Locus 10462

Sequence ID dm3.chr3R
Location 13,934,351 – 13,934,433
Length 82
Max. P 0.995474
window14392 window14393

overview

Window 2

Location 13,934,351 – 13,934,433
Length 82
Sequences 13
Columns 96
Reading direction forward
Mean pairwise identity 83.34
Shannon entropy 0.34586
G+C content 0.57295
Mean single sequence MFE -30.98
Consensus MFE -28.38
Energy contribution -28.26
Covariance contribution -0.12
Combinations/Pair 1.23
Mean z-score -1.61
Structure conservation index 0.92
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.78
SVM RNA-class probability 0.967175
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 13934351 82 + 27905053
--------------UUAUGCGGCGUCGGUGGUGUAAUGGUUAGCAUAGUUGCCUUCCAAGCAGUUGACCCGGGUUCGAUUCCCGGCCGACGCAGGU
--------------.......((((((((........(((((((...(((........))).)))))))((((.......)))))))))))).... ( -30.40, z-score =  -1.26, R)
>droSim1.chr3R 19965873 82 - 27517382
--------------UUAUGCGGCGUCGGUGGUGUAAUGGUUAGCAUAGUUGCCUUCCAAGCAGUUGACCCGGGUUCGAUUCCCGGCCGACGCAGGU
--------------.......((((((((........(((((((...(((........))).)))))))((((.......)))))))))))).... ( -30.40, z-score =  -1.26, R)
>droSec1.super_12 1891408 82 - 2123299
--------------UUAUGCGGCGUCGGUGGUGUAAUGGUUAGCAUAGUUGCCUUCCAAGCAGUUGACCCGGGUUCGAUUCCCGGCCGACGCAGGU
--------------.......((((((((........(((((((...(((........))).)))))))((((.......)))))))))))).... ( -30.40, z-score =  -1.26, R)
>droYak2.chr3R 2531224 82 + 28832112
--------------UUAUGUGGCGUCGGUGGUGUAAUGGUUAGCAUAGUUGCCUUCCAAGCAGUUGACCCGGGUUCGAUUCCCGGCCGACGCACUU
--------------.......((((((((........(((((((...(((........))).)))))))((((.......)))))))))))).... ( -30.40, z-score =  -1.80, R)
>droEre2.scaffold_4770 10045337 82 - 17746568
--------------UUAUGUUGCGUCGGUGGUGUAAUGGUUAGCAUAGUUGCCUUCCAAGCAGUUGACCCGGGUUCGAUUCCCGGCCGACGCACUU
--------------......(((((((((........(((((((...(((........))).)))))))((((.......)))))))))))))... ( -31.00, z-score =  -2.45, R)
>droAna3.scaffold_13340 11907199 81 - 23697760
--------------UUAUGUGGCGUCGGUGGUGUAAUGGUUAGCAUAGUUGCCUUCCAAGCAGUUGACCCGGGUUCGAUUCCCGGCCGACGCAGU-
--------------.......((((((((........(((((((...(((........))).)))))))((((.......))))))))))))...- ( -30.40, z-score =  -1.98, R)
>dp4.chr3 4489168 82 - 19779522
--------------UCAAGUGGCGUCGGUGGUGUAAUGGUCAGCAUAGUUGCCUUCCAAGCAGUUGAUCCGGGUUCGAUUCCCGGCCGACGCACAA
--------------....(((.(((((((........(((((((...(((........))).)))))))((((.......)))))))))))))).. ( -30.70, z-score =  -2.11, R)
>droPer1.super_4 3761212 82 + 7162766
--------------UCAAGUGGCGUCGGUGGUGUAAUGGUCAGCAUAGUUGCCUUCCAAGCAGUUGAUCCGGGUUCGAUUCCCGGCCGACGCACAA
--------------....(((.(((((((........(((((((...(((........))).)))))))((((.......)))))))))))))).. ( -30.70, z-score =  -2.11, R)
>droWil1.scaffold_181096 7895064 81 - 12416693
--------------AUAUAUAGCAUCGGUGGUUCAGAGGU-AGAAUGCUCGCCCGCCAAGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAUAC
--------------.......(((((((..((((......-.))))((.(((((((...)))))))))(((((.......)))))))))))).... ( -38.10, z-score =  -2.93, R)
>droMoj3.scaffold_6500 9161665 95 - 32352404
UUGGACGCCUUCCGCAAGAAAGCAUCGGUGGUUCAGUGGU-AGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAGAA
((((..(((.(((((..(((.((....))..))).(((((-((.........)))))))))))).)))(((((.......)))))))))....... ( -37.90, z-score =  -0.25, R)
>droGri2.scaffold_15245 14882096 82 - 18325388
--------------UCAUGUGGCGUCGGUGGUGUAAUGGUCAGCAUAGUUGCCUUCCAAGCAGUUGAUCCGGGUUCGAUUCCCGGCCGACGCACAA
--------------...((((.(((((((........(((((((...(((........))).)))))))((((.......))))))))))))))). ( -31.50, z-score =  -2.09, R)
>droVir3.scaffold_12875 10314205 68 - 20611582
--------------------GGCGUCGGUGGUGUAAUGGUCAGCAUAGUUGCCUUCCAAGCAGUUGAUCCGGGUUCGAUUCCCGGCCG--------
--------------------((((((((..((....(((...(((....)))...))).))..))))).((((.......))))))).-------- ( -20.90, z-score =  -0.43, R)
>anoGam1.chr2L 4571866 81 - 48795086
--------------ACAUG-GGCGUCGGUGGUGUAAUGGUCAGCAUAGUUGCCUUCCAAGCAGUUGAUCCGGGUUCGAUUCCCGGCCGACGCACGA
--------------.....-.((((((((........(((((((...(((........))).)))))))((((.......)))))))))))).... ( -30.00, z-score =  -1.00, R)
>consensus
______________UUAUGUGGCGUCGGUGGUGUAAUGGUUAGCAUAGUUGCCUUCCAAGCAGUUGACCCGGGUUCGAUUCCCGGCCGACGCACAA
.....................((((((((........(((((((.....(((.......))))))))))((((.......)))))))))))).... (-28.38 = -28.26 +  -0.12)

alignment

Postscript

secondary structure

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dotplot

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Window 3

Location 13,934,351 – 13,934,433
Length 82
Sequences 13
Columns 96
Reading direction reverse
Mean pairwise identity 83.34
Shannon entropy 0.34586
G+C content 0.57295
Mean single sequence MFE -29.64
Consensus MFE -25.90
Energy contribution -26.07
Covariance contribution 0.17
Combinations/Pair 1.11
Mean z-score -2.56
Structure conservation index 0.87
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.81
SVM RNA-class probability 0.995474
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 13934351 82 - 27905053
ACCUGCGUCGGCCGGGAAUCGAACCCGGGUCAACUGCUUGGAAGGCAACUAUGCUAACCAUUACACCACCGACGCCGCAUAA--------------
....((((((((((((.......)))))..........(((..((((....))))..)))........))))))).......-------------- ( -28.10, z-score =  -2.11, R)
>droSim1.chr3R 19965873 82 + 27517382
ACCUGCGUCGGCCGGGAAUCGAACCCGGGUCAACUGCUUGGAAGGCAACUAUGCUAACCAUUACACCACCGACGCCGCAUAA--------------
....((((((((((((.......)))))..........(((..((((....))))..)))........))))))).......-------------- ( -28.10, z-score =  -2.11, R)
>droSec1.super_12 1891408 82 + 2123299
ACCUGCGUCGGCCGGGAAUCGAACCCGGGUCAACUGCUUGGAAGGCAACUAUGCUAACCAUUACACCACCGACGCCGCAUAA--------------
....((((((((((((.......)))))..........(((..((((....))))..)))........))))))).......-------------- ( -28.10, z-score =  -2.11, R)
>droYak2.chr3R 2531224 82 - 28832112
AAGUGCGUCGGCCGGGAAUCGAACCCGGGUCAACUGCUUGGAAGGCAACUAUGCUAACCAUUACACCACCGACGCCACAUAA--------------
..((((((((((((((.......)))))..........(((..((((....))))..)))........)))))).)))....-------------- ( -29.70, z-score =  -2.85, R)
>droEre2.scaffold_4770 10045337 82 + 17746568
AAGUGCGUCGGCCGGGAAUCGAACCCGGGUCAACUGCUUGGAAGGCAACUAUGCUAACCAUUACACCACCGACGCAACAUAA--------------
...(((((((((((((.......)))))..........(((..((((....))))..)))........))))))))......-------------- ( -29.90, z-score =  -3.16, R)
>droAna3.scaffold_13340 11907199 81 + 23697760
-ACUGCGUCGGCCGGGAAUCGAACCCGGGUCAACUGCUUGGAAGGCAACUAUGCUAACCAUUACACCACCGACGCCACAUAA--------------
-...((((((((((((.......)))))..........(((..((((....))))..)))........))))))).......-------------- ( -28.10, z-score =  -2.85, R)
>dp4.chr3 4489168 82 + 19779522
UUGUGCGUCGGCCGGGAAUCGAACCCGGAUCAACUGCUUGGAAGGCAACUAUGCUGACCAUUACACCACCGACGCCACUUGA--------------
.((.((((((((((((.......)))))..........(((..((((....))))..)))........))))))))).....-------------- ( -29.90, z-score =  -3.29, R)
>droPer1.super_4 3761212 82 - 7162766
UUGUGCGUCGGCCGGGAAUCGAACCCGGAUCAACUGCUUGGAAGGCAACUAUGCUGACCAUUACACCACCGACGCCACUUGA--------------
.((.((((((((((((.......)))))..........(((..((((....))))..)))........))))))))).....-------------- ( -29.90, z-score =  -3.29, R)
>droWil1.scaffold_181096 7895064 81 + 12416693
GUAUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCUUGGCGGGCGAGCAUUCU-ACCUCUGAACCACCGAUGCUAUAUAU--------------
((((((((((((((((.......)))))(((((((((...))))))).)).....-............))))))).))))..-------------- ( -39.40, z-score =  -3.97, R)
>droMoj3.scaffold_6500 9161665 95 + 32352404
UUCUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCU-ACCACUGAACCACCGAUGCUUUCUUGCGGAAGGCGUCCAA
.......(((((((((.......)))))((((((.((...)).)))).)).....-....))))......(((((((((.....)))))))))... ( -34.70, z-score =  -0.17, R)
>droGri2.scaffold_15245 14882096 82 + 18325388
UUGUGCGUCGGCCGGGAAUCGAACCCGGAUCAACUGCUUGGAAGGCAACUAUGCUGACCAUUACACCACCGACGCCACAUGA--------------
.(((((((((((((((.......)))))..........(((..((((....))))..)))........)))))).))))...-------------- ( -31.00, z-score =  -3.53, R)
>droVir3.scaffold_12875 10314205 68 + 20611582
--------CGGCCGGGAAUCGAACCCGGAUCAACUGCUUGGAAGGCAACUAUGCUGACCAUUACACCACCGACGCC--------------------
--------((((((((.......)))))..........(((..((((....))))..)))........))).....-------------------- ( -18.80, z-score =  -1.43, R)
>anoGam1.chr2L 4571866 81 + 48795086
UCGUGCGUCGGCCGGGAAUCGAACCCGGAUCAACUGCUUGGAAGGCAACUAUGCUGACCAUUACACCACCGACGCC-CAUGU--------------
..(.((((((((((((.......)))))..........(((..((((....))))..)))........))))))).-)....-------------- ( -29.60, z-score =  -2.43, R)
>consensus
AUGUGCGUCGGCCGGGAAUCGAACCCGGGUCAACUGCUUGGAAGGCAACUAUGCUAACCAUUACACCACCGACGCCACAUAA______________
....((((((((((((.......)))))..........(((..((((....))))..)))........)))))))..................... (-25.90 = -26.07 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:24:29 2011