Locus 4447

Sequence ID dm3.chr2R
Location 13,096,410 – 13,096,610
Length 200
Max. P 0.992886
window6089 window6090

overview

Window 9

Location 13,096,410 – 13,096,510
Length 100
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 88.68
Shannon entropy 0.21717
G+C content 0.46964
Mean single sequence MFE -23.36
Consensus MFE -12.00
Energy contribution -11.89
Covariance contribution -0.11
Combinations/Pair 1.09
Mean z-score -2.74
Structure conservation index 0.51
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.26
SVM RNA-class probability 0.619442
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 13096410 100 + 21146708
UAAAAAUUUAAAAACUGACUUUCGCUGACUGG---CACCCUCUUGCC----AGCCAUCAUCUCACCUUGCCACCCCCCCGGGGAGUCGUUAAUUUUUAUCACAUCUC
((((((((....(((.((((...(.((.((((---((......))))----)).)).)..............((((...)))))))))))))))))))......... ( -22.40, z-score =  -2.95, R)
>droSim1.chr2R 11827282 100 + 19596830
UAAAAAUUUAAAAACUGACUUUCGCUGACUGG---CACCCUCUUGCC----AGCCAUCAUCUCACCUUGCCACCCCCCCGGGGAGUCGUUAAUUUUUAUCACAUCUC
((((((((....(((.((((...(.((.((((---((......))))----)).)).)..............((((...)))))))))))))))))))......... ( -22.40, z-score =  -2.95, R)
>droSec1.super_1 10599918 100 + 14215200
UAAAAAUUUAAAAACUGACUUUCGCUGACUGG---CACCCUCUUGCC----AGCCAUCAUCUCACCUUGCCACCCCCCCGGGGAGUCGUUAAUUUUUAUCACAUCUC
((((((((....(((.((((...(.((.((((---((......))))----)).)).)..............((((...)))))))))))))))))))......... ( -22.40, z-score =  -2.95, R)
>droYak2.chr2R 2764925 107 - 21139217
UAAAAAUUUAAAAACUGACUUUCGCUGACUGGCGGCACCCUCUUGCCCUCCAGCCAUCAUCUCACCUUGCUACCCCCUUGGGGAGUCGUUAAUUUUUAUCACAUCUC
........((((((.((((....(.((.((((.((((......))))..)))).)).)..........(((.((((...))))))).)))).))))))......... ( -23.60, z-score =  -2.25, R)
>droEre2.scaffold_4845 9832027 100 - 22589142
UAAAAAUUUAAAAACUGACUUUCGCUGACUGG---CACCCUCUUGCC----AGCCAUCAUCUCACCUUGCCACCCCCUUGGGGAGUCGUUAAUUUUUAUCACAUCUC
((((((((....(((.((((...(.((.((((---((......))))----)).)).)..............((((...)))))))))))))))))))......... ( -22.40, z-score =  -2.87, R)
>droAna3.scaffold_13266 6364400 106 - 19884421
UAAAAAUUUAAAA-CCGACUUUCGCUGACUGGCCUCCCUUCCCCCCUUGGUGGCAAUCAUUUCACCUGGCCACCCCCUGUGGGAGUCGUUAAUUUUUAUCACCCCUU
((((((((.....-.(((((..(((.(..(((((..............(((((........))))).)))))..)...)))..)))))..))))))))......... ( -26.96, z-score =  -2.50, R)
>consensus
UAAAAAUUUAAAAACUGACUUUCGCUGACUGG___CACCCUCUUGCC____AGCCAUCAUCUCACCUUGCCACCCCCCCGGGGAGUCGUUAAUUUUUAUCACAUCUC
((((((((....(((.((((...(((....((.............))....)))..................(((.....))))))))))))))))))......... (-12.00 = -11.89 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 13,096,510 – 13,096,610
Length 100
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 78.88
Shannon entropy 0.38750
G+C content 0.47592
Mean single sequence MFE -31.67
Consensus MFE -21.91
Energy contribution -23.58
Covariance contribution 1.67
Combinations/Pair 1.15
Mean z-score -2.58
Structure conservation index 0.69
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.57
SVM RNA-class probability 0.992886
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 13096510 100 - 21146708
AAAAUGGGCAGACACCUGCUCCACUGGUA------CUGGUGCUCAAUGCAUUUUU--UGAGUGGAAUGCAGUCAAAAACAGAGGACCGACAAGAGUACCGGUAUCAAG
....(((((((....)))).))).(((((------(((((((((..((((((((.--.....))))))))(((..............)))..)))))))))))))).. ( -40.44, z-score =  -4.88, R)
>droSim1.chr2R 11827382 100 - 19596830
AAAAUGGGCAGACACCUGCUCCACUGGAA------CUGGUGCUCAAUGCAUUUUU--GGAGUGUAAUGCAGUCAAAAACAGAGGACCGACAAGAGUACCAGUAUCAAG
....(((((((....)))).))).(((.(------(((((((((..((((((...--.......))))))(((..............)))..)))))))))).))).. ( -33.84, z-score =  -3.07, R)
>droSec1.super_1 10600018 100 - 14215200
AAAAUGGGCAGACACCUGCUCCAAUGGAA------CUGGUGCUCAAUGCAUUUUU--GGAGUGGAAUGCAGUCAAAAACAGAGGACCGACAAGAGUACCAGUAUCAGG
....(((((((....)))).))).(((.(------(((((((((..((((((((.--.....))))))))(((..............)))..)))))))))).))).. ( -37.24, z-score =  -4.02, R)
>droYak2.chr2R 2765032 94 + 21139217
GAAAUGGGCAGACACCUGCUCC------A------CUGGUGCUCAAUGCAUUUUU--AGAGUGGAAUGCAGUCAAAAACAGAGGACCAACAAGACUACCAGUAUCAAG
((...((((((....)))).))------(------((((((.((..((((((((.--.....))))))))(((..........)))......)).))))))).))... ( -27.40, z-score =  -2.14, R)
>droEre2.scaffold_4845 9832127 94 + 22589142
GAAAUGGGCAGACACCUGCUCC------A------CUGGUGCUCAAUGCAUUUUU--GGAGUGGAAUGCAGUCUAAAACAGAGGACCAACCAGAGUACAAGUAUCAAG
((...((((((....)))).))------(------((.((((((..((((((((.--.....))))))))((((........))))......)))))).))).))... ( -29.30, z-score =  -2.07, R)
>dp4.chr3 16679381 100 - 19779522
GAAAUGGCCAAACACCUGCCCCAUGGCUACCAUGGCUGGCCCCCAAUGCAGUUCUCAGCAUCAGAAUGCAGCCAAAAACAGAGACAGAGACAGGAGAGAA--------
....((((.........(((((((((...))))))..)))......((((.((((.......))))))))))))..........................-------- ( -21.80, z-score =   0.72, R)
>consensus
AAAAUGGGCAGACACCUGCUCCA_UGG_A______CUGGUGCUCAAUGCAUUUUU__GGAGUGGAAUGCAGUCAAAAACAGAGGACCAACAAGAGUACCAGUAUCAAG
.....((((((....))))))..............(((((((((..((((((((........))))))))(((..........)))......)))))))))....... (-21.91 = -23.58 +   1.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:29:19 2011