Locus 4869

Sequence ID dm3.chr2R
Location 16,101,416 – 16,101,513
Length 97
Max. P 0.955915
window6696 window6697

overview

Window 6

Location 16,101,416 – 16,101,513
Length 97
Sequences 9
Columns 110
Reading direction forward
Mean pairwise identity 70.25
Shannon entropy 0.57837
G+C content 0.54924
Mean single sequence MFE -34.42
Consensus MFE -16.86
Energy contribution -17.26
Covariance contribution 0.40
Combinations/Pair 1.15
Mean z-score -1.73
Structure conservation index 0.49
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.62
SVM RNA-class probability 0.955915
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 16101416 97 + 21146708
---------UCUUUCGACCCGAAUGGGACUCGAACCGACAUGGUGGUUAACGCCAGUUGUC----UGGAUGCCCUGACAUGGGUGCAACACCCAGGCGUGGCAAGGGAUA
---------...((((((((....)))..)))))(((((((((((.....)))))..))))----....((((.((...((((((...))))))..)).)))).)).... ( -36.20, z-score =  -1.21, R)
>droSim1.chr2R 14760269 97 + 19596830
---------UCUUUCGACCCGAAUGGGACUCGAACCGACCUGGUGGUUAACGCCAGUUGUC----UGGGUGCACUGACAUGGGUGCAACACCCAGGCGUGGAAAGGGAUA
---------...((((((((....)))..)))))((...((((((.....))))))..(((----((((((((((......)))))...)))))))).......)).... ( -38.30, z-score =  -1.73, R)
>droSec1.super_1 13662011 97 + 14215200
---------UCUUUCGACCCGAAUGGGACUCGAACCGACCUGGUGGUUAACGCCAGUUGUC----UGGGUGCACUGACAUGGGUGCAACACCCAGGCGUGGAAAGGGAUA
---------...((((((((....)))..)))))((...((((((.....))))))..(((----((((((((((......)))))...)))))))).......)).... ( -38.30, z-score =  -1.73, R)
>droYak2.chr2R 8036522 97 - 21139217
---------UCUUCCACUUCGAAUGCGACUCGAUCCGACCUGGUGGUUAACGCCAGUUGUC----UGAGUGCCCUGACAUGGGUGCAACACCCAGACUUGGAAAGGGAUU
---------..((((...((((.......))))(((((.((((((.....))))))..(((----((.(..(((......)))..)......))))))))))..)))).. ( -32.70, z-score =  -1.46, R)
>droEre2.scaffold_4845 10251745 97 + 22589142
---------UCCCUCGCUGCGAAUGGGACUCGAUCCGACCUGGUGGUUAACGCCAGUUGUC----UGGGUGCCCUGACAUGGGUGCAACACCCAGGCGUGGCAGGGGAUU
---------((((..((..((..((((.......(((((((((((.....))))))..)))----.))(..(((......)))..)....))))..))..))..)))).. ( -49.70, z-score =  -3.42, R)
>droAna3.scaffold_13266 10644299 108 - 19884421
CCAGAACCGAACCGAAACCCAACGAUGGCAGAGACUUUCUU--UCUUUAACGCCAGUUGUCAGUUUGGGGUAAAUGAUAUGGGUGCAACACCCAGGCGUGGAAAGGGAGA
..................(((....)))......((..(((--(((...(((((...(((((.((......)).)))))((((((...)))))))))))))))))..)). ( -30.50, z-score =  -0.40, R)
>dp4.chr3 13238177 75 + 19779522
-----------------------------UCGCUCCGACCUGGUGGUUAACGCCAGAUGUC------AAAGACCUGACAUGGGUGUAACACCCAGGCGUGGAAAGGGUUU
-----------------------------((..((((.(((((..((((.((((..(((((------(......)))))).))))))))..)))))..))))..)).... ( -29.60, z-score =  -2.29, R)
>droPer1.super_2 650588 75 - 9036312
-----------------------------UCGCUCCGACCUGGUGGUUAACGCCAGAUGUC------AAAGACCUGACAUGGGUGUAACACCCAGGCGUGGAAAGGGUUU
-----------------------------((..((((.(((((..((((.((((..(((((------(......)))))).))))))))..)))))..))))..)).... ( -29.60, z-score =  -2.29, R)
>droWil1.scaffold_180701 2588454 85 + 3904529
---------UCUUCUUCUUCUGCU----CUUUGGCGAACGU--UGGUUAACGCCAGUUGUC------AGAUCAUUGACAUGGGUGUAACACCCAGGCGUGGAAAGG----
---------........(((..(.----..(..((....))--..).....(((...((((------((....))))))((((((...))))))))))..)))...---- ( -24.90, z-score =  -1.00, R)
>consensus
_________UCUUUCGACCCGAAUGGGACUCGAACCGACCUGGUGGUUAACGCCAGUUGUC____UGGGUGCCCUGACAUGGGUGCAACACCCAGGCGUGGAAAGGGAUA
..................................(((((......))).(((((...((((..............))))((((((...))))))))))).....)).... (-16.86 = -17.26 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 16,101,416 – 16,101,513
Length 97
Sequences 9
Columns 110
Reading direction reverse
Mean pairwise identity 70.25
Shannon entropy 0.57837
G+C content 0.54924
Mean single sequence MFE -29.43
Consensus MFE -15.28
Energy contribution -15.41
Covariance contribution 0.12
Combinations/Pair 1.07
Mean z-score -1.12
Structure conservation index 0.52
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.68
SVM RNA-class probability 0.785917
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 16101416 97 - 21146708
UAUCCCUUGCCACGCCUGGGUGUUGCACCCAUGUCAGGGCAUCCA----GACAACUGGCGUUAACCACCAUGUCGGUUCGAGUCCCAUUCGGGUCGAAAGA---------
...(((.((((..((.((((((...)))))).))...))))....----((((((((((((........)))))))))...)))......)))((....))--------- ( -31.60, z-score =  -0.59, R)
>droSim1.chr2R 14760269 97 - 19596830
UAUCCCUUUCCACGCCUGGGUGUUGCACCCAUGUCAGUGCACCCA----GACAACUGGCGUUAACCACCAGGUCGGUUCGAGUCCCAUUCGGGUCGAAAGA---------
.....(((((...((((((..(((((((........))))(((((----(....)))).)).)))..)))))).((..(((((...)))))..))))))).--------- ( -32.50, z-score =  -1.37, R)
>droSec1.super_1 13662011 97 - 14215200
UAUCCCUUUCCACGCCUGGGUGUUGCACCCAUGUCAGUGCACCCA----GACAACUGGCGUUAACCACCAGGUCGGUUCGAGUCCCAUUCGGGUCGAAAGA---------
.....(((((...((((((..(((((((........))))(((((----(....)))).)).)))..)))))).((..(((((...)))))..))))))).--------- ( -32.50, z-score =  -1.37, R)
>droYak2.chr2R 8036522 97 + 21139217
AAUCCCUUUCCAAGUCUGGGUGUUGCACCCAUGUCAGGGCACUCA----GACAACUGGCGUUAACCACCAGGUCGGAUCGAGUCGCAUUCGAAGUGGAAGA---------
..(((((.(((..(((((((((.....(((......)))))))))----)))..((((.(.....).))))...)))((((((...)))))))).)))...--------- ( -32.60, z-score =  -1.22, R)
>droEre2.scaffold_4845 10251745 97 - 22589142
AAUCCCCUGCCACGCCUGGGUGUUGCACCCAUGUCAGGGCACCCA----GACAACUGGCGUUAACCACCAGGUCGGAUCGAGUCCCAUUCGCAGCGAGGGA---------
..((((((((...((((((..((((.(((((((((.((....)).----))))..))).))))))..)))))).((((...)))).....))))...))))--------- ( -35.60, z-score =  -0.66, R)
>droAna3.scaffold_13266 10644299 108 + 19884421
UCUCCCUUUCCACGCCUGGGUGUUGCACCCAUAUCAUUUACCCCAAACUGACAACUGGCGUUAAAGA--AAGAAAGUCUCUGCCAUCGUUGGGUUUCGGUUCGGUUCUGG
.........(((.(((((((((...))))))..............((((((...(..(((....(((--.........))).....)))..)...)))))).)))..))) ( -24.80, z-score =   0.54, R)
>dp4.chr3 13238177 75 - 19779522
AAACCCUUUCCACGCCUGGGUGUUACACCCAUGUCAGGUCUUU------GACAUCUGGCGUUAACCACCAGGUCGGAGCGA-----------------------------
.....(.((((..((((((..((((.(((((((((((....))------))))..))).))))))..)))))).)))).).----------------------------- ( -25.10, z-score =  -1.56, R)
>droPer1.super_2 650588 75 + 9036312
AAACCCUUUCCACGCCUGGGUGUUACACCCAUGUCAGGUCUUU------GACAUCUGGCGUUAACCACCAGGUCGGAGCGA-----------------------------
.....(.((((..((((((..((((.(((((((((((....))------))))..))).))))))..)))))).)))).).----------------------------- ( -25.10, z-score =  -1.56, R)
>droWil1.scaffold_180701 2588454 85 - 3904529
----CCUUUCCACGCCUGGGUGUUACACCCAUGUCAAUGAUCU------GACAACUGGCGUUAACCA--ACGUUCGCCAAAG----AGCAGAAGAAGAAGA---------
----.((((..(((((((((((...))))))(((((......)------))))...)))))......--..((((......)----))).)))).......--------- ( -25.10, z-score =  -2.33, R)
>consensus
AAUCCCUUUCCACGCCUGGGUGUUGCACCCAUGUCAGGGCACCCA____GACAACUGGCGUUAACCACCAGGUCGGAUCGAGUCCCAUUCGGGUCGAAAGA_________
...........(((((((((((...))))))((((..............))))...)))))................................................. (-15.28 = -15.41 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:37:38 2011