Locus 6896

Sequence ID dm3.chr3L
Location 10,616,396 – 10,616,516
Length 120
Max. P 0.881008
window9494 window9495

overview

Window 4

Location 10,616,396 – 10,616,516
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.25
Shannon entropy 0.18990
G+C content 0.59667
Mean single sequence MFE -49.88
Consensus MFE -36.64
Energy contribution -38.48
Covariance contribution 1.84
Combinations/Pair 1.14
Mean z-score -2.40
Structure conservation index 0.73
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.02
SVM RNA-class probability 0.875923
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 10616396 120 + 24543557
ACGCCCAGGUCGGCCAGGCAUUCCCUGACCAGGUCGUCCUGGUCUUCCGCUGCCAGGUCUACCCGGUUGCCCUGGAUUAGCAAAGGAGCUUACAUGUCGAAGACUCCUCUGUUUCAUAGG
..((((.(((.((((.((((......(((((((....)))))))......)))).)))).))).))..))((((....((((.((((((((........))).))))).))))...)))) ( -48.00, z-score =  -2.69, R)
>droEre2.scaffold_4784 10613782 120 + 25762168
ACGUCCAGGUCGCCCAGGAAUUCCCUGGCCCGGUCGCCCUGGUAUUCCGGUGCCAGGUCUACCCGGCUGGCCAGGAUUAGCAAAGGAGCUUACAUGACGAAGACUUCUCUGUUGCAGAGG
..((((.((((...((((.....))))(((.(((.(.((((((((....)))))))).).))).))).)))).))))(((((.((((((((........))).))))).)))))...... ( -46.80, z-score =  -1.08, R)
>droYak2.chr3L 10613969 120 + 24197627
CCGUCCAGGUCGCCCAGGAAUUCCCUGGCCAGGUCGUCCUGGUAUUCCGGUGCCAGGUCUUCCUGGCUGUCCUGGAUUAGCGAAGUAGCUUACAUGGCGCAGACUUCUCUGUUUCACUGG
(((((((((.(...((((.....))))((((((..(.((((((((....)))))))).)..)))))).).)))))))(((.(((((.(((.....)))....))))).))).......)) ( -54.00, z-score =  -4.14, R)
>droSec1.super_0 2837702 120 + 21120651
ACGCCCAGGUCGGCCAGGCAUUCCCUGACCAGGUCGUCCUGGUCUUCCGCUGCCAGGUCUACCCGGCUGCCCUGGAUUAGCAAAGGAGCUUACAUGGCGGAAACUCCGCUGUUUCAUAGG
..(((((((.(((((.((((......(((((((....)))))))......)))).((....)).))))).)))))....))...(((((......(((((.....))))))))))..... ( -50.30, z-score =  -2.13, R)
>droSim1.chr3L 10007404 120 + 22553184
ACGCCCAGGUCGGCCAGGCAUUCCCUGACCAGGUCGUCCUGGUCUUCCUCUGCCAGGUCUACCCGGCUGCCCUGGAUUAGCAAAGGAGCUUACAUGGCGGAGACUCCGCUGUUUCAUAGG
..(((((((.(((((.((((......(((((((....)))))))......)))).((....)).))))).)))))....))...(((((......(((((.....))))))))))..... ( -50.30, z-score =  -1.94, R)
>consensus
ACGCCCAGGUCGGCCAGGCAUUCCCUGACCAGGUCGUCCUGGUCUUCCGCUGCCAGGUCUACCCGGCUGCCCUGGAUUAGCAAAGGAGCUUACAUGGCGAAGACUCCUCUGUUUCAUAGG
....(((((.(((((.((((......(((((((....)))))))......)))).((....)).))))).)))))...((((.((((((((........))).))))).))))....... (-36.64 = -38.48 +   1.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 10,616,396 – 10,616,516
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.25
Shannon entropy 0.18990
G+C content 0.59667
Mean single sequence MFE -49.88
Consensus MFE -40.46
Energy contribution -41.18
Covariance contribution 0.72
Combinations/Pair 1.12
Mean z-score -2.07
Structure conservation index 0.81
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.05
SVM RNA-class probability 0.881008
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 10616396 120 - 24543557
CCUAUGAAACAGAGGAGUCUUCGACAUGUAAGCUCCUUUGCUAAUCCAGGGCAACCGGGUAGACCUGGCAGCGGAAGACCAGGACGACCUGGUCAGGGAAUGCCUGGCCGACCUGGGCGU
.........((((((((.(((........)))))))))))....((((((....(((((((..((((((..(....)..((((....))))))))))...)))))))....))))))... ( -50.10, z-score =  -2.39, R)
>droEre2.scaffold_4784 10613782 120 - 25762168
CCUCUGCAACAGAGAAGUCUUCGUCAUGUAAGCUCCUUUGCUAAUCCUGGCCAGCCGGGUAGACCUGGCACCGGAAUACCAGGGCGACCGGGCCAGGGAAUUCCUGGGCGACCUGGACGU
.(((((...)))))..(((((((((.....(((......)))..((((((((.((((((....))))))...((....)).((....)).))))))))........)))))...)))).. ( -49.60, z-score =  -1.61, R)
>droYak2.chr3L 10613969 120 - 24197627
CCAGUGAAACAGAGAAGUCUGCGCCAUGUAAGCUACUUCGCUAAUCCAGGACAGCCAGGAAGACCUGGCACCGGAAUACCAGGACGACCUGGCCAGGGAAUUCCUGGGCGACCUGGACGG
((((((((.((((....)))).((.......))...))))))..((((((...((((((((..((((((...(.....)((((....))))))))))...))))).)))..)))))).)) ( -47.40, z-score =  -2.91, R)
>droSec1.super_0 2837702 120 - 21120651
CCUAUGAAACAGCGGAGUUUCCGCCAUGUAAGCUCCUUUGCUAAUCCAGGGCAGCCGGGUAGACCUGGCAGCGGAAGACCAGGACGACCUGGUCAGGGAAUGCCUGGCCGACCUGGGCGU
...........((((.....)))).((((.(((......)))...(((((.(.((((((((..((((((..(....)..((((....))))))))))...)))))))).).))))))))) ( -52.00, z-score =  -1.96, R)
>droSim1.chr3L 10007404 120 - 22553184
CCUAUGAAACAGCGGAGUCUCCGCCAUGUAAGCUCCUUUGCUAAUCCAGGGCAGCCGGGUAGACCUGGCAGAGGAAGACCAGGACGACCUGGUCAGGGAAUGCCUGGCCGACCUGGGCGU
(((.....(((((((.....))))..)))....(((((((((.......))).((((((....)))))))))))).(((((((....))))))))))..(((((..(.....)..))))) ( -50.30, z-score =  -1.47, R)
>consensus
CCUAUGAAACAGAGGAGUCUCCGCCAUGUAAGCUCCUUUGCUAAUCCAGGGCAGCCGGGUAGACCUGGCAGCGGAAGACCAGGACGACCUGGUCAGGGAAUGCCUGGCCGACCUGGGCGU
.........(((((((((.............)))))))))....((((((....(((((((..((((((...(.....)((((....))))))))))...)))))))....))))))... (-40.46 = -41.18 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:16:37 2011