Locus 4574

Sequence ID dm3.chr2R
Location 14,178,705 – 14,178,795
Length 90
Max. P 0.886759
window6270 window6271

overview

Window 0

Location 14,178,705 – 14,178,795
Length 90
Sequences 5
Columns 93
Reading direction forward
Mean pairwise identity 94.07
Shannon entropy 0.10470
G+C content 0.49791
Mean single sequence MFE -12.38
Consensus MFE -11.07
Energy contribution -11.27
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.48
Structure conservation index 0.89
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.25
SVM RNA-class probability 0.612475
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 14178705 90 + 21146708
AUUUCAGUUCCCAUGGCAAUCAUCUUUU-AUUCGCCACUGAGCCCCCUUCACUCGGACACCGUAUAAUCCGCUAUUACGCACUCCACACAC--
......((((...(((((((........-))).))))..))))...........(((...((((...........))))...)))......-- ( -12.40, z-score =  -1.68, R)
>droSim1.chr2R 12915145 90 + 19596830
AUUUCAGUUCCCAUGGCAAUCAUCUUUU-AUUCGCCACUGAGCCCCCUUCACUCGGACACCGUAUAAUCCGCUAUUACGCACUCCACACAC--
......((((...(((((((........-))).))))..))))...........(((...((((...........))))...)))......-- ( -12.40, z-score =  -1.68, R)
>droSec1.super_1 11668565 90 + 14215200
AUUUCAGUUCCCAUGGCAAUCAUCUUUU-AUUCGCCACUGAGCCCCCUUCACUCGGACACCGUAUAAUCCGCUAUUACGCACUCCACACAC--
......((((...(((((((........-))).))))..))))...........(((...((((...........))))...)))......-- ( -12.40, z-score =  -1.68, R)
>droYak2.chr2R 6136574 87 - 21139217
-----AGUUCCCAUGGCAAUCAUCUUUUCAUUCGCCACUGAGCCCC-UUCACUCGGACACCAUAUAAUCCGCUAUUACGCACUCCACACGCCG
-----.........(((....................(((((....-....)))))..............((......)).........))). ( -12.30, z-score =  -1.41, R)
>droEre2.scaffold_4845 8399636 89 + 22589142
UUUCCAGUUCCCAUGGCAAUCAUCUUUU-AUUCGCCACUGAGCCCC-UUCACUCGGACACCGUAUAAUCCGCUAUUACGCACUCCACACGC--
......((((...(((((((........-))).))))..))))...-.......(((...((((...........))))...)))......-- ( -12.40, z-score =  -0.93, R)
>consensus
AUUUCAGUUCCCAUGGCAAUCAUCUUUU_AUUCGCCACUGAGCCCCCUUCACUCGGACACCGUAUAAUCCGCUAUUACGCACUCCACACAC__
......((((...((((................))))..))))...........(((...((((...........))))...)))........ (-11.07 = -11.27 +   0.20)

alignment

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secondary structure

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dotplot

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Window 1

Location 14,178,705 – 14,178,795
Length 90
Sequences 5
Columns 93
Reading direction reverse
Mean pairwise identity 94.07
Shannon entropy 0.10470
G+C content 0.49791
Mean single sequence MFE -23.50
Consensus MFE -22.46
Energy contribution -22.30
Covariance contribution -0.16
Combinations/Pair 1.04
Mean z-score -1.53
Structure conservation index 0.96
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.08
SVM RNA-class probability 0.886759
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 14178705 90 - 21146708
--GUGUGUGGAGUGCGUAAUAGCGGAUUAUACGGUGUCCGAGUGAAGGGGGCUCAGUGGCGAAU-AAAAGAUGAUUGCCAUGGGAACUGAAAU
--..((((((..(((......)))..))))))(((..((((((.......)))).(((((((.(-(.....)).)))))))))..)))..... ( -23.20, z-score =  -1.63, R)
>droSim1.chr2R 12915145 90 - 19596830
--GUGUGUGGAGUGCGUAAUAGCGGAUUAUACGGUGUCCGAGUGAAGGGGGCUCAGUGGCGAAU-AAAAGAUGAUUGCCAUGGGAACUGAAAU
--..((((((..(((......)))..))))))(((..((((((.......)))).(((((((.(-(.....)).)))))))))..)))..... ( -23.20, z-score =  -1.63, R)
>droSec1.super_1 11668565 90 - 14215200
--GUGUGUGGAGUGCGUAAUAGCGGAUUAUACGGUGUCCGAGUGAAGGGGGCUCAGUGGCGAAU-AAAAGAUGAUUGCCAUGGGAACUGAAAU
--..((((((..(((......)))..))))))(((..((((((.......)))).(((((((.(-(.....)).)))))))))..)))..... ( -23.20, z-score =  -1.63, R)
>droYak2.chr2R 6136574 87 + 21139217
CGGCGUGUGGAGUGCGUAAUAGCGGAUUAUAUGGUGUCCGAGUGAA-GGGGCUCAGUGGCGAAUGAAAAGAUGAUUGCCAUGGGAACU-----
((.(((((((..(((......)))..))))))).))(((((((...-...)))).(((((((............))))))).)))...----- ( -23.40, z-score =  -1.26, R)
>droEre2.scaffold_4845 8399636 89 - 22589142
--GCGUGUGGAGUGCGUAAUAGCGGAUUAUACGGUGUCCGAGUGAA-GGGGCUCAGUGGCGAAU-AAAAGAUGAUUGCCAUGGGAACUGGAAA
--.(((((((..(((......)))..)))))))((..((((((...-...)))).(((((((.(-(.....)).)))))))))..))...... ( -24.50, z-score =  -1.51, R)
>consensus
__GUGUGUGGAGUGCGUAAUAGCGGAUUAUACGGUGUCCGAGUGAAGGGGGCUCAGUGGCGAAU_AAAAGAUGAUUGCCAUGGGAACUGAAAU
....((((((..(((......)))..))))))(((..((((((.......)))).(((((((............)))))))))..)))..... (-22.46 = -22.30 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:31:48 2011