Locus 6016

Sequence ID dm3.chr3L
Location 3,085,519 – 3,085,617
Length 98
Max. P 0.996308
window8278 window8279

overview

Window 8

Location 3,085,519 – 3,085,617
Length 98
Sequences 5
Columns 98
Reading direction forward
Mean pairwise identity 98.57
Shannon entropy 0.02464
G+C content 0.68163
Mean single sequence MFE -38.16
Consensus MFE -38.12
Energy contribution -38.12
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.11
Structure conservation index 1.00
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.57
SVM RNA-class probability 0.746643
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 3085519 98 + 24543557
AACAGCAACAGCAUCCGCCGUCGGUGGGCGGAGGAGCUGUGUCCGCCGCCUCCGCCCCCAUUGCCAUUAGUGGCGCUCCACCGAAUCCCGCCGCAGCU
.........(((....((.((.((.(((((((((.((.......))..))))))))))))).)).....((((((.............)))))).))) ( -38.12, z-score =  -0.97, R)
>droEre2.scaffold_4784 3093692 98 + 25762168
AACAGCAACAGCAUCCGCCGUCGGUGGGCGGAGGAGCUGUGUCCGCCGCCUCCGCCCCCAUUGCCAUUAGUGGCGCACCACCGAAUCCCGCCGCAGCU
.........(((....((.((.((.(((((((((.((.......))..))))))))))))).)).....((((((.............)))))).))) ( -38.12, z-score =  -0.99, R)
>droYak2.chr3L 15335597 98 - 24197627
AACAGCAACAGCAUCCGCCGUCGGUGGGCGGAGGAGCUGUGUCCGCCGCCUCCGCCCCCAUAGCCAUUAGUGGCGCACCACCAAAUCCCGCCGCAGCU
.........(((....((..(.((.(((((((((.((.......))..))))))))))))..)).....((((((.............)))))).))) ( -38.32, z-score =  -1.66, R)
>droSec1.super_2 3078992 98 + 7591821
AACAGCAACAGCAUCCGCCGUCGGUGGGCGGAGGAGCUGUGUCCGCCGCCUCCGCCCCCAUUGCCAUUAGUGGCGCUCCACCGAAUCCCGCCGCAGCU
.........(((....((.((.((.(((((((((.((.......))..))))))))))))).)).....((((((.............)))))).))) ( -38.12, z-score =  -0.97, R)
>droSim1.chr3L 2608382 98 + 22553184
AACAGCAACAGCAUCCGCCGUCGGUGGGCGGAGGAGCUGUGUCCGCCGCCUCCGCCCCCAUUGCCAUUAGUGGCGCUCCACCGAAUCCCGCCGCAGCU
.........(((....((.((.((.(((((((((.((.......))..))))))))))))).)).....((((((.............)))))).))) ( -38.12, z-score =  -0.97, R)
>consensus
AACAGCAACAGCAUCCGCCGUCGGUGGGCGGAGGAGCUGUGUCCGCCGCCUCCGCCCCCAUUGCCAUUAGUGGCGCUCCACCGAAUCCCGCCGCAGCU
.........(((....((.((.((.(((((((((.((.......))..))))))))))))).)).....((((((.............)))))).))) (-38.12 = -38.12 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 3,085,519 – 3,085,617
Length 98
Sequences 5
Columns 98
Reading direction reverse
Mean pairwise identity 98.57
Shannon entropy 0.02464
G+C content 0.68163
Mean single sequence MFE -53.00
Consensus MFE -53.16
Energy contribution -53.00
Covariance contribution -0.16
Combinations/Pair 1.03
Mean z-score -3.02
Structure conservation index 1.00
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.91
SVM RNA-class probability 0.996308
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 3085519 98 - 24543557
AGCUGCGGCGGGAUUCGGUGGAGCGCCACUAAUGGCAAUGGGGGCGGAGGCGGCGGACACAGCUCCUCCGCCCACCGACGGCGGAUGCUGUUGCUGUU
(((.(((((((.(((((.((....((((....))))..((((((((((((.(((.......)))))))))))).))).)).))))).))))))).))) ( -53.50, z-score =  -3.21, R)
>droEre2.scaffold_4784 3093692 98 - 25762168
AGCUGCGGCGGGAUUCGGUGGUGCGCCACUAAUGGCAAUGGGGGCGGAGGCGGCGGACACAGCUCCUCCGCCCACCGACGGCGGAUGCUGUUGCUGUU
(((.(((((((.(((((.((....((((....))))..((((((((((((.(((.......)))))))))))).))).)).))))).))))))).))) ( -53.50, z-score =  -2.99, R)
>droYak2.chr3L 15335597 98 + 24197627
AGCUGCGGCGGGAUUUGGUGGUGCGCCACUAAUGGCUAUGGGGGCGGAGGCGGCGGACACAGCUCCUCCGCCCACCGACGGCGGAUGCUGUUGCUGUU
(((.(((((((.(((((.((....((((....))))..((((((((((((.(((.......)))))))))))).))).)).))))).))))))).))) ( -51.00, z-score =  -2.49, R)
>droSec1.super_2 3078992 98 - 7591821
AGCUGCGGCGGGAUUCGGUGGAGCGCCACUAAUGGCAAUGGGGGCGGAGGCGGCGGACACAGCUCCUCCGCCCACCGACGGCGGAUGCUGUUGCUGUU
(((.(((((((.(((((.((....((((....))))..((((((((((((.(((.......)))))))))))).))).)).))))).))))))).))) ( -53.50, z-score =  -3.21, R)
>droSim1.chr3L 2608382 98 - 22553184
AGCUGCGGCGGGAUUCGGUGGAGCGCCACUAAUGGCAAUGGGGGCGGAGGCGGCGGACACAGCUCCUCCGCCCACCGACGGCGGAUGCUGUUGCUGUU
(((.(((((((.(((((.((....((((....))))..((((((((((((.(((.......)))))))))))).))).)).))))).))))))).))) ( -53.50, z-score =  -3.21, R)
>consensus
AGCUGCGGCGGGAUUCGGUGGAGCGCCACUAAUGGCAAUGGGGGCGGAGGCGGCGGACACAGCUCCUCCGCCCACCGACGGCGGAUGCUGUUGCUGUU
(((.(((((((.(((((.((....((((....))))..((((((((((((.(((.......)))))))))))).))).)).))))).))))))).))) (-53.16 = -53.00 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:59:40 2011