Locus 7779

Sequence ID dm3.chr3L
Location 17,247,411 – 17,247,507
Length 96
Max. P 0.995617
window10700 window10701

overview

Window 0

Location 17,247,411 – 17,247,507
Length 96
Sequences 6
Columns 96
Reading direction forward
Mean pairwise identity 74.31
Shannon entropy 0.50580
G+C content 0.51711
Mean single sequence MFE -29.52
Consensus MFE -16.92
Energy contribution -18.06
Covariance contribution 1.14
Combinations/Pair 1.28
Mean z-score -1.24
Structure conservation index 0.57
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.60
SVM RNA-class probability 0.759044
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 17247411 96 + 24543557
GUUGUGGAUGCCAAACAAGUUGCGAGCUCGACGAGGCUGGGUCGAACUUGUUUGGCCUGAAGGGAUUGAGCUUUAUUGGUGUUGUCUGUAAAGGUU
.(((..(((((((((((((((.(((.((((.......))))))))))))))))))).....((.((..(......)..)).)))))..)))..... ( -29.70, z-score =  -1.59, R)
>droSec1.super_0 9298326 96 + 21120651
GUUGUGGAUGCCAAACAAGUUGCGAGUUCGACGAAGCUGGGUCGAACUUGUUUGGCCUGAAGGGAUUGAGCUUUAUUGGUGGUGUCUGUAAAGGUU
.(((..((((((...(((...(((((((((((........))))))))))))))(((..((((.......))))...)))))))))..)))..... ( -32.60, z-score =  -3.00, R)
>droYak2.chr3L 7371785 96 - 24197627
GCUGUGGAUGCCAAACAAGUUGCGUGUUCGACGGGGCUGGGUCGAACUUGUUCGGCCUGAAGGGAUUGAGCUUUAUUGGUGGUGCCUGCAAAGGUU
((...((.((((((...((((.(((.....))).))))((((((((....))))))))((((........)))).))))))...)).))....... ( -28.20, z-score =   0.43, R)
>droEre2.scaffold_4784 9160035 96 - 25762168
GCUGUGGAUGCCAAACAAGUUGCGGGCUCGACGAGGCUGGUUCGAACUUGUUUGGCCAGAAGGGAUUGAGCUUUAUUGGUGGUGUCUGCAAAGGUU
..((..(((((((((((((((.((((((.(......).))))))))))))))).(((((.((((......)))).)))))))))))..))...... ( -34.90, z-score =  -2.18, R)
>droSim1.chrU 12069401 96 + 15797150
GUUGUGGAUGCCAAACAAGUUGCAUGCUCGACGAGGCUGGGUCGAACUUGUUUGGCCUGAAGGGAUUGAGCUUUAUUGGUGGUGUCUGUAAGGGUU
.(((..(((((((..(((.......((((((.......((((((((....)))))))).......))))))....))).)))))))..)))..... ( -29.64, z-score =  -1.30, R)
>droVir3.scaffold_13049 19175795 77 - 25233164
CCUGUGGAUGUCAAAC--UCAGCGCACGCAACAUGUUCGAGCUGUGCGCA---GACCCUCGUGCAUCUGGCAUACACAACGC--------------
..((((.(((((....--...((((((((...........)).))))))(---((..(....)..)))))))).))))....-------------- ( -22.10, z-score =   0.20, R)
>consensus
GCUGUGGAUGCCAAACAAGUUGCGAGCUCGACGAGGCUGGGUCGAACUUGUUUGGCCUGAAGGGAUUGAGCUUUAUUGGUGGUGUCUGUAAAGGUU
..((..((((((((((((((.......(((((........))))))))))))))))...((((.......)))).........)))..))...... (-16.92 = -18.06 +   1.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 17,247,411 – 17,247,507
Length 96
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 74.31
Shannon entropy 0.50580
G+C content 0.51711
Mean single sequence MFE -21.35
Consensus MFE -17.35
Energy contribution -17.08
Covariance contribution -0.27
Combinations/Pair 1.50
Mean z-score -2.02
Structure conservation index 0.81
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.82
SVM RNA-class probability 0.995617
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 17247411 96 - 24543557
AACCUUUACAGACAACACCAAUAAAGCUCAAUCCCUUCAGGCCAAACAAGUUCGACCCAGCCUCGUCGAGCUCGCAACUUGUUUGGCAUCCACAAC
........................................((((((((((((((((........)))))(....).)))))))))))......... ( -21.00, z-score =  -3.28, R)
>droSec1.super_0 9298326 96 - 21120651
AACCUUUACAGACACCACCAAUAAAGCUCAAUCCCUUCAGGCCAAACAAGUUCGACCCAGCUUCGUCGAACUCGCAACUUGUUUGGCAUCCACAAC
........................................((((((((((((((((........))))).......)))))))))))......... ( -20.91, z-score =  -3.71, R)
>droYak2.chr3L 7371785 96 + 24197627
AACCUUUGCAGGCACCACCAAUAAAGCUCAAUCCCUUCAGGCCGAACAAGUUCGACCCAGCCCCGUCGAACACGCAACUUGUUUGGCAUCCACAGC
...(((((..((.....))..)))))..............((((((((((((((((........))))).......)))))))))))......... ( -23.21, z-score =  -2.12, R)
>droEre2.scaffold_4784 9160035 96 + 25762168
AACCUUUGCAGACACCACCAAUAAAGCUCAAUCCCUUCUGGCCAAACAAGUUCGAACCAGCCUCGUCGAGCCCGCAACUUGUUUGGCAUCCACAGC
........((((........................))))((((((((((((((.....((........)).)).))))))))))))......... ( -19.36, z-score =  -1.15, R)
>droSim1.chrU 12069401 96 - 15797150
AACCCUUACAGACACCACCAAUAAAGCUCAAUCCCUUCAGGCCAAACAAGUUCGACCCAGCCUCGUCGAGCAUGCAACUUGUUUGGCAUCCACAAC
........................................((((((((((((((((........)))))(....).)))))))))))......... ( -21.00, z-score =  -3.15, R)
>droVir3.scaffold_13049 19175795 77 + 25233164
--------------GCGUUGUGUAUGCCAGAUGCACGAGGGUC---UGCGCACAGCUCGAACAUGUUGCGUGCGCUGA--GUUUGACAUCCACAGG
--------------.(.((((((((.....)))))))).).((---.((((((.((...........)))))))).))--................ ( -22.60, z-score =   1.27, R)
>consensus
AACCUUUACAGACACCACCAAUAAAGCUCAAUCCCUUCAGGCCAAACAAGUUCGACCCAGCCUCGUCGAGCACGCAACUUGUUUGGCAUCCACAAC
........................................((((((((((((((((........))))))).......)))))))))......... (-17.35 = -17.08 +  -0.27)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:33:15 2011