Locus 14114

Sequence ID	dm3.chrX
Location	11,274,440 – 11,274,550
Length	110
Max. P	0.988051

overview

Window 5

Location	11,274,440 – 11,274,535
Length	95
Sequences	5
Columns	112
Reading direction	forward
Mean pairwise identity	82.96
Shannon entropy	0.27924
G+C content	0.54633
Mean single sequence MFE	-31.74
Consensus MFE	-25.20
Energy contribution	-24.80
Covariance contribution	-0.40
Combinations/Pair	1.11
Mean z-score	-2.35
Structure conservation index	0.79
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	1.93
SVM RNA-class probability	0.975455
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chrX 11274440 95 + 22422827
-------CAGCCACACCCCCAAC---------GCCCAU-UCCCUUCCGCUGUCAGUGGCGGCGUCAGUUUGCAUUGAAAUGUAUGCAUUCGAGAUGCAUUCUGACAGUUUCU
-------.............(((---------......-........(((((.....)))))(((((..((((((..((((....))))...))))))..))))).)))... ( -26.70, z-score =  -1.89, R)
>droSim1.chrX 8704931 95 + 17042790
-------CUGCCACGCCCCCAAC---------GCCCGU-UCCCUUCCGCUGUCAGUGGCGGCGUCAGUUUGCAUUGAAAUGUAUGCAUUCGAGAUGCAUUCUGACAGUUUCU
-------(((((((((.......---------)).((.-.......))......))))))).(((((..((((((..((((....))))...))))))..)))))....... ( -29.10, z-score =  -2.06, R)
>droSec1.super_15 1953111 95 + 1954846
-------CUGCCACGCCUCCAAC---------GCCCGU-UCCCUUCCGCUGUCAGUGGCAGCGUCAGUUUGCAUUGAAAUGUAUGCAUUCGAGAUGCAUUCUGACAGUUUCU
-------(((((((((.......---------)).((.-.......))......))))))).(((((..((((((..((((....))))...))))))..)))))....... ( -29.80, z-score =  -2.59, R)
>droYak2.chrX 10892140 104 - 21770863
-------CUGCCACGCCCCCUACCCGUUGCAAACGCGC-CCCCUUCCGCUGUCAGUGGCGGCGUCAGUUUGCAUUGAAAUGUGUGCAUUCGAGAUGCAUUCUGACAGUUUCU
-------(((((((((............))....(((.-.......))).....))))))).(((((..((((((..((((....))))...))))))..)))))....... ( -33.00, z-score =  -2.02, R)
>droAna3.scaffold_13047 611851 101 - 1816235
GGGGGUUCCGGUACCCGUCCGCCC--------ACCCGUACCCCCAGCGCUGUCAGUG---GCGUCAGUUUGCAUUGAAAUGUGUGCAUUUGAGAUGCAUUCUGACAGUUUCU
((((((.(.(((...(....)...--------))).).))))))...((((((((..---(((((.(..(((((........)))))..)..)))))...)))))))).... ( -40.10, z-score =  -3.22, R)
>consensus
_______CUGCCACGCCCCCAAC_________GCCCGU_UCCCUUCCGCUGUCAGUGGCGGCGUCAGUUUGCAUUGAAAUGUAUGCAUUCGAGAUGCAUUCUGACAGUUUCU
...............................................((((((((.....(((((.(..(((((........)))))..)..)))))...)))))))).... (-25.20 = -24.80 +  -0.40)

alignment

secondary structure

dotplot

Window 6

Location	11,274,448 – 11,274,550
Length	102
Sequences	5
Columns	112
Reading direction	forward
Mean pairwise identity	84.20
Shannon entropy	0.26565
G+C content	0.53673
Mean single sequence MFE	-29.34
Consensus MFE	-25.20
Energy contribution	-24.80
Covariance contribution	-0.40
Combinations/Pair	1.11
Mean z-score	-2.43
Structure conservation index	0.86
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	2.30
SVM RNA-class probability	0.988051
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chrX 11274448 102 + 22422827
---------CCCCCAACGCCCAU-UCCCUUCCGCUGUCAGUGGCGGCGUCAGUUUGCAUUGAAAUGUAUGCAUUCGAGAUGCAUUCUGACAGUUUCUGAUUUCCGCUUCCCG
---------........((....-........(((((.....)))))(((((..((((((..((((....))))...))))))..)))))..............))...... ( -27.80, z-score =  -2.27, R)
>droSim1.chrX 8704939 102 + 17042790
---------CCCCCAACGCCCGU-UCCCUUCCGCUGUCAGUGGCGGCGUCAGUUUGCAUUGAAAUGUAUGCAUUCGAGAUGCAUUCUGACAGUUUCUGAUUUCCGCUUCCCG
---------........((....-........(((((.....)))))(((((..((((((..((((....))))...))))))..)))))..............))...... ( -27.80, z-score =  -2.05, R)
>droSec1.super_15 1953119 102 + 1954846
---------CCUCCAACGCCCGU-UCCCUUCCGCUGUCAGUGGCAGCGUCAGUUUGCAUUGAAAUGUAUGCAUUCGAGAUGCAUUCUGACAGUUUCUGAUUUCCGCUUCCCG
---------........((....-........(((((.....)))))(((((..((((((..((((....))))...))))))..)))))..............))...... ( -28.50, z-score =  -2.68, R)
>droYak2.chrX 10892148 111 - 21770863
CCCCCUACCCGUUGCAAACGCGC-CCCCUUCCGCUGUCAGUGGCGGCGUCAGUUUGCAUUGAAAUGUGUGCAUUCGAGAUGCAUUCUGACAGUUUCUGAUUUCCGCUUCCCG
........((((..(..(((((.-.......))).))..)..)))).(((((..((((((..((((....))))...))))))..)))))...................... ( -31.80, z-score =  -2.19, R)
>droAna3.scaffold_13047 611866 95 - 1816235
--------CGUCCGCCCACCCGUACCCCCAGCGCUGUCAGUG---GCGUCAGUUUGCAUUGAAAUGUGUGCAUUUGAGAUGCAUUCUGACAGUUUCUGAUUUCCGC------
--------......................(((..(((((..---(((((((..((((((.(((((....)))))..))))))..))))).))..)))))...)))------ ( -30.80, z-score =  -2.97, R)
>consensus
_________CCCCCAACGCCCGU_UCCCUUCCGCUGUCAGUGGCGGCGUCAGUUUGCAUUGAAAUGUAUGCAUUCGAGAUGCAUUCUGACAGUUUCUGAUUUCCGCUUCCCG
................................((((((((.....(((((.(..(((((........)))))..)..)))))...))))))))................... (-25.20 = -24.80 +  -0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:33:56 2011