Locus 10096

Sequence ID	dm3.chr3R
Location	11,269,620 – 11,269,763
Length	143
Max. P	0.940214

overview

Window 0

Location	11,269,620 – 11,269,723
Length	103
Sequences	6
Columns	103
Reading direction	forward
Mean pairwise identity	75.79
Shannon entropy	0.47412
G+C content	0.57449
Mean single sequence MFE	-27.68
Consensus MFE	-12.80
Energy contribution	-14.22
Covariance contribution	1.42
Combinations/Pair	1.19
Mean z-score	-2.04
Structure conservation index	0.46
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.95
SVM RNA-class probability	0.860881
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 11269620 103 + 27905053
UCCGCGAUUCCGUGAGCCUCCGAUUGAAUUCAAGCUCCUGCUGCUACUCACUCCAGUGCCCCUCGGUCUGCUGCUGAUGCUGCUCCCGAUGGCACUUCUCCUU
...........(((((.....((......)).(((....)))....)))))...((((((..((((...((.((....)).))..)))).))))))....... ( -28.40, z-score =  -1.84, R)
>droSim1.chr3R 17308419 103 - 27517382
UCCGCGAUUCCGUGAGCCUCCAAUUGAAUUCAAGCUCCUGCUGCUACUCACUCCAGUGCCCCUCGGUCUGCUGCUAAUGCUGCUCCCGAUGGCACUUCUCCUC
...........(((((........((....))(((....)))....)))))...((((((..((((...((.((....)).))..)))).))))))....... ( -27.40, z-score =  -2.43, R)
>droSec1.super_0 10441459 103 - 21120651
ACCGCGAUUCCGUGAGCCUCCAAUUGAGUUCAAGCUCCUGCUGCUACUCACUCCAGUGCCCCUCGGUCUGCUGCUAAUGCUGCUCCCGAUGGCACUUCUCCUC
..((((....))))..........(((((...(((....)))...)))))....((((((..((((...((.((....)).))..)))).))))))....... ( -32.20, z-score =  -3.40, R)
>droYak2.chr3R 13671178 103 - 28832112
UCCCCGAUUCCGUAAGCCACCAAUUGAAUUCAAACUCCGGCUGCUACUCAAUCCCGUGCCACGCGGUCUGCUGCUGAUGCUGCUCCCGAUGGCACUUCUCCUC
.....((((..(((((((.....(((....))).....))))..)))..))))..((((((((.((...((.((....)).)).)))).))))))........ ( -27.90, z-score =  -2.86, R)
>droEre2.scaffold_4770 10796218 103 + 17746568
UCCGCGAUGCCGUACACUUCCAAUUGAAUUCAAGCUCCUGCUGCUACUCAAGCCAGUGCUCCUCGGUCUGCUGCUGAUGCUGCUCCCGAUGGCACUUCUCCUC
.......((((((.((((.....((((.....(((....))).....))))...)))).....(((...((.((....)).))..)))))))))......... ( -24.20, z-score =  -0.49, R)
>droAna3.scaffold_13340 12855468 82 + 23697760
----------------CCUUUGGGUC--CUUGAACUGGGACUACUGCUAAUGCUGUUGGUGCUCGUCAUGCUGCUCAUGC---UCCGGACGGCGCUGCGUUUG
----------------......((((--((......))))))......(((((....(((((.((((.((..((....))---..)))))))))))))))).. ( -26.00, z-score =  -1.25, R)
>consensus
UCCGCGAUUCCGUGAGCCUCCAAUUGAAUUCAAGCUCCUGCUGCUACUCACUCCAGUGCCCCUCGGUCUGCUGCUGAUGCUGCUCCCGAUGGCACUUCUCCUC
........................(((.(...(((....)))...).)))....((((((..((((...((.((....)).))..)))).))))))....... (-12.80 = -14.22 +   1.42)

alignment

secondary structure

dotplot

Window 1

Location	11,269,646 – 11,269,763
Length	117
Sequences	7
Columns	117
Reading direction	forward
Mean pairwise identity	72.36
Shannon entropy	0.56157
G+C content	0.62458
Mean single sequence MFE	-42.59
Consensus MFE	-20.31
Energy contribution	-22.54
Covariance contribution	2.23
Combinations/Pair	1.35
Mean z-score	-1.76
Structure conservation index	0.48
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	1.44
SVM RNA-class probability	0.940214
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 11269646 117 + 27905053
AAUUCAAGCUCCUGCUGCUACUCACUCCAGUGCCCCUCGGUCUGCUGCUGAUGCUGCUCCCGAUGGCACUUCUCCUUCGGCAAUGUGGCGGCGGAGUGCAGCUGUGACGCUCCACCC
.............((((((((.......((((((..((((...((.((....)).))..)))).))))))....(....)....))))))))((((((((....)).)))))).... ( -43.10, z-score =  -1.78, R)
>droSim1.chr3R 17308445 117 - 27517382
AAUUCAAGCUCCUGCUGCUACUCACUCCAGUGCCCCUCGGUCUGCUGCUAAUGCUGCUCCCGAUGGCACUUCUCCUCCGGCAAUGCGGCGGCGGAGUGCAGCUGUGACGCUCCACCC
......((((((.(((((..........((((((..((((...((.((....)).))..)))).)))))).((((.(((.(.....).))).)))).))))).).)).)))...... ( -44.30, z-score =  -2.36, R)
>droSec1.super_0 10441485 117 - 21120651
AGUUCAAGCUCCUGCUGCUACUCACUCCAGUGCCCCUCGGUCUGCUGCUAAUGCUGCUCCCGAUGGCACUUCUCCUCCGGCAAUGUGGCGGUGGAGUGCAGCUGUGACGCUCCACCC
......((((((.(((((..........((((((..((((...((.((....)).))..)))).)))))).((((.(((.(.....).))).)))).))))).).)).)))...... ( -44.90, z-score =  -2.24, R)
>droYak2.chr3R 13671204 117 - 28832112
AAUUCAAACUCCGGCUGCUACUCAAUCCCGUGCCACGCGGUCUGCUGCUGAUGCUGCUCCCGAUGGCACUUCUCCUCCGGCAAUGUGCCGGCGGAUUGCAGCUGUGCCGCUCCACCC
...........(((((((...........((((((((.((...((.((....)).)).)))).))))))...(((.(((((.....))))).)))..)))))))............. ( -46.20, z-score =  -3.58, R)
>droEre2.scaffold_4770 10796244 117 + 17746568
AAUUCAAGCUCCUGCUGCUACUCAAGCCAGUGCUCCUCGGUCUGCUGCUGAUGCUGCUCCCGAUGGCACUUCUCCUCCGGCAGUGUGCCGGCGGAGUGCAGCUGUGCCGCUCCACCC
.......((.(..(((((..........((((((..((((...((.((....)).))..)))).)))))).((((.(((((.....))))).)))).))))).).)).......... ( -45.50, z-score =  -1.71, R)
>droAna3.scaffold_13340 12855482 108 + 23697760
------AACUGGGACUACUGCUAAUGCUGUUGGUGCUCGUCAUGCUGCUCAUGCU---CCGGACGGCGCUGCGUUUGCGGCAACUUGGCGGCGGUGAGCAUCUGUGCCUCUCGAUCC
------....((.((...((((..((((((..(.((.((((.((..((....)).---.))))))))(((((....)))))...)..))))))...))))...)).))......... ( -39.70, z-score =  -0.69, R)
>dp4.chr2 24435492 88 - 30794189
--------------------------CGGCGGACACUCGUCAUGCUGCUGCUACUG---CUGCUGACACUUCGCCUCCUGCAGCUGGCCGGGGGCAGGCACUUGUGCUUCUGCGGCU
--------------------------((((((((....))).)))))........(---((((.((......((((((.((.....)).)))))).((((....)))))).))))). ( -34.40, z-score =   0.06, R)
>consensus
AAUUCAAGCUCCUGCUGCUACUCACUCCAGUGCCCCUCGGUCUGCUGCUGAUGCUGCUCCCGAUGGCACUUCUCCUCCGGCAAUGUGGCGGCGGAGUGCAGCUGUGCCGCUCCACCC
.............(((((..........((((((...(((...((.((....)).))..)))..)))))).((((.(((.(.....).))).)))).)))))............... (-20.31 = -22.54 +   2.23)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:17:24 2011