Locus 14816

Sequence ID dm3.chrX
Location 15,690,044 – 15,690,187
Length 143
Max. P 0.713857
window20398 window20399

overview

Window 8

Location 15,690,044 – 15,690,187
Length 143
Sequences 4
Columns 144
Reading direction forward
Mean pairwise identity 64.05
Shannon entropy 0.57198
G+C content 0.46494
Mean single sequence MFE -33.60
Consensus MFE -10.16
Energy contribution -9.97
Covariance contribution -0.19
Combinations/Pair 1.38
Mean z-score -2.21
Structure conservation index 0.30
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.48
SVM RNA-class probability 0.713857
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 15690044 143 + 22422827
CUGCACUGACGAUACCUGACCGAGGCCGAUAGACCUUUACCCUAUCGGUAAAUA-GCUGCCUGUAUAACAGCCCGUCUCCACCGGACCAAAGUCCACGCUCGCGUUCGAUAACUAUCGAGUUAGGUGAAAAAUCUCGGAUCUCA
.....((((.((((((((((((((((((((((.........)))))))).....-((((.........))))...........((((....))))...))))...(((((....)))))))))))).....)))))))...... ( -40.00, z-score =  -1.80, R)
>droSec1.super_37 273997 128 + 454039
UUGCAAUGACGAUACCUGACCGAGGCCGAUAGACCUGGAACUCAUAGGGAAAAGUGUUUCCUGCGUA-CAGGUAUUAUACAUAAGGUUAUGUUUCAUACUCAUACGCAGGAAUCACUCGACCAUAUGAA---------------
...................((.(((.(....).)))))...(((((.((...((((.((((((((((-..(((((...(((((....)))))...)))))..)))))))))).))))...)).))))).--------------- ( -40.40, z-score =  -3.49, R)
>droYak2.chrX 9892934 131 + 21770863
UUGCAAUGACGAUACCUGACCGAGGCCGAUAGACCUUUACCCUAUCGGAAAAUA-GCUGUCUCCAUAACAACCCGUUUCCACCGGACCAGAGUCCAUACUCCCGUUCGAUUAUCAUCGACUAAUACCGAAAA------------
......(((.((((..(((.((.(((((((((.........)))))(((((...-(.(((.......))).)...)))))...)).)).((((....)))).)).)))..)))).)))..............------------ ( -24.70, z-score =  -0.83, R)
>droEre2.scaffold_4690 7399855 121 - 18748788
UUGCAAUGACGAUACCUGUCCGAGACCGAUAGACCUUUACCCUAUCGGAAAAUA-GCUGUCUGCAUAAUAACCCGUCUCCACCGGAC------------UUGUGUUCGAUUACUAUUGAGUAAUGCCAAUCACA----------
..((.....((((((..(((((...(((((((.........)))))))......-((.....))..................)))))------------..))).)))((((((....))))))))........---------- ( -29.30, z-score =  -2.72, R)
>consensus
UUGCAAUGACGAUACCUGACCGAGGCCGAUAGACCUUUACCCUAUCGGAAAAUA_GCUGCCUGCAUAACAACCCGUCUCCACCGGACCA_AGUCCAUACUCGCGUUCGAUAACCAUCGAGUAAUACCAAAAA____________
.((((.........(((.....)))(((((((.........))))))).............)))).......(((.......)))....................((((......))))......................... (-10.16 =  -9.97 +  -0.19)

alignment

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secondary structure

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dotplot

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Window 9

Location 15,690,044 – 15,690,187
Length 143
Sequences 4
Columns 144
Reading direction reverse
Mean pairwise identity 64.05
Shannon entropy 0.57198
G+C content 0.46494
Mean single sequence MFE -42.15
Consensus MFE -11.61
Energy contribution -11.42
Covariance contribution -0.19
Combinations/Pair 1.48
Mean z-score -2.23
Structure conservation index 0.28
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.27
SVM RNA-class probability 0.623538
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 15690044 143 - 22422827
UGAGAUCCGAGAUUUUUCACCUAACUCGAUAGUUAUCGAACGCGAGCGUGGACUUUGGUCCGGUGGAGACGGGCUGUUAUACAGGCAGC-UAUUUACCGAUAGGGUAAAGGUCUAUCGGCCUCGGUCAGGUAUCGUCAGUGCAG
...((.(((((..((((((((...((((...(((....))).))))...((((....))))))))))))..(((((((.....))))))-).....((((((((.......)))))))).)))))))..((((.....)))).. ( -48.70, z-score =  -1.45, R)
>droSec1.super_37 273997 128 - 454039
---------------UUCAUAUGGUCGAGUGAUUCCUGCGUAUGAGUAUGAAACAUAACCUUAUGUAUAAUACCUG-UACGCAGGAAACACUUUUCCCUAUGAGUUCCAGGUCUAUCGGCCUCGGUCAGGUAUCGUCAUUGCAA
---------------((((((.((..(((((.(((((((((((..((((...(((((....)))))...))))..)-)))))))))).)))))..)).))))))..(((((((....))))).))....(((.......))).. ( -48.00, z-score =  -5.42, R)
>droYak2.chrX 9892934 131 - 21770863
------------UUUUCGGUAUUAGUCGAUGAUAAUCGAACGGGAGUAUGGACUCUGGUCCGGUGGAAACGGGUUGUUAUGGAGACAGC-UAUUUUCCGAUAGGGUAAAGGUCUAUCGGCCUCGGUCAGGUAUCGUCAUUGCAA
------------...............(((((((...((.((((.((((((((..(..(((..((((((..(((((((.....))))))-)..))))))...)))..)..))))))..)))))).))...)))))))....... ( -40.60, z-score =  -1.32, R)
>droEre2.scaffold_4690 7399855 121 + 18748788
----------UGUGAUUGGCAUUACUCAAUAGUAAUCGAACACAA------------GUCCGGUGGAGACGGGUUAUUAUGCAGACAGC-UAUUUUCCGAUAGGGUAAAGGUCUAUCGGUCUCGGACAGGUAUCGUCAUUGCAA
----------((..((.(((((((((....)))))).((..((..------------((((....((((((((..((...((.....))-.))..)))((((((.......)))))).)))))))))..)).)))))))..)). ( -31.30, z-score =  -0.74, R)
>consensus
____________UUUUUCACAUUACUCAAUAAUAAUCGAACACGAGUAUGGACU_UGGUCCGGUGGAGACGGGCUGUUAUGCAGACAGC_UAUUUUCCGAUAGGGUAAAGGUCUAUCGGCCUCGGUCAGGUAUCGUCAUUGCAA
.....................(((((....))))).....................((((((.......))))))........(((..........((((((((.......))))))))(((.....)))....)))....... (-11.61 = -11.42 +  -0.19)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:47:20 2011