Locus 6322

Sequence ID	dm3.chr3L
Location	5,536,590 – 5,536,700
Length	110
Max. P	0.999734

overview

Window 4

Location	5,536,590 – 5,536,700
Length	110
Sequences	5
Columns	113
Reading direction	forward
Mean pairwise identity	79.00
Shannon entropy	0.35924
G+C content	0.48338
Mean single sequence MFE	-36.45
Consensus MFE	-15.75
Energy contribution	-17.71
Covariance contribution	1.96
Combinations/Pair	1.04
Mean z-score	-3.08
Structure conservation index	0.43
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	1.57
SVM RNA-class probability	0.950968
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 5536590 110 + 24543557
GAUUAGAAGGGGUCCUUGAGGCG--UUUCUACGCAUUUCCAAGAAUCUUCAUUAAACAAACAGCCCUACGGUGGGUUGAAUUCUAAGAAAUGAGCAGAAACCGCCCGAGGAG-
............((((((.((((--(((((.(.((((((..(((((..............((((((......)))))).)))))..)))))).).))))).)))))))))).- ( -37.06, z-score =  -3.24, R)
>droEre2.scaffold_4784 8223094 98 + 25762168
GAUUAGAGGCGGUCCUACUGGCG--UUUCCACGCAUUUCCACGAAUGUC-AUCAACCAAAC-----------GGUUGGAAUUCUAGGAAAUGCGCAGAAACCGCCCGAAAAG-
.....(.(((((.((....)))(--((((..(((((((((..((((...-.((((((....-----------)))))).))))..)))))))))..))))))))))......- ( -36.30, z-score =  -4.22, R)
>droYak2.chr3L 6099865 104 + 24197627
GAUUAGCAAGGCUCCUACUGGCGCAUUUCUACGCAUUUCCAAGAAUGCCAUUAAACCCAAACG---------GGGUUGAAUUCUAGGAAAUGAGCAGAAACCGCCAGGAUCGG
((((....((....)).((((((..(((((.(.(((((((.(((((.......(((((.....---------)))))..))))).))))))).).))))).)))))))))).. ( -37.30, z-score =  -3.99, R)
>droSec1.super_2 5473168 109 + 7591821
GAUUAGAAGGGGUCCUUCAGGGG--UUUCUACGCAUUUCCAAGAAUCUU-GUUAACCAAACAGCUCUACGGUGGGUGGAAUUCUAGGAAAUGAGCAGAAGCCGCCCGAGGAG-
............(((((..((((--(((((.(.(((((((.(((((.(.-.(..(((............)))..)..).))))).))))))).).))))))).)).))))).- ( -36.70, z-score =  -1.77, R)
>droSim1.chr3L 5051789 109 + 22553184
GAUUAGAAGGGGUCCUUCAGGGG--UUUCCACGCAUUUCCAAGAAUCUU-GUUAACCAAACAGCACUACGGUGGUUUGAAUUCUAGGAAAUGAGCAGAAACCGCCCGAGGAG-
............(((((..((((--((((..(.(((((((.(((((.((-(((.....)))))(((....)))......))))).))))))).)..)))))).)).))))).- ( -34.90, z-score =  -2.18, R)
>consensus
GAUUAGAAGGGGUCCUUCAGGCG__UUUCUACGCAUUUCCAAGAAUCUU_AUUAACCAAACAGC_CUACGGUGGGUUGAAUUCUAGGAAAUGAGCAGAAACCGCCCGAGGAG_
..............((((.((((...((((.(.(((((((.(((((.................................))))).))))))).).))))..)))).))))... (-15.75 = -17.71 +   1.96)

alignment

secondary structure

dotplot

Window 5

Location	5,536,590 – 5,536,700
Length	110
Sequences	5
Columns	113
Reading direction	reverse
Mean pairwise identity	79.00
Shannon entropy	0.35924
G+C content	0.48338
Mean single sequence MFE	-40.58
Consensus MFE	-25.02
Energy contribution	-26.02
Covariance contribution	1.00
Combinations/Pair	1.17
Mean z-score	-4.60
Structure conservation index	0.62
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	4.28
SVM RNA-class probability	0.999734
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 5536590 110 - 24543557
-CUCCUCGGGCGGUUUCUGCUCAUUUCUUAGAAUUCAACCCACCGUAGGGCUGUUUGUUUAAUGAAGAUUCUUGGAAAUGCGUAGAAA--CGCCUCAAGGACCCCUUCUAAUC
-.((((.(((((.(((((((.(((((((.((((((((.(((......))).)).............)))))).))))))).)))))))--)))).).))))............ ( -37.21, z-score =  -3.63, R)
>droEre2.scaffold_4784 8223094 98 - 25762168
-CUUUUCGGGCGGUUUCUGCGCAUUUCCUAGAAUUCCAACC-----------GUUUGGUUGAU-GACAUUCGUGGAAAUGCGUGGAAA--CGCCAGUAGGACCGCCUCUAAUC
-......((((((((.((((((((((((..(((((((((((-----------....)))))..-)).))))..))))))))(((....--)))..))))))))))))...... ( -43.20, z-score =  -5.41, R)
>droYak2.chr3L 6099865 104 - 24197627
CCGAUCCUGGCGGUUUCUGCUCAUUUCCUAGAAUUCAACCC---------CGUUUGGGUUUAAUGGCAUUCUUGGAAAUGCGUAGAAAUGCGCCAGUAGGAGCCUUGCUAAUC
((....((((((((((((((.(((((((.((((((((((((---------.....))))....))).))))).))))))).)))))))).))))))..))(((...))).... ( -41.70, z-score =  -4.58, R)
>droSec1.super_2 5473168 109 - 7591821
-CUCCUCGGGCGGCUUCUGCUCAUUUCCUAGAAUUCCACCCACCGUAGAGCUGUUUGGUUAAC-AAGAUUCUUGGAAAUGCGUAGAAA--CCCCUGAAGGACCCCUUCUAAUC
-.((((((((.((.((((((.(((((((.((((((......((((..........))))....-..)))))).))))))).)))))).--)))))).))))............ ( -38.70, z-score =  -4.17, R)
>droSim1.chr3L 5051789 109 - 22553184
-CUCCUCGGGCGGUUUCUGCUCAUUUCCUAGAAUUCAAACCACCGUAGUGCUGUUUGGUUAAC-AAGAUUCUUGGAAAUGCGUGGAAA--CCCCUGAAGGACCCCUUCUAAUC
-.((((((((.((((((..(.(((((((.((((((((((((((....)))..)))))......-..)))))).))))))).)..))))--)))))).))))............ ( -42.10, z-score =  -5.22, R)
>consensus
_CUCCUCGGGCGGUUUCUGCUCAUUUCCUAGAAUUCAACCCACCGUAG_GCUGUUUGGUUAAC_AAGAUUCUUGGAAAUGCGUAGAAA__CGCCUGAAGGACCCCUUCUAAUC
..((((((((((..((((((.(((((((.((((((...............................)))))).))))))).))))))...)))))).))))............ (-25.02 = -26.02 +   1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:05:27 2011