Locus 6582

Sequence ID	dm3.chr3L
Location	7,972,015 – 7,972,119
Length	104
Max. P	0.966297

overview

Window 9

Location	7,972,015 – 7,972,119
Length	104
Sequences	4
Columns	104
Reading direction	forward
Mean pairwise identity	75.49
Shannon entropy	0.38615
G+C content	0.43027
Mean single sequence MFE	-26.03
Consensus MFE	-11.86
Energy contribution	-13.18
Covariance contribution	1.31
Combinations/Pair	1.05
Mean z-score	-2.07
Structure conservation index	0.46
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.12
SVM RNA-class probability	0.553229
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 7972015 104 + 24543557
AAAUAGAUAUAGUGCGGGCACUCUAAAAACAUCGAUAGCCAAACCUUGAAUUAAUAUACGAGUGGAAAACAUCGGACCUAUCGAUGUUUCUAUCGGUGGCCGAC
..............(((.((((.((.((((((((((((((....((((.((....)).))))((.....))..))..)))))))))))).))..)))).))).. ( -28.60, z-score =  -2.73, R)
>droYak2.chr3L 8561446 103 + 24197627
AGAGUAAUAUGAUGCGGUCACGCUAAAAACAUCGAUUACCAAGUCCC-AAUCGAUAUACGAGUAAGAAACAUCGGACACAUCGAUGUUUCUAUCGGAGUGCGUC
..........((((((.((...........(((((((..........-)))))))...(((...(((((((((((.....))))))))))).))))).)))))) ( -30.30, z-score =  -2.88, R)
>droSec1.super_0 266749 92 + 21120651
AAAUAGAUAUAGUGCGGGCACUCUAAAAACAUCGAUAGCCAAGCUCUGAAUCGAUGUACGAGUAGAAAACAUCGGAUCUAUCGAUGGC-CGAC-----------
................(((((((.....(((((((((((...)))....))))))))..))))......((((((.....))))))))-)...----------- ( -22.70, z-score =  -1.51, R)
>droSim1.chr3L 7446645 92 + 22553184
AUAUAGAUAUAGUGCGGGCACUCUAAAAACAUCGAUAGCCAAGCUCUGAAUCGAUGUACGUGUAGAAAACAUCGGACCUAUCGAUGGC-CGAC-----------
................(((..((((...(((((((((((...)))....)))))))).....))))...((((((.....))))))))-)...----------- ( -22.50, z-score =  -1.14, R)
>consensus
AAAUAGAUAUAGUGCGGGCACUCUAAAAACAUCGAUAGCCAAGCCCUGAAUCGAUAUACGAGUAGAAAACAUCGGACCUAUCGAUGGC_CGAC___________
.......((.((((....)))).))....(((((((((((..........(((.....)))((.....))...))..))))))))).................. (-11.86 = -13.18 +   1.31)

alignment

secondary structure

dotplot

Window 0

Location	7,972,015 – 7,972,119
Length	104
Sequences	4
Columns	104
Reading direction	reverse
Mean pairwise identity	75.49
Shannon entropy	0.38615
G+C content	0.43027
Mean single sequence MFE	-26.67
Consensus MFE	-19.66
Energy contribution	-20.60
Covariance contribution	0.94
Combinations/Pair	1.26
Mean z-score	-1.93
Structure conservation index	0.74
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	1.76
SVM RNA-class probability	0.966297
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 7972015 104 - 24543557
GUCGGCCACCGAUAGAAACAUCGAUAGGUCCGAUGUUUUCCACUCGUAUAUUAAUUCAAGGUUUGGCUAUCGAUGUUUUUAGAGUGCCCGCACUAUAUCUAUUU
(((((.(((...(((((((((((((((..((((......((..................)).)))))))))))))))))))..))).))).))........... ( -28.67, z-score =  -2.64, R)
>droYak2.chr3L 8561446 103 - 24197627
GACGCACUCCGAUAGAAACAUCGAUGUGUCCGAUGUUUCUUACUCGUAUAUCGAUU-GGGACUUGGUAAUCGAUGUUUUUAGCGUGACCGCAUCAUAUUACUCU
((.((..((((.(((((((((((((....((((.((..(....(((.....)))..-)..))))))..))))))))))))).)).))..)).)).......... ( -32.00, z-score =  -2.83, R)
>droSec1.super_0 266749 92 - 21120651
-----------GUCG-GCCAUCGAUAGAUCCGAUGUUUUCUACUCGUACAUCGAUUCAGAGCUUGGCUAUCGAUGUUUUUAGAGUGCCCGCACUAUAUCUAUUU
-----------((.(-(((((((.......)))))......((((..((((((((....(((...))))))))))).....))))))).))............. ( -23.90, z-score =  -1.61, R)
>droSim1.chr3L 7446645 92 - 22553184
-----------GUCG-GCCAUCGAUAGGUCCGAUGUUUUCUACACGUACAUCGAUUCAGAGCUUGGCUAUCGAUGUUUUUAGAGUGCCCGCACUAUAUCUAUAU
-----------((.(-(((((((.......)))))..(((((.....((((((((....(((...)))))))))))...))))).))).))............. ( -22.10, z-score =  -0.63, R)
>consensus
___________AUAG_AACAUCGAUAGGUCCGAUGUUUUCUACUCGUACAUCGAUUCAGAGCUUGGCUAUCGAUGUUUUUAGAGUGCCCGCACUAUAUCUAUUU
............(((((((((((((((..((((.(((((....(((.....)))...)))))))))))))))))))))))).((((....)))).......... (-19.66 = -20.60 +   0.94)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:10:31 2011