Locus 7867

Sequence ID dm3.chr3L
Location 17,991,897 – 17,991,999
Length 102
Max. P 0.975439
window10827 window10828

overview

Window 7

Location 17,991,897 – 17,991,994
Length 97
Sequences 6
Columns 97
Reading direction reverse
Mean pairwise identity 86.80
Shannon entropy 0.25691
G+C content 0.56472
Mean single sequence MFE -34.58
Consensus MFE -27.95
Energy contribution -29.15
Covariance contribution 1.20
Combinations/Pair 1.10
Mean z-score -2.30
Structure conservation index 0.81
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.83
SVM RNA-class probability 0.970112
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 17991897 97 - 24543557
GAAUUCAGGAGCCUGGUAGCACCUGUCACAGAUCUGGAUACUGUGCCACCCACAGGUGUGACCAUGGCGAGUUCUUCGAAUUCUCCCAACUCCUCCG
......(((((((((((.(((((((((((((((....)).)))))......)))))))).)))).)))((((((...)))))).......))))... ( -35.20, z-score =  -2.90, R)
>droSim1.chr3L 17321554 97 - 22553184
GAAUUCAGGAGCCUGGUAGCACCUGUCACAGAUCUGGAUACUGUGCCACCCACAGGUGUGACCAUGGCGAGUUCUUCGAAUUCUCCCAACUCCUCCG
......(((((((((((.(((((((((((((((....)).)))))......)))))))).)))).)))((((((...)))))).......))))... ( -35.20, z-score =  -2.90, R)
>droSec1.super_89 94690 97 - 98649
GAAUUCAGGAGCCUGGUAGCACCUGUCACAGAUCUGGAUACUGUGCCACCCACAGGUGUGACCAUGGCGAGUUCUUCGAAUUCUUCCAACUCCUCCG
.......((((((((((.(((((((((((((((....)).)))))......)))))))).)))).)))((((((...)))))).))).......... ( -35.20, z-score =  -2.95, R)
>droYak2.chr3L 8139500 97 + 24197627
GAAUUCAGGAGCCUGGUAGCACCUGUCACAGAUCUGGAUACUGUGCCACCCACAGGUGUGACCAUGGCCAGUUCUUCGAAUUCUCCCAACUCCUCCG
(((((((((((((((((.(((((((((((((((....)).)))))......)))))))).)))).)))....)))).)))))).............. ( -34.50, z-score =  -2.93, R)
>droEre2.scaffold_4784 9873372 97 + 25762168
GAAUUCAGGAGCCUGGUAGCACCUGUCACAGAUCUGGAUACUGUGCCACCCACAGGUGUGACCAUGGCGAGUUCUUCGAAUUCUCCCAACUCCUCCG
......(((((((((((.(((((((((((((((....)).)))))......)))))))).)))).)))((((((...)))))).......))))... ( -35.20, z-score =  -2.90, R)
>droPer1.super_20 756027 84 - 1872136
---GCCCGGAGCCUGGUCGCACCUGUCACAGACAUGGAUACUGUGCCGCCCACA-GUGUGCCCAUGGGCAGCAACAGCAGCGGCGGCA---------
---((((((...)))(((((.((((((...)))).))((((((((.....))))-))))(((....))).((....)).)))))))).--------- ( -32.20, z-score =   0.77, R)
>consensus
GAAUUCAGGAGCCUGGUAGCACCUGUCACAGAUCUGGAUACUGUGCCACCCACAGGUGUGACCAUGGCGAGUUCUUCGAAUUCUCCCAACUCCUCCG
.......((((((((((.(((((((((((((((....)).)))))......)))))))).)))).)))((((((...))))))..........))). (-27.95 = -29.15 +   1.20)

alignment

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secondary structure

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dotplot

Postscript

Window 8

Location 17,991,903 – 17,991,999
Length 96
Sequences 7
Columns 99
Reading direction reverse
Mean pairwise identity 79.02
Shannon entropy 0.42105
G+C content 0.55749
Mean single sequence MFE -33.53
Consensus MFE -23.98
Energy contribution -24.57
Covariance contribution 0.59
Combinations/Pair 1.05
Mean z-score -1.92
Structure conservation index 0.72
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.93
SVM RNA-class probability 0.975439
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 17991903 96 - 24543557
AUCCGGAAUU---CAGGAGCCUGGUAGCACCUGUCACAGAUCUGGAUACUGUGCCACCCACAGGUGUGACCAUGGCGAGUUCUUCGAAUUCUCCCAACU
....((((((---((((((((((((.(((((((((((((((....)).)))))......)))))))).)))).)))....)))).)))))))....... ( -35.30, z-score =  -2.51, R)
>droSim1.chr3L 17321560 96 - 22553184
AUCCGGAAUU---CAGGAGCCUGGUAGCACCUGUCACAGAUCUGGAUACUGUGCCACCCACAGGUGUGACCAUGGCGAGUUCUUCGAAUUCUCCCAACU
....((((((---((((((((((((.(((((((((((((((....)).)))))......)))))))).)))).)))....)))).)))))))....... ( -35.30, z-score =  -2.51, R)
>droSec1.super_89 94696 96 - 98649
AUCCGGAAUU---CAGGAGCCUGGUAGCACCUGUCACAGAUCUGGAUACUGUGCCACCCACAGGUGUGACCAUGGCGAGUUCUUCGAAUUCUUCCAACU
....((((..---.....(((((((.(((((((((((((((....)).)))))......)))))))).)))).)))((((((...)))))))))).... ( -35.90, z-score =  -2.79, R)
>droYak2.chr3L 8139506 96 + 24197627
GUCCGGAAUU---CAGGAGCCUGGUAGCACCUGUCACAGAUCUGGAUACUGUGCCACCCACAGGUGUGACCAUGGCCAGUUCUUCGAAUUCUCCCAACU
....((((((---((((((((((((.(((((((((((((((....)).)))))......)))))))).)))).)))....)))).)))))))....... ( -35.30, z-score =  -2.42, R)
>droEre2.scaffold_4784 9873378 96 + 25762168
AUCCGGAAUU---CAGGAGCCUGGUAGCACCUGUCACAGAUCUGGAUACUGUGCCACCCACAGGUGUGACCAUGGCGAGUUCUUCGAAUUCUCCCAACU
....((((((---((((((((((((.(((((((((((((((....)).)))))......)))))))).)))).)))....)))).)))))))....... ( -35.30, z-score =  -2.51, R)
>droPer1.super_20 756033 83 - 1872136
------AUCUGGCCCGGAGCCUGGUCGCACCUGUCACAGACAUGGAUACUGUGCCGCCCACA-GUGUGCCCAUGGGCAGCAACAGCAGCG---------
------....((((.(....).))))((.((((((...)))).))((((((((.....))))-))))(((....))).((....)).)).--------- ( -27.70, z-score =   1.04, R)
>droVir3.scaffold_13049 4055952 79 + 25233164
AGACGGAAUACCAUCAGCGCCAGGUCGCACCUGUCACAGAAUUGGAUACUGUGCCGCCCGCAGGUGUGCCCAUGGCCAG--------------------
.((.((....)).)).(.((((((.((((((((((((((.........)))))......))))))))).)).)))))..-------------------- ( -29.90, z-score =  -1.73, R)
>consensus
AUCCGGAAUU___CAGGAGCCUGGUAGCACCUGUCACAGAUCUGGAUACUGUGCCACCCACAGGUGUGACCAUGGCGAGUUCUUCGAAUUCUCCCAACU
..................(((((((.(((((((((((((.........)))))......)))))))).)))).)))....................... (-23.98 = -24.57 +   0.59)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:34:59 2011