Locus 11586

Sequence ID	dm3.chr3R
Location	22,286,505 – 22,286,595
Length	90
Max. P	0.604761

overview

Window 7

Location	22,286,505 – 22,286,595
Length	90
Sequences	8
Columns	104
Reading direction	forward
Mean pairwise identity	61.37
Shannon entropy	0.74523
G+C content	0.55786
Mean single sequence MFE	-34.75
Consensus MFE	-9.82
Energy contribution	-9.28
Covariance contribution	-0.55
Combinations/Pair	1.36
Mean z-score	-1.55
Structure conservation index	0.28
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.23
SVM RNA-class probability	0.604761
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 22286505 90 + 27905053
GGAAUCGAUUUUU-UU--GGCAGUCACUUGCCAGCAUUCAAGUGGCUGCG-----CCGCUGCUCC---GGGAGCUCAGAUUUGUAAGACCCCAAGGGGCAG---
((...(((.....-))--)(((((((((((........))))))))))).-----)).(((((((---(((..((..........))..)))..)))))))--- ( -33.40, z-score =  -1.39, R)
>droEre2.scaffold_4820 4710957 82 - 10470090
GGAAUCGGUUUUU-U--GGCCAGCCA-------------AAGUGGCUGCUGGGCUCCUCCGCCUU--GGGGGGCUCGGAUUUGUAGGACCCCAAUGGGCG----
(((...((...((-.--.((.((((.-------------....))))))..))..)))))((((.--..((((..(.........)..))))...)))).---- ( -32.50, z-score =   0.18, R)
>droYak2.chr3R 4630108 100 - 28832112
GGAAUCGGUUUUU-UUUGCCCAGUCACUUGGCCACAUUCAAGUGACUGCUGAGCCCCUCUGCCUUUGGGGGAGCUCAGAUUUGUAUGGCCCCAAUGGGCGG---
.((((((((....-...)))(((((((((((......))))))))))).((((((((((.......))))).)))))))))).....((((....))))..--- ( -43.30, z-score =  -2.87, R)
>droSec1.super_13 1077726 79 + 2104621
GGAAUCGGUUUUU-UU--GGCAGUCACUUGCCCGCAUUCAAGUGGCU----------------CC---GGGAGCUCAGAUUUGUAAGACCCCAAGGGGCAG---
.(((((.(..(((-((--((.(((((((((........)))))))))----------------))---)))))..).)))))....(.(((....))))..--- ( -27.10, z-score =  -1.23, R)
>droSim1.chr3R 22125313 95 + 27517382
GGAAUCCGUUUUU-UU--GGCAGUCACUUGCCCGCAUUCAAGUGGCUGCUGAGCCCCUCUGCUCC---GGGAGCUCAGAUUUGUAAGACCCCAAGGGGCAG---
.(((((.......-..--((((((((((((........))))))))))))(((((((........---))).)))).)))))....(.(((....))))..--- ( -38.00, z-score =  -2.08, R)
>droPer1.super_0 1666982 95 + 11822988
GGAAACAAUUUUUUGUGUGGCAGCCCCCC------AUUGAUGGGGCUG---AAGCGCCCCGCUCCAGGUGCGCAAAUAUUUUGUAUGACCCCAUCUGAAGGGCG
(....)........((((..(((((((..------......)))))))---..))))..(((((((((((.(...((((...))))...).))))))..))))) ( -33.30, z-score =  -1.20, R)
>dp4.chr2 7841760 95 + 30794189
GGAAACAAUUUUU-GUGUGGCAGCCCCCCC-----AUUGAUGGGGCUG---AAGCGCCCAGCUCCAGGUGCGCGAAUAUUUUAUAUGACCCCAUCUGAAGGGAG
(....).....(.-.((((((((((((...-----......)))))))---..((((((.......)).)))).......)))))..).(((.......))).. ( -30.00, z-score =  -0.72, R)
>droAna3.scaffold_13340 1330266 91 - 23697760
GGAAUUGGUUUUU-GU--GGCAGCCACUUGGCC----UAAAGUGGCUG---GGGCCCUCCGUUUCCGGAGGGCAACUAUUUUGUACGCCUCCAAAUUGGAG---
.(((.(((((...-..--..(((((((((....----..)))))))))---..((((((((....))))))))))))).)))......((((.....))))--- ( -40.40, z-score =  -3.12, R)
>consensus
GGAAUCGGUUUUU_UU__GGCAGCCACUUG_CC__AUUCAAGUGGCUG___AGCCCCUCCGCUCC__GGGGAGCUCAGAUUUGUAAGACCCCAAGGGGCAG___
((..................(((((((..............))))))).......((............))...................))............ ( -9.82 =  -9.28 +  -0.55)

alignment

secondary structure

dotplot

Window 8

Location	22,286,505 – 22,286,595
Length	90
Sequences	8
Columns	104
Reading direction	reverse
Mean pairwise identity	61.37
Shannon entropy	0.74523
G+C content	0.55786
Mean single sequence MFE	-31.75
Consensus MFE	-9.38
Energy contribution	-9.60
Covariance contribution	0.22
Combinations/Pair	1.58
Mean z-score	-1.42
Structure conservation index	0.30
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.23
SVM RNA-class probability	0.602553
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 22286505 90 - 27905053
---CUGCCCCUUGGGGUCUUACAAAUCUGAGCUCCC---GGAGCAGCGG-----CGCAGCCACUUGAAUGCUGGCAAGUGACUGCC--AA-AAAAAUCGAUUCC
---((((..(((.(((.((((......))))..)))---.)))..))))-----.((((.((((((........)))))).)))).--..-............. ( -28.60, z-score =  -0.86, R)
>droEre2.scaffold_4820 4710957 82 + 10470090
----CGCCCAUUGGGGUCCUACAAAUCCGAGCCCCCC--AAGGCGGAGGAGCCCAGCAGCCACUU-------------UGGCUGGCC--A-AAAAACCGAUUCC
----.(((..(((((.(((......(((..(((....--..))))))))).))))).((((....-------------.))))))).--.-............. ( -26.10, z-score =  -0.05, R)
>droYak2.chr3R 4630108 100 + 28832112
---CCGCCCAUUGGGGCCAUACAAAUCUGAGCUCCCCCAAAGGCAGAGGGGCUCAGCAGUCACUUGAAUGUGGCCAAGUGACUGGGCAAA-AAAAACCGAUUCC
---...(((...)))(((........(((((((((((....))....)))))))))((((((((((........)))))))))))))...-............. ( -38.10, z-score =  -2.16, R)
>droSec1.super_13 1077726 79 - 2104621
---CUGCCCCUUGGGGUCUUACAAAUCUGAGCUCCC---GG----------------AGCCACUUGAAUGCGGGCAAGUGACUGCC--AA-AAAAACCGAUUCC
---.........(((..((((......))))..)))---((----------------((.((((((........)))))).)).))--..-............. ( -18.70, z-score =   0.45, R)
>droSim1.chr3R 22125313 95 - 27517382
---CUGCCCCUUGGGGUCUUACAAAUCUGAGCUCCC---GGAGCAGAGGGGCUCAGCAGCCACUUGAAUGCGGGCAAGUGACUGCC--AA-AAAAACGGAUUCC
---..((((....))))......(((((((((((((---......).))))))).((((.((((((........)))))).)))).--..-......))))).. ( -34.60, z-score =  -1.10, R)
>droPer1.super_0 1666982 95 - 11822988
CGCCCUUCAGAUGGGGUCAUACAAAAUAUUUGCGCACCUGGAGCGGGGCGCUU---CAGCCCCAUCAAU------GGGGGGCUGCCACACAAAAAAUUGUUUCC
.((((((((((((((((..............((((.((((...))))))))..---..))))))))..)------)))))))...................... ( -36.07, z-score =  -1.93, R)
>dp4.chr2 7841760 95 - 30794189
CUCCCUUCAGAUGGGGUCAUAUAAAAUAUUCGCGCACCUGGAGCUGGGCGCUU---CAGCCCCAUCAAU-----GGGGGGGCUGCCACAC-AAAAAUUGUUUCC
((((((...((((((((.((((...))))..((((.((.......))))))..---..))))))))...-----))))))..........-............. ( -31.70, z-score =  -0.88, R)
>droAna3.scaffold_13340 1330266 91 + 23697760
---CUCCAAUUUGGAGGCGUACAAAAUAGUUGCCCUCCGGAAACGGAGGGCCC---CAGCCACUUUA----GGCCAAGUGGCUGCC--AC-AAAAACCAAUUCC
---.(((.....)))(((.............((((((((....))))))))..---.((((((((..----....)))))))))))--..-............. ( -40.10, z-score =  -4.83, R)
>consensus
___CCGCCCCUUGGGGUCAUACAAAUCUGAGCCCCCC__GGAGCAGAGGGCCU___CAGCCACUUGAAU__GG_CAAGUGACUGCC__AA_AAAAACCGAUUCC
.....(((......))).......................................(((((((.((........)).))))))).................... ( -9.38 =  -9.60 +   0.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:45:43 2011