Locus 8488

Sequence ID dm3.chr3L
Location 23,646,508 – 23,646,561
Length 53
Max. P 0.987467
window11659 window11660

overview

Window 9

Location 23,646,508 – 23,646,561
Length 53
Sequences 3
Columns 65
Reading direction forward
Mean pairwise identity 63.35
Shannon entropy 0.50085
G+C content 0.44076
Mean single sequence MFE -16.20
Consensus MFE -12.03
Energy contribution -11.82
Covariance contribution -0.21
Combinations/Pair 1.41
Mean z-score -1.08
Structure conservation index 0.74
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.22
SVM RNA-class probability 0.911583
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 23646508 53 + 24543557
AGUGGAAUUUAAUGAUAAGG------------UUUAUAUAUCCAAACUCUCUCGGUAUAGGUAGU
..((((.....((((.....------------.))))...)))).(((..((......))..))) (  -3.40, z-score =   1.86, R)
>droYak2.chr2h_random 3289744 65 - 3774259
GGUGGAAUAUGAAGAGUAGGAGAUUUAUGUCGCCCUGCUCCCCAAAUUCCCUUGGUAUAGGCAGA
((.(((((.((..(((((((.(((....)))..)))))))..)).)))))))............. ( -20.10, z-score =  -1.77, R)
>droEre2.scaffold_4929 5491231 61 - 26641161
GGUGGAGUUUGAAGAGUAGGAGUU----GUCGCCCUGCUCUCCAAAUUCCCUUGGCAUAGGCAAG
...((((((((.((((((((.((.----...)))))))))).))))))))((((.(...).)))) ( -25.10, z-score =  -3.35, R)
>consensus
GGUGGAAUUUGAAGAGUAGGAG_U____GUCGCCCUGCUCUCCAAAUUCCCUUGGUAUAGGCAGA
((.((((((((..(((((((.............)))))))..))))))))))............. (-12.03 = -11.82 +  -0.21)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 23,646,508 – 23,646,561
Length 53
Sequences 3
Columns 65
Reading direction reverse
Mean pairwise identity 63.35
Shannon entropy 0.50085
G+C content 0.44076
Mean single sequence MFE -14.97
Consensus MFE -11.08
Energy contribution -13.20
Covariance contribution 2.12
Combinations/Pair 1.24
Mean z-score -1.72
Structure conservation index 0.74
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.28
SVM RNA-class probability 0.987467
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 23646508 53 - 24543557
ACUACCUAUACCGAGAGAGUUUGGAUAUAUAAA------------CCUUAUCAUUAAAUUCCACU
..............(.(((((((((((......------------...))))..))))))))... (  -4.80, z-score =  -0.21, R)
>droYak2.chr2h_random 3289744 65 + 3774259
UCUGCCUAUACCAAGGGAAUUUGGGGAGCAGGGCGACAUAAAUCUCCUACUCUUCAUAUUCCACC
...............(((((.(((((((.((((.((......)))))).))))))).)))))... ( -19.80, z-score =  -2.29, R)
>droEre2.scaffold_4929 5491231 61 + 26641161
CUUGCCUAUGCCAAGGGAAUUUGGAGAGCAGGGCGAC----AACUCCUACUCUUCAAACUCCACC
((((.......))))(((.(((((((((.((((....----...)))).))))))))).)))... ( -20.30, z-score =  -2.65, R)
>consensus
ACUGCCUAUACCAAGGGAAUUUGGAGAGCAGGGCGAC____A_CUCCUACUCUUCAAAUUCCACC
...............(((((((((((((.((((...........)))).)))))))))))))... (-11.08 = -13.20 +   2.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:46:34 2011