Locus 3844

Sequence ID dm3.chr2R
Location 8,309,796 – 8,309,891
Length 95
Max. P 0.947975
window5271

overview

Window 1

Location 8,309,796 – 8,309,891
Length 95
Sequences 11
Columns 109
Reading direction reverse
Mean pairwise identity 60.72
Shannon entropy 0.87525
G+C content 0.40653
Mean single sequence MFE -20.66
Consensus MFE -11.73
Energy contribution -11.55
Covariance contribution -0.19
Combinations/Pair 1.38
Mean z-score -0.32
Structure conservation index 0.57
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.54
SVM RNA-class probability 0.947975
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 8309796 95 - 21146708
UCAUCUUCAACAACAUGAAGAACUGGCCCAAGAAUGUGUGCCAGGUGAGC---------AAGGAUUCUCUUUAUUAAGUGUAUAUAUCAACAUAAACUUUCGUU-----
(((((((((......)))))).(((((.((......)).))))).)))..---------((((.....)))).....((((........))))...........----- ( -16.80, z-score =   0.04, R)
>droEre2.scaffold_4845 5109454 104 + 22589142
UCAUCUUCAAUAACAUGAGGAACUGGCCCCAGAAUGUGUGCCAGGUGAGUCUGUCCGGAAAUAAUUCCCUAUAUAAGAUGGAUAUAUCAACAUAAACUUCCCCU-----
...((((((......)))))).((((((.(.....).).))))).(((...(((((((((....))))((.....))..)))))..)))...............----- ( -21.40, z-score =  -0.11, R)
>droYak2.chr2R 12513305 104 + 21139217
UCAUCUUCAAUAACAUGAAGAACUGGCCCAAGAAUGUGUGCCAGGUGAGUCUGUGCGGAAACGAUUCCCUAUAUAUUUAGUAUAUAUCAACAAAUCCUGCUCCU-----
...((((((......)))))).(((((.((......)).)))))..((((.....((....))......(((((((...)))))))............))))..----- ( -22.60, z-score =  -1.26, R)
>droSec1.super_1 5857482 104 - 14215200
UCAUCUUCAACAACAUGAAGAACUGGCCCAAAAAUGUGUGCCAGGUGAGCCUGCCCGGAACGGAUUCUCUUUAUUCAGUGCAUAUAUCAGCAUAAACUUUCGUU-----
(((((((((......)))))).(((((.((......)).))))).))).......(((((.((((.......)))).((((........))))....)))))..----- ( -21.70, z-score =  -0.06, R)
>droSim1.chr2R 6787235 104 - 19596830
UCAUCUUCAACAACAUGAAGAACUGGCCCAAAAAUGUGUGCCAGGUGAGCCUGCCCGGAAUGGAUUCUCUUUAUUCAGUGCAUAUAUCAGCAUAAACUUUCGUU-----
...((((((......)))))).(((((.((......)).))))).(((...(((.(.(((((((.....))))))).).)))....)))...............----- ( -23.10, z-score =  -0.41, R)
>dp4.chr3 7528094 102 - 19779522
UCAUUUUCAAUACAAUGAAGAACUGGCCCAAGAACGUGUGCCAGGUAAGAGUUAGCUGAAAAGGAUCGUCCCGAAAAGACACACU--UAGAUUAUCCCUUCACU-----
...............(((((..(((((.((......)).))))).((((.((...((.....((......))....))..)).))--))........)))))..----- ( -18.60, z-score =  -0.05, R)
>droPer1.super_2 7722688 104 - 9036312
UCAUUUUCAAUACCAUGAAGAACUGGCCCAAGAACGUGUGCCAGGUAAGAGUUAGCUGAAAAGGAUCGUCCCGAAGAGACACACUUAUAGAUUAUCUCUUCACU-----
...............((((((.(((((.((......)).)))))(((((.((...((....))....(((.......))))).)))))........))))))..----- ( -21.20, z-score =  -0.34, R)
>droAna3.scaffold_13266 5613201 104 - 19884421
UUAUUUUCAACAACAUGCGAAACUGGCCAAAGAACGUCUGCCAGGUGUGUGUU--UUAAGGAGGAUGUCUUUAGAGAAAUCAGAUUGUGUAACCCUUCCUCAUCCU---
...........((((((((...(((((...((.....))))))).))))))))--.....(((((.((((...((....))))))...........))))).....--- ( -23.00, z-score =  -0.25, R)
>droWil1.scaffold_180700 4882562 103 - 6630534
UCAUAUUCAAUACCAUGAAAAAUUGGCCCAACAAUGUGUGCCAGGUA------AAUAGUGAUUGCGAUCUGCUUGCCGAUAAAGGAAUAAAAUAGUGAUUUCCUUCAAA
.....((((......))))....((((.((......)).))))((((------(.(((..........))).)))))....((((((............)))))).... ( -16.60, z-score =   0.39, R)
>droVir3.scaffold_12875 2470570 99 + 20611582
UCAUAUUCAAUACCAUGAGGAACUGGCCCAAAAAUGUGUGCCAGGUGAGUCCUGAAAAAAAAAACAGAAGGAAUGAGCUGAGCUGUUAACAACCUUUAU----------
...............(.((((.(((((.((......)).))))).....)))).)...........(((((....(((......))).....)))))..---------- ( -19.00, z-score =  -0.47, R)
>droMoj3.scaffold_6496 15104108 105 + 26866924
UCAUCUUCAAUACCAUGAAGAAUUGGCCCAAAAACGUGUGUCAGGUGCGU-GCAAACGAAAUAUCGUGCUGCCUGCUCAUGGAAGCUAAAAACUGUUAUUCAAAUG---
...((((((......)))))).(((((.......((((.(.(((((....-((..((((....)))))).)))))).))))...))))).................--- ( -23.30, z-score =  -0.98, R)
>consensus
UCAUCUUCAAUAACAUGAAGAACUGGCCCAAGAAUGUGUGCCAGGUGAGUCUGAACGGAAAAGAUUCUCUUUAUAAAGAGAAUAUAUCAAAAUAAACUUUCACU_____
...((((((......)))))).(((((.((......)).)))))................................................................. (-11.73 = -11.55 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:17:53 2011