Locus 11466

Sequence ID	dm3.chr3R
Location	21,396,986 – 21,397,082
Length	96
Max. P	0.821733

overview

Window 9

Location	21,396,986 – 21,397,082
Length	96
Sequences	8
Columns	112
Reading direction	forward
Mean pairwise identity	70.94
Shannon entropy	0.53262
G+C content	0.47435
Mean single sequence MFE	-30.21
Consensus MFE	-11.49
Energy contribution	-10.97
Covariance contribution	-0.51
Combinations/Pair	1.36
Mean z-score	-2.03
Structure conservation index	0.38
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.70
SVM RNA-class probability	0.790828
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 21396986 96 + 27905053
-----UCUUUGUUCCUCGGCUUGUCGCCCG----------GGUCAUAAAAAUUCAAUUAUGU-GAAGGAGGCGUGCUGGCACAAGAAGUAGGGAGCCAAAAAAAGAAAAAAA
-----(((((((((((..(((((((..((.----------..(((((.((......)).)))-)).)).)))(((....)))...)))).)))))).....)))))...... ( -22.70, z-score =  -0.30, R)
>droEre2.scaffold_4820 3824543 85 - 10470090
-----UCUUUGUUCCUCGGCUUGUCGCCCG----------GGUCAUAAAAAUUCAAUUAUGU-GAAGGAGGCGUGCUGGCACAAGUAGUAGGGAGCAAAAA-----------
-----..(((((((((..((((((.(((((----------.(((.......((((......)-)))...))).))..)))))))))....)))))))))..----------- ( -26.50, z-score =  -1.94, R)
>droYak2.chr3R 3749190 97 - 28832112
-GGCUUCUUGGUUCCUCGGCUUGUCGCCUG----------GGUCAUAAAAAUUCAAUUAGGU-GAAGAAGGCGUGCUGGCACAAGAAGUAGGGAGCACAUGGAAAAAAA---
-.((((((((.(((....(((.(((((((.----------..((((..((......))..))-))...))))).)).)))....))).)))))))).............--- ( -30.80, z-score =  -1.98, R)
>droSec1.super_13 184977 90 + 2104621
-----UCUUUGUUCCUCGGCUUGUCGCCCG----------GGUCAUAAAAAUUCAAUUAUGU-GAAGCAGGCGUGCUGGCACAAGAAGUAGGGAGCUAAAAAAAAG------
-----.....((((((..((((...(((.(----------..(((((.((......)).)))-))..).)))(((....)))...)))).))))))..........------ ( -22.40, z-score =  -0.51, R)
>droSim1.chr3R 21225634 90 + 27517382
-----UCUUUGUUCCUCGGCUUGUCGCCCG----------GGUCAUAAAAAUUCAAUUAUGU-GAAGCAGGCGUGCUGGCACAAGAAGCAGGGAGCCAAAAAAAAA------
-----((((((((.((.((((.((((((.(----------..(((((.((......)).)))-))..).)))).)).))).).)).))))))))............------ ( -24.30, z-score =  -0.54, R)
>droPer1.super_3 3910207 108 + 7375914
CCUUGAAGUUGUUCCUCGCCUUGUCGCCUGUUUGGCAGCAGGUCAUAAAAAUUCAAUUACGCCAAAGAGGGCGUAGUGG-GCGAGGUGCAGCGUGUAGGCCGAAACAAA---
(((....(((((.(((((((((((.((((((......)))))).)))).......((((((((......)))))))).)-)))))).)))))....)))..........--- ( -45.50, z-score =  -4.09, R)
>dp4.chr2 21135675 108 + 30794189
CCUUGAAGUUGUUCCUCGCCUUGUCGCCUGUUUGGCAUCAGGUCAUAAAAAUUCAAUUACGCCAAAGAGGGCGUAGUGG-GCGAGGUGCAGCGUGUAGGCCGAAACAAA---
(((....(((((.(((((((((((.(((((........))))).)))).......((((((((......)))))))).)-)))))).)))))....)))..........--- ( -43.70, z-score =  -3.94, R)
>droAna3.scaffold_13340 3652310 80 + 23697760
-------UCUUUUCCUCGGCUUGUCGCCUC----------GGUCAUAAAAAUUCAAUUAUGU-GAAGGAGGCGUGCCGGCACAAGGAGUAAAAAAAGG--------------
-------....(((((.((((.((((((((----------..(((((.((......)).)))-))..)))))).)).))).).)))))..........-------------- ( -25.80, z-score =  -2.98, R)
>consensus
_____UCUUUGUUCCUCGGCUUGUCGCCCG__________GGUCAUAAAAAUUCAAUUAUGU_GAAGAAGGCGUGCUGGCACAAGAAGUAGGGAGCAAAAAAAAAA______
..........(((((((..(((((.(((............((..........))...(((((........)))))..))))))))..).)).))))................ (-11.49 = -10.97 +  -0.51)

alignment

secondary structure

dotplot

Window 0

Location	21,396,986 – 21,397,082
Length	96
Sequences	8
Columns	112
Reading direction	reverse
Mean pairwise identity	70.94
Shannon entropy	0.53262
G+C content	0.47435
Mean single sequence MFE	-23.67
Consensus MFE	-10.72
Energy contribution	-11.06
Covariance contribution	0.34
Combinations/Pair	1.22
Mean z-score	-1.72
Structure conservation index	0.45
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.80
SVM RNA-class probability	0.821733
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 21396986 96 - 27905053
UUUUUUUCUUUUUUUGGCUCCCUACUUCUUGUGCCAGCACGCCUCCUUC-ACAUAAUUGAAUUUUUAUGACC----------CGGGCGACAAGCCGAGGAACAAAGA-----
...((((..((((((((((...........(((....)))((((.....-.(((((........)))))...----------.))))....))))))))))..))))----- ( -20.90, z-score =  -1.23, R)
>droEre2.scaffold_4820 3824543 85 + 10470090
-----------UUUUUGCUCCCUACUACUUGUGCCAGCACGCCUCCUUC-ACAUAAUUGAAUUUUUAUGACC----------CGGGCGACAAGCCGAGGAACAAAGA-----
-----------((((((.(((......((((((....).(((((.....-.(((((........)))))...----------.))))))))))....))).))))))----- ( -17.70, z-score =  -1.16, R)
>droYak2.chr3R 3749190 97 + 28832112
---UUUUUUUCCAUGUGCUCCCUACUUCUUGUGCCAGCACGCCUUCUUC-ACCUAAUUGAAUUUUUAUGACC----------CAGGCGACAAGCCGAGGAACCAAGAAGCC-
---...........(((((...(((.....)))..)))))..(((((((-(......)))..........((----------..(((.....)))..)).....)))))..- ( -18.70, z-score =  -0.78, R)
>droSec1.super_13 184977 90 - 2104621
------CUUUUUUUUAGCUCCCUACUUCUUGUGCCAGCACGCCUGCUUC-ACAUAAUUGAAUUUUUAUGACC----------CGGGCGACAAGCCGAGGAACAAAGA-----
------..............(((....((((((((((((....))))..-.(((((........)))))...----------..))).)))))...)))........----- ( -18.50, z-score =  -0.63, R)
>droSim1.chr3R 21225634 90 - 27517382
------UUUUUUUUUGGCUCCCUGCUUCUUGUGCCAGCACGCCUGCUUC-ACAUAAUUGAAUUUUUAUGACC----------CGGGCGACAAGCCGAGGAACAAAGA-----
------...((((((((((...((((.........))))((((((....-.(((((........)))))...----------))))))...))))))))))......----- ( -23.50, z-score =  -1.35, R)
>droPer1.super_3 3910207 108 - 7375914
---UUUGUUUCGGCCUACACGCUGCACCUCGC-CCACUACGCCCUCUUUGGCGUAAUUGAAUUUUUAUGACCUGCUGCCAAACAGGCGACAAGGCGAGGAACAACUUCAAGG
---.(((((.((((......))))..((((((-(...((((((......)))))).................((.((((.....)))).)).))))))))))))........ ( -33.30, z-score =  -2.48, R)
>dp4.chr2 21135675 108 - 30794189
---UUUGUUUCGGCCUACACGCUGCACCUCGC-CCACUACGCCCUCUUUGGCGUAAUUGAAUUUUUAUGACCUGAUGCCAAACAGGCGACAAGGCGAGGAACAACUUCAAGG
---.(((((.((((......))))..((((((-(.....((((...((((((((......((....))......))))))))..))))....))))))))))))........ ( -34.10, z-score =  -3.02, R)
>droAna3.scaffold_13340 3652310 80 - 23697760
--------------CCUUUUUUUACUCCUUGUGCCGGCACGCCUCCUUC-ACAUAAUUGAAUUUUUAUGACC----------GAGGCGACAAGCCGAGGAAAAGA-------
--------------...........((((((.((..(..((((((....-.(((((........)))))...----------)))))).)..)))))))).....------- ( -22.70, z-score =  -3.06, R)
>consensus
______UUUUCUUUUUGCUCCCUACUUCUUGUGCCAGCACGCCUCCUUC_ACAUAAUUGAAUUUUUAUGACC__________CAGGCGACAAGCCGAGGAACAAAGA_____
.........................((((((.((.....(((((.......(((((........)))))..............)))))....))))))))............ (-10.72 = -11.06 +   0.34)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:43:30 2011