Locus 8620

Sequence ID dm3.chr3RHet
Location 2,024,229 – 2,024,357
Length 128
Max. P 0.965395
window11836 window11837

overview

Window 6

Location 2,024,229 – 2,024,325
Length 96
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 64.00
Shannon entropy 0.63652
G+C content 0.43781
Mean single sequence MFE -28.28
Consensus MFE -17.10
Energy contribution -18.90
Covariance contribution 1.80
Combinations/Pair 1.55
Mean z-score -1.10
Structure conservation index 0.60
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.75
SVM RNA-class probability 0.965395
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3RHet 2024229 96 + 2517507
GGUUUAUUAUUCCUGUACUGUGAGAGUCUGG-------------UUCAAUUCGCUUAGGUAUACAAAAGCUGUCUGUGUGGGUAGCAGUUGACCAAAGACAAACAAACA--
.((((....((((......).))).((((((-------------(.(((((.(((....((((((.........))))))...)))))))))))..)))))))).....-- ( -17.90, z-score =   1.27, R)
>droSim1.chr2h_random 2114562 109 - 3178526
GGUUUAUUAUUCCUACACUCUGAGAAUCCGGGCUGCAUGAGCAGUCCAACUCGCUUAGGUAUGCAAAACCUGCCUGUGUGGGUGGCAGUUGACCAAAGACAGACCAACA--
(((((......(((((((((((((.....(((((((....)))))))......))))))...(((.....)))..)))))))((((....).))).....)))))....-- ( -35.10, z-score =  -1.38, R)
>droSec1.super_83 84317 111 - 109685
GGUUUACUAUUCCUAUACCGUGAGAAUGUGGGCUGCAUGAGCAGUCCAAUUCACUUGGGUAUGCAAAAGCUGCCUGUGUGGGUAGCAGUUGACCAAAGACAAACAACAAAA
((((.(((.(((((((((.(((((....((((((((....)))))))).)))))..(((((.((....)))))))))))))).)).))).))))................. ( -40.80, z-score =  -3.34, R)
>droYak2.chrU 7471682 109 + 28119190
GGUGUACUAUUCCUAUACUGUGAGAAACUGGGCUGCAUGAACAGUCCAAUUCGCUUAGGUAUGAAAAAGCUGUCCGUGUGGGCAGCAGUUGACCGAAGCCAAACAAACA--
(((..(((...((((....(((((....(((((((......))))))).))))).)))).........(((((((....))))))))))..)))...............-- ( -33.70, z-score =  -1.71, R)
>droAna3.scaffold_13417 3121590 84 - 6960332
--UUUCUUACGCUUCUAUAUCGAUGGAAGGGA------------------UUGCUCAUGUG-----GAGCUGUAGCUAUGUAUAAAACCCGAAACAAAA-AAACAAAUUC-
--((((...(.(((((((....))))))).).------------------..((((.....-----))))....................)))).....-..........- ( -13.90, z-score =  -0.35, R)
>consensus
GGUUUAUUAUUCCUAUACUGUGAGAAUCUGGGCUGCAUGA_CAGUCCAAUUCGCUUAGGUAUGCAAAAGCUGUCUGUGUGGGUAGCAGUUGACCAAAGACAAACAAACA__
((((.(((.....(((((((((((....((((((((....)))))))).)))))...)))))).....(((((((....)))))))))).))))................. (-17.10 = -18.90 +   1.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 2,024,257 – 2,024,357
Length 100
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 68.75
Shannon entropy 0.58915
G+C content 0.45232
Mean single sequence MFE -28.13
Consensus MFE -15.40
Energy contribution -15.77
Covariance contribution 0.37
Combinations/Pair 1.62
Mean z-score -0.94
Structure conservation index 0.55
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.67
SVM RNA-class probability 0.782428
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3RHet 2024257 100 + 2517507
-------------UGGUUCAAUUCGCUUAGGUAUACAAAAGCUGUCUGUGUGGGUAGCAGUUGACCAAAGACAAACAA--ACAAUAAAUGAAUACAAAGGCUGCAGCGUCGAAUG
-------------..((((.((((((((..(....)..))))(((((...(((...........))).))))).....--.........)))).....(((......))))))). ( -18.30, z-score =   0.75, R)
>droSim1.chr2h_random 2114590 113 - 3178526
CGGGCUGCAUGAGCAGUCCAACUCGCUUAGGUAUGCAAAACCUGCCUGUGUGGGUGGCAGUUGACCAAAGACAGACCA--ACAAUAAAUAUAGACAAAGGAUGCAGCGUCGAAUG
((((((((((((((((.....)).)))).(((.(((...(((..(....)..))).)))....)))............--....................))))))).))).... ( -31.70, z-score =  -0.53, R)
>droSec1.super_83 84345 115 - 109685
UGGGCUGCAUGAGCAGUCCAAUUCACUUGGGUAUGCAAAAGCUGCCUGUGUGGGUAGCAGUUGACCAAAGACAAACAACAAAAAAAAAUAAAGACAAAGACUGCAGCGUCGAAUG
((((((((....))))))))((((.(((.(((...(((..(((((((....)))))))..)))))).)))............................(((......))))))). ( -35.00, z-score =  -2.40, R)
>droYak2.chrU 7471710 113 + 28119190
UGGGCUGCAUGAACAGUCCAAUUCGCUUAGGUAUGAAAAAGCUGUCCGUGUGGGCAGCAGUUGACCGAAGCCAAACAA--ACAACAACUAAAGACAAAGGCUGCAGCGUCGAAUG
(((((((......)))))))((((((((.(((....((..(((((((....)))))))..)).))).)))).......--............(((....((....))))))))). ( -34.20, z-score =  -1.49, R)
>droEre2.scaffold_4929 25167561 113 + 26641161
CGGGCUGCAUGAGUGGUCCAAUUCGCUUAGGUAUGCAAAAGGUGCCUGUGUAGGUAGCAGUUGACCAAAGACGAACAA--ACAAUAAAUAAAGACAAAGGCUGCAGCGUCGAAUG
((((((((((((((((......)))))))(((...(((..(.(((((....))))).)..))))))............--.....................)))))).))).... ( -28.50, z-score =  -0.33, R)
>droAna3.scaffold_13417 3121618 88 - 6960332
------------------------GAUUGCUCAUGUGGA-GCUGUAGCUAUGUAUAAAACCCGAAACAAAA-AAACAA-AUUCAUGCUUGAAUUGCAUGCCCGCAGAGGUGAUUG
------------------------(((..((..((((((-((....)))......................-......-...(((((.......))))).)))))..))..))). ( -21.10, z-score =  -1.68, R)
>consensus
_GGGCUGCAUGAGCAGUCCAAUUCGCUUAGGUAUGCAAAAGCUGCCUGUGUGGGUAGCAGUUGACCAAAGACAAACAA__ACAAUAAAUAAAGACAAAGGCUGCAGCGUCGAAUG
.(((((((....)))))))......(((.(((...(((..(((((((....)))))))..)))))).)))............................(((......)))..... (-15.40 = -15.77 +   0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:48:59 2011