Locus 14299

Sequence ID	dm3.chrX
Location	12,429,693 – 12,429,788
Length	95
Max. P	0.625894

overview

Window 6

Location	12,429,693 – 12,429,788
Length	95
Sequences	5
Columns	100
Reading direction	forward
Mean pairwise identity	83.37
Shannon entropy	0.28968
G+C content	0.53536
Mean single sequence MFE	-31.49
Consensus MFE	-22.60
Energy contribution	-24.20
Covariance contribution	1.60
Combinations/Pair	1.00
Mean z-score	-1.48
Structure conservation index	0.72
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.03
SVM RNA-class probability	0.510034
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chrX 12429693 95 + 22422827
-GGACUACGGAUUGUGGGCUAGGUCAGCCAACA---UCCGAGGCCAGUGGCCCACUGGACAUUAUCUAAUCCGCGUCCGUCCG-CUUUUUGCCCGUUUUU
-((((..((((((((((((((((((........---.....))))..)))))))).(((.....))))))))).))))....(-(.....))........ ( -30.62, z-score =  -0.88, R)
>droSim1.chrX 9559926 99 + 17042790
UGGACUGCGGAUUGUGGGCUAGGUCAGCCAACAACAUCCGAGGCCAGUG-CCCACUGGCCAUUAUCUAAUCCGCGCCAUUCCUUCUUUUUGCCGGCUUUU
......(((((((((.((((.....)))).)).........(((((((.-...))))))).......)))))))(((................))).... ( -33.89, z-score =  -1.38, R)
>droSec1.super_21 185854 98 + 1102487
UGGACUGCGGAUUGUGGGCUAGGUCAGCCAACAACAUCCGAGGCCAGUG-CCCACUGGCCAUUAUCUAAUCCGCGCCAUCCCUUCUUUUUGACGGUUUU-
(((...(((((((((.((((.....)))).)).........(((((((.-...))))))).......))))))).)))..((.((.....)).))....- ( -35.30, z-score =  -2.23, R)
>droYak2.chrX 6706153 93 + 21770863
CGGACUGCAGAUUGUGGGCUAGGUCAGCCAACA---UCCGUGGCCAUUG-CCCACUGGCCAUUAUCUAAUCCGCAACCUGCU---UUUUUGCCGGUUUUU
(((...((((.((((((..(((((.........---...(((((((...-.....))))))).)))))..)))))).)))).---......)))...... ( -31.22, z-score =  -1.58, R)
>droEre2.scaffold_4690 4318995 87 - 18748788
UGGACAGCGGAUUGUGGGCUAGGUCAGCCAACA---------GCCAUUG-CCCACUGAGCAUUAUCUAAUCCGCAACCUCCU---UUUUAGCCGGUUUUU
......(((((((((((((..(((.........---------)))...)-))))).((......)).)))))))((((..((---....))..))))... ( -26.40, z-score =  -1.35, R)
>consensus
UGGACUGCGGAUUGUGGGCUAGGUCAGCCAACA___UCCGAGGCCAGUG_CCCACUGGCCAUUAUCUAAUCCGCGACCUCCC__CUUUUUGCCGGUUUUU
......(((((((((.((((.....)))).)).........((((((((...)))))))).......))))))).......................... (-22.60 = -24.20 +   1.60)

alignment

secondary structure

dotplot

Window 7

Location	12,429,693 – 12,429,788
Length	95
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	83.37
Shannon entropy	0.28968
G+C content	0.53536
Mean single sequence MFE	-33.13
Consensus MFE	-26.30
Energy contribution	-27.30
Covariance contribution	1.00
Combinations/Pair	1.19
Mean z-score	-1.34
Structure conservation index	0.79
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.28
SVM RNA-class probability	0.625894
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chrX 12429693 95 - 22422827
AAAAACGGGCAAAAAG-CGGACGGACGCGGAUUAGAUAAUGUCCAGUGGGCCACUGGCCUCGGA---UGUUGGCUGACCUAGCCCACAAUCCGUAGUCC-
......((((.....(-((......)))((.((((.((((((((...(((((...))))).)))---))))).))))))..))))..............- ( -33.60, z-score =  -1.49, R)
>droSim1.chrX 9559926 99 - 17042790
AAAAGCCGGCAAAAAGAAGGAAUGGCGCGGAUUAGAUAAUGGCCAGUGGG-CACUGGCCUCGGAUGUUGUUGGCUGACCUAGCCCACAAUCCGCAGUCCA
....((((..............))))..(((((.......(((((((...-.))))))).(((((..(((.(((((...))))).)))))))).))))). ( -35.54, z-score =  -1.10, R)
>droSec1.super_21 185854 98 - 1102487
-AAAACCGUCAAAAAGAAGGGAUGGCGCGGAUUAGAUAAUGGCCAGUGGG-CACUGGCCUCGGAUGUUGUUGGCUGACCUAGCCCACAAUCCGCAGUCCA
-....(((((..........)))))...(((((.......(((((((...-.))))))).(((((..(((.(((((...))))).)))))))).))))). ( -35.80, z-score =  -1.57, R)
>droYak2.chrX 6706153 93 - 21770863
AAAAACCGGCAAAAA---AGCAGGUUGCGGAUUAGAUAAUGGCCAGUGGG-CAAUGGCCACGGA---UGUUGGCUGACCUAGCCCACAAUCUGCAGUCCG
...((((.((.....---.)).)))).((((((......((((((.....-...))))))((((---(((.(((((...))))).)).))))).)))))) ( -33.10, z-score =  -1.73, R)
>droEre2.scaffold_4690 4318995 87 + 18748788
AAAAACCGGCUAAAA---AGGAGGUUGCGGAUUAGAUAAUGCUCAGUGGG-CAAUGGC---------UGUUGGCUGACCUAGCCCACAAUCCGCUGUCCA
...((((..((....---))..))))(((((((.((......)).(((((-(...(((---------........).))..)))))))))))))...... ( -27.60, z-score =  -0.83, R)
>consensus
AAAAACCGGCAAAAAG__GGAAGGGCGCGGAUUAGAUAAUGGCCAGUGGG_CACUGGCCUCGGA___UGUUGGCUGACCUAGCCCACAAUCCGCAGUCCA
......................(((((((((((.......((((((((...)))))))).........((.(((((...))))).))))))))).)))). (-26.30 = -27.30 +   1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:37:36 2011