Locus 14629

Sequence ID dm3.chrX
Location 14,468,385 – 14,468,500
Length 115
Max. P 0.975110
window20144 window20145

overview

Window 4

Location 14,468,385 – 14,468,484
Length 99
Sequences 7
Columns 99
Reading direction forward
Mean pairwise identity 78.92
Shannon entropy 0.43428
G+C content 0.48771
Mean single sequence MFE -20.62
Consensus MFE -16.26
Energy contribution -16.86
Covariance contribution 0.59
Combinations/Pair 1.05
Mean z-score -0.71
Structure conservation index 0.79
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.23
SVM RNA-class probability 0.602833
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 14468385 99 + 22422827
AGAAACUUGCCAAAUUGUUGUUGAAGCGCUGUCGAAACUUUUUAAUUUUGACGCCUUGGCAGGUGGUGUUUUGAACCCCCCGCCCUCCAAUCCCCUCCC
....(((((((((...(((.....)))((.(((((((........))))))))).)))))))))((((............))))............... ( -22.60, z-score =  -1.54, R)
>droSim1.chrX 11148683 90 + 17042790
AGAAACUUGCCAAAUUGUUGUUGAAGCGCUGUCGAAACUUUUUAAUUUUGACGCCUUGGCAGGCGUCCCUGCCC-UCCCACCCUCCCUCCC--------
.((..((((((((...(((.....)))((.(((((((........))))))))).))))))))..)).......-................-------- ( -20.40, z-score =  -1.92, R)
>droSec1.super_20 1060096 91 + 1148123
AGAAACUUGCCAAAUUGUUGUUGAAGCGCUGUCGAAACUUUUUAAUUUUGACGCCUUGGCAGGUGGUGUUUUGGAUCCCCCCCCCCCCCCC--------
....(((((((((...(((.....)))((.(((((((........))))))))).)))))))))((......((......))......)).-------- ( -21.10, z-score =  -1.22, R)
>droYak2.chrX 8702958 91 + 21770863
AGAAACUUGCCAAAUUGUUGUUGAAGCGCUGUCGAAACUUUUUAAUUUUGACGCCUUGGCAGGUGGUGUUUUGUAUCCCCCCGCCACUCCG--------
....(((((((((...(((.....)))((.(((((((........))))))))).)))))))))((((.............))))......-------- ( -23.42, z-score =  -1.75, R)
>droEre2.scaffold_4690 6244905 90 - 18748788
AGGAACUUGCCAAAUUGUUGUUGAAGCGCUGUUCAAACUUUUUAAUUUUGACGCCUUGGCAGGUGCUGCUGUGCAUCCCCGCCUCGCUGC---------
.((((((((((((..(((((((((((.(.........).)))))))...))))..)))))))))((......)).)))............--------- ( -19.70, z-score =   1.27, R)
>droAna3.scaffold_13248 2188984 80 + 4840945
AGAAACUUGCCAAAUUGUUGUUGAAGCGCUGUCGAAACUUUUUAAUUUUGACGCCUUGCCAGGUGGUGUUCUACAGCCCC-------------------
................(((((.(((.(((((((((((........)))))))((((....))))))))))).)))))...------------------- ( -18.80, z-score =  -0.94, R)
>droWil1.scaffold_180588 251918 96 + 1294757
AGAAACUUGCAAAAUUGUUGUUGAAGCACAGUCGAAACUUUAUAAUUUUGACGCCUUGGCAGGUGGCAAGUCUAACCCGCAGCACCAGCCCCAGAG---
....((((((.....((((.....))))..(((((((........)))))))......))))))(((..((((.......)).))..)))......--- ( -18.30, z-score =   1.11, R)
>consensus
AGAAACUUGCCAAAUUGUUGUUGAAGCGCUGUCGAAACUUUUUAAUUUUGACGCCUUGGCAGGUGGUGUUUUGCAUCCCCCCCCCCCUCCC________
....(((((((((...(((.....)))((.(((((((........))))))))).)))))))))................................... (-16.26 = -16.86 +   0.59)

alignment

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secondary structure

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dotplot

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Window 5

Location 14,468,408 – 14,468,500
Length 92
Sequences 5
Columns 96
Reading direction forward
Mean pairwise identity 67.96
Shannon entropy 0.54313
G+C content 0.55507
Mean single sequence MFE -18.74
Consensus MFE -11.26
Energy contribution -11.14
Covariance contribution -0.12
Combinations/Pair 1.15
Mean z-score -1.64
Structure conservation index 0.60
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.92
SVM RNA-class probability 0.975110
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 14468408 92 + 22422827
AAGCGCUGUCGAAACUUUUUAAUUUUGACGCCUUGGCAGGUGGUGUUUUGAACCCCCCGCCCUCCAAUC----CCCUCCCCUCGUCGACUCCCACC
(((.((.(((((((........))))))))))))(((.((.(((.......))).)).)))........----....................... ( -19.20, z-score =  -1.15, R)
>droSim1.chrX 11148706 77 + 17042790
AAGCGCUGUCGAAACUUUUUAAUUUUGACGCCUUGGCAGGCGUC--CCUGCCCUCCCACCCUCCCUCCC----CUCUCCUACC-------------
(((.((.(((((((........))))))))))))((((((....--)))))).................----..........------------- ( -18.40, z-score =  -3.83, R)
>droSec1.super_20 1060119 78 + 1148123
AAGCGCUGUCGAAACUUUUUAAUUUUGACGCCUUGGCAGGUGGUGUUUUGGAUCCCCC-CCCCCCCCCC----CUCUCUUACC-------------
(((.((.(((((((........))))))))))))((.(((.((......((......)-)......)))----)).)).....------------- ( -14.20, z-score =   0.05, R)
>droYak2.chrX 8702981 81 + 21770863
AAGCGCUGUCGAAACUUUUUAAUUUUGACGCCUUGGCAGGUGGUGUUUUGUAUCCCCC-CGCCACUCCG----CCCACCUACCACC----------
(((.((.(((((((........))))))))))))(((.(((((((.............-)))))))..)----))...........---------- ( -21.12, z-score =  -2.16, R)
>droWil1.scaffold_180588 251941 96 + 1294757
AAGCACAGUCGAAACUUUAUAAUUUUGACGCCUUGGCAGGUGGCAAGUCUAACCCGCAGCACCAGCCCCAGAGCAACACCAUCAGCAACACCCACC
..((...(((((((........)))))))((((.(((.((((((...........))..)))).)))..)).))..........)).......... ( -20.80, z-score =  -1.11, R)
>consensus
AAGCGCUGUCGAAACUUUUUAAUUUUGACGCCUUGGCAGGUGGUGUUUUGAACCCCCC_CCCCCCCCCC____CCCUCCUACC__C__________
...(((((((((((........)))))))((....)).))))...................................................... (-11.26 = -11.14 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:43:48 2011