Locus 7902

Sequence ID dm3.chr3L
Location 18,362,326 – 18,362,422
Length 96
Max. P 0.923524
window10876 window10877

overview

Window 6

Location 18,362,326 – 18,362,417
Length 91
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 65.32
Shannon entropy 0.60184
G+C content 0.43967
Mean single sequence MFE -21.82
Consensus MFE -9.90
Energy contribution -11.07
Covariance contribution 1.17
Combinations/Pair 1.00
Mean z-score -1.63
Structure conservation index 0.45
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.28
SVM RNA-class probability 0.920053
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr3L 18362326 91 - 24543557
--UUCGCUCCUCAUUUUUCC--CUUUGUUUGUUUU-CCUUUUAGUCAAAUGC-----CGCGCUAAGCUGCCAAAGUGCCGCAUUUGUCUGAAUGAUUUUUU---------------
--..................--............(-(..(((((.(((((((-----.(((((..........))))).))))))).))))).))......--------------- ( -20.10, z-score =  -3.14, R)
>droEre2.scaffold_4784 10232763 89 + 25762168
--UUCGCUCCUCA-UUUUCC--CUUUGUUUGUUUU-CC-UUUAGUCAAAUGC-----CGCGCUAAGCUGCCAAAGUGCCGCAUUUGUCUGAAUGCUUUUUU---------------
--...........-......--.............-..-(((((.(((((((-----.(((((..........))))).))))))).))))).........--------------- ( -19.70, z-score =  -2.94, R)
>dp4.chrXR_group6 11255746 109 - 13314419
CUCCCACUACGCCGCCCCAGAACCGUGUUUGUUUU-CCUUUUAGCCAAAUGC-----CGCGCUAAGCUGCCAAAGUGCCGCAUUUGUCUGACGGGUUUUCCGCUGCUUUUCUUUU-
..........((.((..((((......))))....-(((.((((.(((((((-----.(((((..........))))).))))))).)))).)))......)).)).........- ( -26.10, z-score =  -0.98, R)
>droPer1.super_20 1156255 110 - 1872136
CUCCCACUACGCCGCCCCAGAAUCGUGUUUGUUUU-CCUUUUAGCCAAAUGC-----CGCGCUAAGCUGCCAAAGUGCCGCAUUUGUCUGACGGUUUUUCCGCUGCUUUUUUUUUC
..........((.((...((((((((.........-.....(((.(((((((-----.(((((..........))))).))))))).)))))))))))...)).)).......... ( -25.43, z-score =  -1.76, R)
>droWil1.scaffold_180949 5847532 102 + 6375548
--UUCCCUUUUUUUUUGUUG--GUUUGUUUGUUUUUCUUUUUAGCCAAAUGCUGCUUUGCGCUAAGCUGCCAAAGUGGCGCAUUUGUCUGAAUGUUUUGAUUAAAA----------
--...............(((--(((.....(.....).....))))))..((..(((((.((......)))))))..))((((((....))))))...........---------- ( -21.90, z-score =  -1.22, R)
>droVir3.scaffold_13049 3682945 77 + 25233164
---CAGCAAUUUUUUUCCGG--CUUUGUUUGUUUU--CUUUUCGACAAAUGCUGC--UGCGCUAAGCUGCCAAAGUGGCGCAUUUU------------------------------
---...............((--(..((((((((..--......))))))))..))--)(((((..(((.....)))))))).....------------------------------ ( -17.70, z-score =   0.23, R)
>consensus
__UCCGCUACUCAUUUCCAG__CUUUGUUUGUUUU_CCUUUUAGCCAAAUGC_____CGCGCUAAGCUGCCAAAGUGCCGCAUUUGUCUGAAUGUUUUUCU_______________
........................................((((.(((((((......(((((..........))))).))))))).))))......................... ( -9.90 = -11.07 +   1.17)

alignment

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secondary structure

Postscript

dotplot

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Window 7

Location 18,362,326 – 18,362,422
Length 96
Sequences 4
Columns 111
Reading direction reverse
Mean pairwise identity 75.88
Shannon entropy 0.36427
G+C content 0.47938
Mean single sequence MFE -23.91
Consensus MFE -19.70
Energy contribution -20.70
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.52
Structure conservation index 0.82
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.30
SVM RNA-class probability 0.923524
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr3L 18362326 96 - 24543557
CUGCUUUCGCUCCUCAUUUUUCC----CUUUGUUUGUUUUCCUUUUAGUCAAAUGCCGCGCUAAGCUGCCAAAGUGCCGCAUUUGUCUGAAUGAUUUUUU-----------
..((....)).............----............((..(((((.(((((((.(((((..........))))).))))))).))))).))......----------- ( -20.50, z-score =  -2.65, R)
>droEre2.scaffold_4784 10232763 94 + 25762168
CGGCUUUCGCUCCUCA-UUUUCC----CUUUGUUUGUUUUCC-UUUAGUCAAAUGCCGCGCUAAGCUGCCAAAGUGCCGCAUUUGUCUGAAUGCUUUUUU-----------
.(((....))).....-......----...............-(((((.(((((((.(((((..........))))).))))))).))))).........----------- ( -20.90, z-score =  -1.81, R)
>dp4.chrXR_group6 11255749 111 - 13314419
GGACUCUCCCACUACGCCGCCCCAGAACCGUGUUUGUUUUCCUUUUAGCCAAAUGCCGCGCUAAGCUGCCAAAGUGCCGCAUUUGUCUGACGGGUUUUCCGCUGCUUUUCU
(((....(((((.((((.(........).))))..)).......((((.(((((((.(((((..........))))).))))))).)))).)))...)))........... ( -27.70, z-score =  -0.63, R)
>droPer1.super_20 1156259 111 - 1872136
GGACUCUCCCACUACGCCGCCCCAGAAUCGUGUUUGUUUUCCUUUUAGCCAAAUGCCGCGCUAAGCUGCCAAAGUGCCGCAUUUGUCUGACGGUUUUUCCGCUGCUUUUUU
((......)).....((.((...((((((((..............(((.(((((((.(((((..........))))).))))))).)))))))))))...)).))...... ( -26.53, z-score =  -1.00, R)
>consensus
CGACUCUCCCACCACACCGCCCC____CCGUGUUUGUUUUCCUUUUAGCCAAAUGCCGCGCUAAGCUGCCAAAGUGCCGCAUUUGUCUGAAGGAUUUUCC___________
.........................................(((((((.(((((((.(((((..........))))).))))))).))))))).................. (-19.70 = -20.70 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:35:40 2011