Locus 9935

Sequence ID	dm3.chr3R
Location	9,926,940 – 9,927,032
Length	92
Max. P	0.742666

overview

Window 1

Location	9,926,940 – 9,927,032
Length	92
Sequences	14
Columns	99
Reading direction	reverse
Mean pairwise identity	70.67
Shannon entropy	0.65581
G+C content	0.59576
Mean single sequence MFE	-32.29
Consensus MFE	-14.19
Energy contribution	-14.35
Covariance contribution	0.16
Combinations/Pair	1.58
Mean z-score	-1.09
Structure conservation index	0.44
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.56
SVM RNA-class probability	0.742666
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 9926940 92 - 27905053
UUCCUCUGCUGGGCCCCCUUCCACGCCCAGCGACUGAUUGCCAUCUACGCCCCUGCACGGGGGGCCAAACUGCGGGAUCAGCACGAGUUUGU-------
...(((.(((((((..........)))))))(.((((((.(((.....((((((.....)))))).....)).).)))))))..))).....------- ( -36.10, z-score =  -1.28, R)
>droPer1.super_0 6989871 92 - 11822988
UUCCUUUGCUGGGCCCCCUUCCAUGCCCAGCGACUGAUUGCCAUCUAUGCCCCCGCCCGGGGCGCCAAGCUGCACGAACAGCACGAGCUUCU-------
.((..(((((((((..........)))))))))..))..(((......(((((.....))))).....((((......))))..).))....------- ( -32.50, z-score =  -1.75, R)
>dp4.chr2 17334594 92 + 30794189
UUCCUUUGCUGGGCCCCCUUCCAUGCCCAGCGACUGAUUGCCAUCUAUGCCCCCGCCCGGGGCGCCAAGCUGCACGAACAGCACGAGCUUCU-------
.((..(((((((((..........)))))))))..))..(((......(((((.....))))).....((((......))))..).))....------- ( -32.50, z-score =  -1.75, R)
>droEre2.scaffold_4770 9472408 92 - 17746568
UUUCUGUGCUGGGCCCCCUUCCACGCCCAGCGACUGAUUGCCAUCUACGCCCCUGUGCCGGGGGCCAAACUGCGGCACCAGCACGAGUUUGU-------
..((..((((((((..........))))))))...))...........(((((((...)))))))((((((.((((....)).)))))))).------- ( -36.00, z-score =  -1.37, R)
>droYak2.chr3R 12328402 92 + 28832112
UUCCUGUGCUGGGCCCCCUUCCACGCCCAGCGACUGAUUGCCAUCUACGCCCCUGCACGGGGGGCCAAACUGCGGGAUCAGCACGAGUUUGU-------
.......(((((((..........)))))))(.((((((.(((.....((((((.....)))))).....)).).)))))))..........------- ( -33.80, z-score =  -0.25, R)
>droSec1.super_0 9031336 92 + 21120651
UUCCUCUGCUGGGCCCCCUUCCACGCCCAGCGACUGAUUGCCAUCUACGCCCCUGCACGGGGGGCCAAACUGCGGGAUCAGCACGAGUUUGU-------
...(((.(((((((..........)))))))(.((((((.(((.....((((((.....)))))).....)).).)))))))..))).....------- ( -36.10, z-score =  -1.28, R)
>droSim1.chr3R 16015268 92 + 27517382
UUCCUCUGCUGGGCCCCCUUCCACGCCCAGCGACUGAUUGCCAUCUACGCCCCUGCACGGGGGGCCAAACUGCGGGAUCAGCACGAGUUUGU-------
...(((.(((((((..........)))))))(.((((((.(((.....((((((.....)))))).....)).).)))))))..))).....------- ( -36.10, z-score =  -1.28, R)
>triCas2.ChLG10 4512953 84 + 8806720
UUCAUCUGCUGGGCCCCUUUCCACGCUCAGCGCCUGCUGGCCAUCUACGGCGAGCAA--ACUUCAGCUGGAAUGAUCCGA----GCCUUU---------
.......(((((((..........)))))))...((((.(((......))).)))).--......((((((....))).)----))....--------- ( -27.70, z-score =  -0.98, R)
>apiMel3.Group2 12020902 89 + 14465785
UUCAUUUGCUGGGCUCCUUUUCACACUCAGCGAUUACUCUACGUCUAUGCGCAAGAAU---CUGAUUAUUAUCCAGACUUGAACGAAUGGCU-------
.....((((((((............)))))))).........(((..((..((((..(---(((.........))))))))..))...))).------- ( -16.80, z-score =  -0.49, R)
>droWil1.scaffold_181089 10804614 92 - 12369635
UUUUUGUGCUGGGCUCCAUUUCAUGCCCAAAGGUUGAUUGCCAUUUAUGCACCAGAACGAGGAGCCGAAAGUCAAGAGGAACAUAAGUUCCU-------
.(((((.(((.((((((..(((.(((..((((((.....))).)))..)))...)))...))))))...))))))))(((((....))))).------- ( -27.40, z-score =  -1.80, R)
>droVir3.scaffold_13047 17964890 92 - 19223366
UUUCUGUGCUGGGCACCAUUUCACGCACAGCGUCUGAUUGCCAUUUAUGCGCCCGCCCGGGGCGCCCAGUUGCAUGAUCAGCAUGAGCUCCU-------
...((((((((((......)))).))))))(((((((((((.(((...((((((.....))))))..))).)))..))))).))).......------- ( -31.40, z-score =  -0.33, R)
>droMoj3.scaffold_6540 20403412 92 + 34148556
UUUCUGUGCUGGGCACCAUUUCACGCGCAGCGUCUGAUUGCCAUUUACGCGCCAGCGCGGGGCGCCCAGCUCCAUGAUCAGCAUGAGCUCCU-------
.......(((((((.((......(((((.((((.(((.......))).))))..))))).)).)))))))..((((.....)))).......------- ( -36.00, z-score =  -1.17, R)
>droGri2.scaffold_14906 10480037 99 + 14172833
UUCCUGUGCUGGGCGCCAUUUCACGCCCAACGCCUUAUGGCCGUCUAUGGAGUGUCGUUGAUUAAUGUGUGUCGUUGCCAGGAUGCCUUCAACGAUUAU
((((((.((((((((........))))))..(((....))).)).)).)))).((((((((.....(.(((((........)))))).))))))))... ( -29.80, z-score =  -0.83, R)
>droAna3.scaffold_13340 3153298 92 + 23697760
UUUCUCUGCUGGGCCCCCUUCCACGCCCAGCGGCUGAUUGCCAUCUACGCCCCUGCCCGGGGGGCCAAGUUGCGGGAGCAGCACGAGUUCGU-------
...(((.(((((((..........)))))))(((.....)))......((((((.....))))))...(((((....)))))..))).....------- ( -39.90, z-score =  -0.67, R)
>consensus
UUCCUGUGCUGGGCCCCCUUCCACGCCCAGCGACUGAUUGCCAUCUACGCCCCUGCACGGGGGGCCAAGCUGCGGGAUCAGCACGAGUUUCU_______
......((((((((..........)))))))).................((((.......))))................................... (-14.19 = -14.35 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:14:12 2011