Locus 11651

Sequence ID	dm3.chr3R
Location	22,733,124 – 22,733,227
Length	103
Max. P	0.979836

overview

Window 7

Location	22,733,124 – 22,733,227
Length	103
Sequences	5
Columns	108
Reading direction	forward
Mean pairwise identity	69.97
Shannon entropy	0.52737
G+C content	0.42850
Mean single sequence MFE	-28.04
Consensus MFE	-17.12
Energy contribution	-18.48
Covariance contribution	1.36
Combinations/Pair	1.18
Mean z-score	-1.75
Structure conservation index	0.61
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	2.03
SVM RNA-class probability	0.979836
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 22733124 103 + 27905053
--AUGUUUUUUAUUUGUGCU---GUUUUUGGAGGCUGUGUCUAUAUCUACUGCGAGUAGAUGGCUGACACGCCUAGAUACUUGGCACGUCAUGUGCUAAGAGCUCAAA
--..........((((.(((---........((((.(((((..(((((((.....)))))))...))))))))).....((((((((.....))))))))))).)))) ( -38.30, z-score =  -4.05, R)
>droAna3.scaffold_13340 7100758 90 - 23697760
------------AUUUUUCUC--CUCUUUUGUAUCUAUAUAUGUGCCUA-UAGCUGUGGGU--CUGACACGCCUAGACACUUGGCACCACAUGUGCUAAGAGCCUCA-
------------.........--(((....((.((((....((((((((-(....))))))--...)))....)))).))(((((((.....)))))))))).....- ( -18.40, z-score =   0.15, R)
>droSim1.chr3R 22563969 86 + 27517382
------------------AU---GUUUUUUUGUGCUGUGUCUAUAUCUGCUACGAGUCGAUGGCUGACACGCCUAGAUACUUGGCACAUCAUGUGCUAAGAGCUAAA-
------------------..---..........((((((((..((((.((.....)).))))...))))).........((((((((.....)))))))))))....- ( -25.70, z-score =  -1.90, R)
>droSec1.super_13 1506227 98 + 2104621
------AUGUUUUUUGUGCU---GUAUUUGGUGGCUGUGUCUAUAUCUGCUACGAGUCGAUGGCUGACACGCCUAGAUACUUGGCACAUCAUGUGCUAAGAGCUAAA-
------...........(((---.((((((..(((.(((((..((((.((.....)).))))...))))))))))))))((((((((.....)))))))))))....- ( -31.50, z-score =  -2.16, R)
>droYak2.chr3R 5077577 107 - 28832112
AUGUUUUUUUGUAUUGUGUUUGUGUUUUUGGUGCCUGUGUCUAUAUCUGCUGACUGCUAACUGCUGACACGCCUAGAUAGUUGGCACAUCAUGUGCUAAGAGCUAAA-
.......................((((((((..(.((((((..(((((((((.(.((.....)).).)).))..)))))...))))))....)..))))))))....- ( -26.30, z-score =  -0.76, R)
>consensus
_______U_U__AUUGUGCU___GUUUUUGGUGGCUGUGUCUAUAUCUGCUACGAGUCGAUGGCUGACACGCCUAGAUACUUGGCACAUCAUGUGCUAAGAGCUAAA_
.................................((((((((..((((.((.....)).))))...))))).........((((((((.....)))))))))))..... (-17.12 = -18.48 +   1.36)

alignment

secondary structure

dotplot

Window 8

Location	22,733,124 – 22,733,227
Length	103
Sequences	5
Columns	108
Reading direction	reverse
Mean pairwise identity	69.97
Shannon entropy	0.52737
G+C content	0.42850
Mean single sequence MFE	-22.36
Consensus MFE	-12.48
Energy contribution	-12.60
Covariance contribution	0.12
Combinations/Pair	1.30
Mean z-score	-1.73
Structure conservation index	0.56
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	1.69
SVM RNA-class probability	0.961033
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 22733124 103 - 27905053
UUUGAGCUCUUAGCACAUGACGUGCCAAGUAUCUAGGCGUGUCAGCCAUCUACUCGCAGUAGAUAUAGACACAGCCUCCAAAAAC---AGCACAAAUAAAAAACAU--
((((.((((((.((((.....)))).))).....(((((((((....((((((.....))))))...))))).))))........---))).))))..........-- ( -28.50, z-score =  -3.91, R)
>droAna3.scaffold_13340 7100758 90 + 23697760
-UGAGGCUCUUAGCACAUGUGGUGCCAAGUGUCUAGGCGUGUCAG--ACCCACAGCUA-UAGGCACAUAUAUAGAUACAAAAGAG--GAGAAAAAU------------
-.....(((((.((((.....))))...(((((((((((((....--...))).))).-)))))))..............)))))--.........------------ ( -23.30, z-score =  -1.25, R)
>droSim1.chr3R 22563969 86 - 27517382
-UUUAGCUCUUAGCACAUGAUGUGCCAAGUAUCUAGGCGUGUCAGCCAUCGACUCGUAGCAGAUAUAGACACAGCACAAAAAAAC---AU------------------
-....(((....((((.....))))...((((((..(((.(((.......))).)))...))))))......)))..........---..------------------ ( -19.20, z-score =  -1.13, R)
>droSec1.super_13 1506227 98 - 2104621
-UUUAGCUCUUAGCACAUGAUGUGCCAAGUAUCUAGGCGUGUCAGCCAUCGACUCGUAGCAGAUAUAGACACAGCCACCAAAUAC---AGCACAAAAAACAU------
-....((((((.((((.....)))).)))......((((((((....(((..(.....)..)))...))))).))).........---)))...........------ ( -21.90, z-score =  -1.71, R)
>droYak2.chr3R 5077577 107 + 28832112
-UUUAGCUCUUAGCACAUGAUGUGCCAACUAUCUAGGCGUGUCAGCAGUUAGCAGUCAGCAGAUAUAGACACAGGCACCAAAAACACAAACACAAUACAAAAAAACAU
-....((.....)).......(((((..((....))..(((((.((.....)).(((....)))...))))).))))).............................. ( -18.90, z-score =  -0.65, R)
>consensus
_UUUAGCUCUUAGCACAUGAUGUGCCAAGUAUCUAGGCGUGUCAGCCAUCGACUCGUAGCAGAUAUAGACACAGCCACCAAAAAC___AGCACAAA__A_A_______
.....((((((.((((.....)))).)))......)))(((((....(((.((.....)).)))...))))).................................... (-12.48 = -12.60 +   0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:46:57 2011