Locus 12767

Sequence ID	dm3.chrX
Location	2,035,346 – 2,035,454
Length	108
Max. P	0.990939

overview

Window 8

Location	2,035,346 – 2,035,442
Length	96
Sequences	5
Columns	102
Reading direction	reverse
Mean pairwise identity	76.80
Shannon entropy	0.36225
G+C content	0.50011
Mean single sequence MFE	-25.36
Consensus MFE	-17.06
Energy contribution	-17.66
Covariance contribution	0.60
Combinations/Pair	1.22
Mean z-score	-2.20
Structure conservation index	0.67
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	1.68
SVM RNA-class probability	0.960311
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chrX 2035346 96 - 22422827
AUCAAAGAAUUCAAAAUGAUCACGGAGCGAAAGCUCCCCAG------GAGAGAGAGCGAACUGAGCUUUCAGAGCGAAAGCGAGUGAGUGAGCACACCACAG
.((................((..(((((....)))))....------....((((((.......)))))).))((....))))(((.(((....)))))).. ( -31.00, z-score =  -3.77, R)
>droEre2.scaffold_4644 1998561 85 - 2521924
-------------AUAUGAUCGCUGAGCAAAAGCUCCCCUGGAGAGAGAGAGAGAGCGCACUGAGCUUUCAGAGAGAAGAAGAGUAAGUAA----UCUACAG
-------------....(((..((..((.....((((...)))).......((((((.......)))))).............)).))..)----))..... ( -17.00, z-score =   0.53, R)
>droYak2.chrX 15481868 83 + 21770863
-------------AUAUGAUCGCUGAGCGAAAGCUCCUCUG--CAGAGAGAAAGAGCGCACUGAGCUUUCAGAGAGCAGAAGAGCACGUAG----UCCACAG
-------------.((((.((((...))))..((((.((((--(.....(((((..(.....)..))))).....))))).)))).)))).----....... ( -24.10, z-score =  -0.41, R)
>droSec1.super_10 1818903 85 - 3036183
-------------AUAUGAUCGCUGAGCGAAAGCUCCCCAG----GAGAGAGAGAGCAAACUGAGCUUUCAGAGCGAAAGAGAGUGAGUGAGUACACCACAG
-------------......(((((((((....)))).....----......((((((.......))))))..)))))......(((.(((....)))))).. ( -28.00, z-score =  -4.12, R)
>droSim1.chrX 1417405 83 - 17042790
-------------AUAUGAUCGCUGAGCGAAAGCUCCCCAG------GAGAGAGAGCGAACUGAGCUUUCAGAGCGAAAGAGAGUGAGUGAGUACACUACAG
-------------......(((((((((....)))).....------....((((((.......))))))..)))))......((.((((....)))))).. ( -26.70, z-score =  -3.22, R)
>consensus
_____________AUAUGAUCGCUGAGCGAAAGCUCCCCAG____GAGAGAGAGAGCGAACUGAGCUUUCAGAGCGAAAGAGAGUGAGUGAG_ACACCACAG
...................(((((((((....))))...............((((((.......))))))............)))))(((.......))).. (-17.06 = -17.66 +   0.60)

alignment

secondary structure

dotplot

Window 9

Location	2,035,356 – 2,035,454
Length	98
Sequences	4
Columns	102
Reading direction	reverse
Mean pairwise identity	75.14
Shannon entropy	0.36347
G+C content	0.53273
Mean single sequence MFE	-25.15
Consensus MFE	-17.75
Energy contribution	-17.88
Covariance contribution	0.12
Combinations/Pair	1.14
Mean z-score	-2.56
Structure conservation index	0.71
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	2.45
SVM RNA-class probability	0.990939
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chrX 2035356 98 - 22422827
CCCCCCCCCUCCAUCAAAGAAUUCAAAAUGAUCACGGAGCGAAAGCUCCCCAG----GAGAGAGAGCGAACUGAGCUUUCAGAGCGAAAGCGAGUGAGUGAG
........((((((((............))))...(((((....)))))...)----))).((((((.......))))))...((....))........... ( -30.40, z-score =  -3.66, R)
>droYak2.chrX 15481874 85 + 21770863
-----------CCCCAG------CCAUAUGAUCGCUGAGCGAAAGCUCCUCUGCAGAGAGAAAGAGCGCACUGAGCUUUCAGAGAGCAGAAGAGCACGUAGU
-----------......------...((((.((((...))))..((((.(((((.....(((((..(.....)..))))).....))))).)))).)))).. ( -24.10, z-score =  -0.78, R)
>droSec1.super_10 1818913 83 - 3036183
------------CCCAAA-----CCAUAUGAUCGCUGAGCGAAAGCUCCCCAG--GAGAGAGAGAGCAAACUGAGCUUUCAGAGCGAAAGAGAGUGAGUGAG
------------.....(-----((((....(((((((((....)))).....--......((((((.......))))))..)))))......))).))... ( -22.70, z-score =  -2.81, R)
>droSim1.chrX 1417415 81 - 17042790
------------CCCAAA-----CCAUAUGAUCGCUGAGCGAAAGCUCCCCAG----GAGAGAGAGCGAACUGAGCUUUCAGAGCGAAAGAGAGUGAGUGAG
------------.....(-----((((....(((((((((....)))).....----....((((((.......))))))..)))))......))).))... ( -23.40, z-score =  -2.98, R)
>consensus
____________CCCAAA_____CCAUAUGAUCGCUGAGCGAAAGCUCCCCAG____GAGAGAGAGCGAACUGAGCUUUCAGAGCGAAAGAGAGUGAGUGAG
...............................((((.((((....)))).............((((((.......)))))).................)))). (-17.75 = -17.88 +   0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:08:23 2011