..(((-----((..(((((....)))))..)))))))))).)......))))))).)))))(((((........))))).-- ( -39.20, z-score =  -1.84, R)
>droYak2.chr3L 7020715 101 - 24197627
UAUGUGUCGCCUGGCAAACCGAGAGUGUCCG-----UGUGAGUGAGUGCUCGCUGUCACGGGCUCUGGUUUUUAUCGCCCGCCGCACGCAGUUCCCUUUUAUUGCA--
...((((.((..((((((((.(((((..(((-----((..(((((....)))))..))))))))))))))).....))).)).))))(((((........))))).-- ( -39.40, z-score =  -2.79, R)
>droEre2.scaffold_4784 8819553 100 - 25762168
UGUGUGUCGCCUGGCGAAGCGAGAGUGUCCG-----UGUGAGUGAGUGCUCGCUGUCACGGGCUCUGGUUUUUAUCGCCCGCCGCACGCAGUUCA-GUUUAUUGCA--
(((((((.((..((((((((.(((((..(((-----((..(((((....)))))..)))))))))).)))....))))).)).))))))).....-..........-- ( -42.50, z-score =  -2.55, R)
>droAna3.scaffold_13337 9571522 105 - 23293914
UGUGUGUCGA-UAGCAGUGCGAGUGUGGUGGAUGGAUGUGAGUGAGUGCUCACUGUCACGGGCUCUGGUUUUUAUCGUCCGCCACACGCAGUUCACAUUUAUUGCA--
.((((((...-..))).)))..(((((((((((((((((((((....)))))).))).(((...)))........))))))))))))(((((........))))).-- ( -37.50, z-score =  -0.99, R)
>droWil1.scaffold_180727 1854420 103 + 2741493
AACUCAUCAUUCAAUUUAAGUUGUGCGUUUU-----GUUGUGUGUUUUUGUCAUUUAGUUAGUUUUGGUUUUUAUCGCCUGCCGCACGCAGUUCCCUUUAAUGGACUU
...................((.(((((....-----.(((.(((.......))).)))...((...(((.......))).)))))))))(((((........))))). ( -11.40, z-score =   1.77, R)
>droVir3.scaffold_13049 19551727 80 - 25233164
-----------------UAAUUG-GCGCUCG-----GCUAUGUCAUCUAGC---UUACGCGGUCUACGCUUUUAUGGCCUGUCGCACGCAUUCACCUUUAAUGACA--
-----------------......-(((..((-----((...(((((..(((---.............)))...)))))..))))..))).................-- ( -15.62, z-score =   0.84, R)
>consensus
UGUGUGUCGCCUGGCAAAUCGAGAGUGUCCG_____UGUGAGUGAGUGCUCGCUGUCACGGGCUCUGGUUUUUAUCGCCCGCCGCACGCAGUUCACGUUUAUUGCA__
........................(((..........((((((....)))))).....(((((...(((....)))))))).)))..(((((........)))))... (-13.69 = -14.09 +   0.39)

alignment

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secondary structure

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dotplot

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Window 4

Location 16,890,851 – 16,890,942
Length 91
Sequences 7
Columns 95
Reading direction forward
Mean pairwise identity 83.15
Shannon entropy 0.33978
G+C content 0.54198
Mean single sequence MFE -30.46
Consensus MFE -22.47
Energy contribution -24.47
Covariance contribution 2.00
Combinations/Pair 1.16
Mean z-score -1.34
Structure conservation index 0.74
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.34
SVM RNA-class probability 0.650438
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 16890851 91 + 24543557
UGUGAGUGAGUGCUCGCUGUCACGGGCUCUGGUUUUUAUCGCCCGCCGCACGCAGUUCACGUUUAUUGCAUAGGUGCGGCAAUCGCCCUUU----
.((((((....))))))......((((...(((.......))).((((((((((((........)))))....)))))))....))))...---- ( -34.30, z-score =  -1.72, R)
>droSim1.chr3L 16238525 91 + 22553184
UGUGAGUGAGUGCUCGCUGUCACGGGCUCUGGUUUUUAUCGCCCGCCGCACGCAGUUCACGUUUAUUGCAUAGGUGCGGCUAUCGCCCUUU----
.((((((....))))))......((((...(((.......))).((((((((((((........)))))....)))))))....))))...---- ( -33.80, z-score =  -1.61, R)
>droSec1.super_0 8961584 91 + 21120651
UGUGAGUGAAUGCUCGCUGUCACGGGCUCUGGUUUUUAUCGCCCGCCGCACGCAGUUCACGUUUAUUGCAAAGGUGCGACUAUCGCCCUUU----
.((((((....))))))(((..(((((...(((....))))))))..))).(((((........)))))(((((.(((.....))))))))---- ( -30.80, z-score =  -1.41, R)
>droYak2.chr3L 7020746 91 - 24197627
UGUGAGUGAGUGCUCGCUGUCACGGGCUCUGGUUUUUAUCGCCCGCCGCACGCAGUUCCCUUUUAUUGCAUAGGUGCGGCUAUCGCCCUUU----
.((((((....))))))......((((...(((.......))).((((((((((((........)))))....)))))))....))))...---- ( -33.80, z-score =  -2.07, R)
>droEre2.scaffold_4784 8819584 90 - 25762168
UGUGAGUGAGUGCUCGCUGUCACGGGCUCUGGUUUUUAUCGCCCGCCGCACGCAGUUCA-GUUUAUUGCAUAGGUGCGGCUAUCGCCCUUU----
.((((((....))))))......((((...(((.......))).((((((((((((...-....)))))....)))))))....))))...---- ( -33.50, z-score =  -1.64, R)
>droAna3.scaffold_13337 9571557 95 - 23293914
UGUGAGUGAGUGCUCACUGUCACGGGCUCUGGUUUUUAUCGUCCGCCACACGCAGUUCACAUUUAUUGCAUAGGUGCGGCUAUCGCCCUUUUAUU
.((((((....))))))......((((...(((....)))(((((((....(((((........)))))...)))).)))....))))....... ( -28.00, z-score =  -1.27, R)
>droVir3.scaffold_13049 19551744 84 - 25233164
------UGUCAUCUAGCUUACGCGGUCUACG-CUUUUAUGGCCUGUCGCACGCAUUCACCUUUAAUGACAGAGGUGUGUCCGGCCCAAUCC----
------...............(((.....))-)......((((.(.(((((.(..(((.......)))..)..))))).).))))......---- ( -19.00, z-score =   0.34, R)
>consensus
UGUGAGUGAGUGCUCGCUGUCACGGGCUCUGGUUUUUAUCGCCCGCCGCACGCAGUUCACGUUUAUUGCAUAGGUGCGGCUAUCGCCCUUU____
.((((((....))))))......((((...(((.......))).((((((((((((........)))))....)))))))....))))....... (-22.47 = -24.47 +   2.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:32:19 2011