Locus 6908

Sequence ID dm3.chr3L
Location 10,697,592 – 10,697,689
Length 97
Max. P 0.986611
window9510 window9511

overview

Window 0

Location 10,697,592 – 10,697,689
Length 97
Sequences 5
Columns 107
Reading direction forward
Mean pairwise identity 83.12
Shannon entropy 0.28982
G+C content 0.35887
Mean single sequence MFE -26.16
Consensus MFE -16.04
Energy contribution -16.36
Covariance contribution 0.32
Combinations/Pair 1.25
Mean z-score -3.11
Structure conservation index 0.61
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.24
SVM RNA-class probability 0.986611
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 10697592 97 + 24543557
---CUGGCGUGGUAUAAAAAGCAGCGUACAUU-----UU--GGGUGUGGGUUCGAGUGUAAAUAAAACCCAUUUAAAAAAUUACGCUGUUUUUAUAAGGUAACAAUG
---.....((..((((((((.(((((((.(((-----((--....(((((((..(.......)..)))))))....)))))))))))))))))))).....)).... ( -26.60, z-score =  -2.82, R)
>droSec1.super_0 2918363 96 + 21120651
---CUGGCCUCGUAUAAAA-GCAGCGAACAUU-----UU--UGGUGUGGGUUCGAGUGUAAAUAAAACCCAUUUAAAAAAUUACGCUGUUUUUAUAAGGUAACAAUG
---...((((..(((((((-((((((...(((-----((--(...(((((((..(.......)..)))))))...))))))..)))))))))))))))))....... ( -31.40, z-score =  -4.85, R)
>droYak2.chr3L 10707878 95 + 24197627
------CUCUGGGAUAAAA-GCAGCGAACAUU-----UUUGGGGUGUGGGUUCGAGUGUAAAUAAAACCCAUUUAAAAAAUUACGCUGUUUUUAUAAGGUAACAAUG
------.(((...((((((-((((((...(((-----(((.....(((((((..(.......)..)))))))...))))))..)))))))))))).)))........ ( -26.00, z-score =  -3.23, R)
>droEre2.scaffold_4784 10696457 93 + 25762168
------CUCUGGGAUAAAA-GCAGUGAACAUU-----UU--GGGUGUGGGUUCGAGUGUAAAUAAAACCCAUUUAAAAAAUUACGCUGUUUUUAUAAGGUAACAAUG
------.(((...((((((-((((((...(((-----((--....(((((((..(.......)..)))))))....)))))..)))))))))))).)))........ ( -24.20, z-score =  -2.97, R)
>droAna3.scaffold_13337 15609316 106 + 23293914
CCGGGGAUAUGGGAUAAAA-GCGGCGAGAGCUGAAAAUUCACAGAACGGGAAAGUGUGUAAAUAAAACCCAUUUAAAAAAUUACGCUGUUUUUAUAAGGUAACAAUG
(((......))).((((((-((((((.(..(((........)))..)(((....(((....)))...))).............))))))))))))............ ( -22.60, z-score =  -1.68, R)
>consensus
_____GCUCUGGGAUAAAA_GCAGCGAACAUU_____UU__GGGUGUGGGUUCGAGUGUAAAUAAAACCCAUUUAAAAAAUUACGCUGUUUUUAUAAGGUAACAAUG
......((((...((((((.((((((.(((((..........)))))(((((...((....))..))))).............)))))))))))).))))....... (-16.04 = -16.36 +   0.32)

alignment

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secondary structure

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dotplot

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Window 1

Location 10,697,592 – 10,697,689
Length 97
Sequences 5
Columns 107
Reading direction reverse
Mean pairwise identity 83.12
Shannon entropy 0.28982
G+C content 0.35887
Mean single sequence MFE -18.26
Consensus MFE -8.66
Energy contribution -9.50
Covariance contribution 0.84
Combinations/Pair 1.05
Mean z-score -2.59
Structure conservation index 0.47
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.32
SVM RNA-class probability 0.642602
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 10697592 97 - 24543557
CAUUGUUACCUUAUAAAAACAGCGUAAUUUUUUAAAUGGGUUUUAUUUACACUCGAACCCACACCC--AA-----AAUGUACGCUGCUUUUUAUACCACGCCAG---
...........((((((((((((((((((((.....(((((((...........))))))).....--))-----))).))))))).)))))))).........--- ( -23.00, z-score =  -4.55, R)
>droSec1.super_0 2918363 96 - 21120651
CAUUGUUACCUUAUAAAAACAGCGUAAUUUUUUAAAUGGGUUUUAUUUACACUCGAACCCACACCA--AA-----AAUGUUCGCUGC-UUUUAUACGAGGCCAG---
........((((((((((.(((((..((((((....(((((((...........)))))))....)--))-----)))...))))).-))))))..))))....--- ( -24.20, z-score =  -4.06, R)
>droYak2.chr3L 10707878 95 - 24197627
CAUUGUUACCUUAUAAAAACAGCGUAAUUUUUUAAAUGGGUUUUAUUUACACUCGAACCCACACCCCAAA-----AAUGUUCGCUGC-UUUUAUCCCAGAG------
............((((((.(((((..((((((....(((((((...........)))))))......)))-----)))...))))).-)))))).......------ ( -19.00, z-score =  -3.26, R)
>droEre2.scaffold_4784 10696457 93 - 25762168
CAUUGUUACCUUAUAAAAACAGCGUAAUUUUUUAAAUGGGUUUUAUUUACACUCGAACCCACACCC--AA-----AAUGUUCACUGC-UUUUAUCCCAGAG------
............((((((.(((.(..(((((.....(((((((...........))))))).....--))-----)))...).))).-)))))).......------ ( -13.70, z-score =  -1.48, R)
>droAna3.scaffold_13337 15609316 106 - 23293914
CAUUGUUACCUUAUAAAAACAGCGUAAUUUUUUAAAUGGGUUUUAUUUACACACUUUCCCGUUCUGUGAAUUUUCAGCUCUCGCCGC-UUUUAUCCCAUAUCCCCGG
....(((((((.........)).))))).......(((((....(((((((.((......))..)))))))....(((.......))-).....)))))........ ( -11.40, z-score =   0.42, R)
>consensus
CAUUGUUACCUUAUAAAAACAGCGUAAUUUUUUAAAUGGGUUUUAUUUACACUCGAACCCACACCC__AA_____AAUGUUCGCUGC_UUUUAUCCCAGACC_____
............(((((..((((((((....)))..(((((((...........)))))))....................)))))...)))))............. ( -8.66 =  -9.50 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:16:50 2011