Locus 11646

Sequence ID dm3.chr3R
Location 22,714,507 – 22,714,608
Length 101
Max. P 0.867561
window15997 window15998

overview

Window 7

Location 22,714,507 – 22,714,608
Length 101
Sequences 7
Columns 107
Reading direction forward
Mean pairwise identity 69.76
Shannon entropy 0.61407
G+C content 0.47787
Mean single sequence MFE -30.33
Consensus MFE -12.15
Energy contribution -14.21
Covariance contribution 2.06
Combinations/Pair 1.21
Mean z-score -1.69
Structure conservation index 0.40
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.98
SVM RNA-class probability 0.867561
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 22714507 101 + 27905053
UGGAAACUUGACGAGAAUACAGCUGCAGAUGCGGGCAGAUGCAGAUGCAGAUGCACAU----AUAUGUAUGUAGAUGCAGAGCAUGUGCAGCCUCAACGA--AAUAU
.(....)(((..(((......((((((.((((..(((..(((....)))..)))....----...(((((....)))))..)))).)))))))))..)))--..... ( -32.00, z-score =  -2.44, R)
>droSim1.chr3R 22545405 86 + 27517382
UGAAAACUUGACGAGAAUACAGCUGCAGAUGCGGGCAGAUGCAGAUGCA------------------UCUGUAGAUGCAGAGCAUGUGCAGCCGCAACGA--AUGA-
.....................((((((.((((..(((..((((((....------------------))))))..)))...)))).))))))........--....- ( -31.00, z-score =  -3.00, R)
>droSec1.super_13 1487787 102 + 2104621
UGAAAACUUGACGAGAAUACAGCUGCAGAUGCGGGCAGAUGCAGAUGCAGAUACAGAUGC--ACAUACAUGUGGAUGCAGAGCAUGUGCAGCCGCAACGA--AUGA-
.....................((((((.((((..(((..((((..((((........)))--)......))))..)))...)))).))))))........--....- ( -29.00, z-score =  -1.32, R)
>droYak2.chr3R 5057995 101 - 28832112
UGGAAACUUGACGAGUAUACAGCUGCAGAUGCGGGCAGAUGCAGAUGCAGAUACAUAGGC--ACAUAUAUGUAGAUGCAGAGCAUGUGCAGGCACAACAACGA----
.(....)....((.........((((....))))(((.((((...((((..((((((...--.....))))))..))))..)))).)))...........)).---- ( -29.70, z-score =  -2.26, R)
>droEre2.scaffold_4820 5144165 106 - 10470090
UGGAAACUUGACGAGAAUACAGCUGCAGAUGCGGGCAGAUGCAGAUGCAGAUACAGAUACAGAUGCACAUAUAGAUGCAGAGCAUGUGCAUGUGCAGCCACAACGA-
(((...................(((((..((((......))))..))))).............(((((((.((.((((...)))).)).))))))).)))......- ( -29.40, z-score =  -1.47, R)
>droMoj3.scaffold_6540 11710523 96 + 34148556
-UGAAACUUG----GGUUGUGU-UGCAG-CACCCGC--AUGCAGAUGCAGAUGCAGAUGGUGAUGUCGAUGUAGAUAAAAUUCAUGUGCAGCGACUGC-AUAAUAA-
-........(----(((.((..-....)-)))))..--((((((.(((...((((.((((...((((......))))....)))).))))))).))))-)).....- ( -28.90, z-score =  -0.90, R)
>droVir3.scaffold_12855 2499847 103 + 10161210
-UGAAACUUGUACGGGAUGCGGGCGCAG-CAGAUGCCGAUGCUGAUGCAGAUGCAGAUGUCGAAGUCGAUGUAGAUAAAGCUCAUGUGCAUCGGCUGC-AUAAUAA-
-...............((((((((((((-((........))))).))).((((((.(((.(...(((......)))...)..))).))))))..))))-)).....- ( -32.30, z-score =  -0.41, R)
>consensus
UGGAAACUUGACGAGAAUACAGCUGCAGAUGCGGGCAGAUGCAGAUGCAGAUACAGAUGC__AUAUAUAUGUAGAUGCAGAGCAUGUGCAGCCGCAACGA__AUGA_
......................(((((.((((..((....))...((((..((((..............))))..))))..)))).)))))................ (-12.15 = -14.21 +   2.06)

alignment

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secondary structure

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dotplot

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Window 8

Location 22,714,507 – 22,714,608
Length 101
Sequences 7
Columns 107
Reading direction reverse
Mean pairwise identity 69.76
Shannon entropy 0.61407
G+C content 0.47787
Mean single sequence MFE -27.46
Consensus MFE -10.82
Energy contribution -11.16
Covariance contribution 0.33
Combinations/Pair 1.42
Mean z-score -1.69
Structure conservation index 0.39
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.87
SVM RNA-class probability 0.840887
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 22714507 101 - 27905053
AUAUU--UCGUUGAGGCUGCACAUGCUCUGCAUCUACAUACAUAU----AUGUGCAUCUGCAUCUGCAUCUGCCCGCAUCUGCAGCUGUAUUCUCGUCAAGUUUCCA
.....--.......(((((((.((((.........(((((....)----))))(((..(((....)))..)))..)))).))))))).................... ( -24.90, z-score =  -0.76, R)
>droSim1.chr3R 22545405 86 - 27517382
-UCAU--UCGUUGCGGCUGCACAUGCUCUGCAUCUACAGA------------------UGCAUCUGCAUCUGCCCGCAUCUGCAGCUGUAUUCUCGUCAAGUUUUCA
-....--.((.((((((((((.((((..((((((....))------------------))))...((....))..)))).))))))))))....))........... ( -30.20, z-score =  -3.45, R)
>droSec1.super_13 1487787 102 - 2104621
-UCAU--UCGUUGCGGCUGCACAUGCUCUGCAUCCACAUGUAUGU--GCAUCUGUAUCUGCAUCUGCAUCUGCCCGCAUCUGCAGCUGUAUUCUCGUCAAGUUUUCA
-....--.((.((((((((((.((((...(((.....(((((.((--(((........))))).))))).)))..)))).))))))))))....))........... ( -32.00, z-score =  -2.67, R)
>droYak2.chr3R 5057995 101 + 28832112
----UCGUUGUUGUGCCUGCACAUGCUCUGCAUCUACAUAUAUGU--GCCUAUGUAUCUGCAUCUGCAUCUGCCCGCAUCUGCAGCUGUAUACUCGUCAAGUUUCCA
----..(((((.((((..(((.((((..((((..((((((.....--...))))))..))))...)))).)))..))))..)))))..................... ( -28.00, z-score =  -2.07, R)
>droEre2.scaffold_4820 5144165 106 + 10470090
-UCGUUGUGGCUGCACAUGCACAUGCUCUGCAUCUAUAUGUGCAUCUGUAUCUGUAUCUGCAUCUGCAUCUGCCCGCAUCUGCAGCUGUAUUCUCGUCAAGUUUCCA
-.((.((..((((((.((((..((((..((((..((((.((((....)))).))))..))))...))))......)))).))))))..))....))........... ( -30.40, z-score =  -1.63, R)
>droMoj3.scaffold_6540 11710523 96 - 34148556
-UUAUUAU-GCAGUCGCUGCACAUGAAUUUUAUCUACAUCGACAUCACCAUCUGCAUCUGCAUCUGCAU--GCGGGUG-CUGCA-ACACAACC----CAAGUUUCA-
-......(-(((((((.((...((((...))))...)).))))..........((((((((((....))--)))))))-)))))-........----.........- ( -22.60, z-score =  -0.99, R)
>droVir3.scaffold_12855 2499847 103 - 10161210
-UUAUUAU-GCAGCCGAUGCACAUGAGCUUUAUCUACAUCGACUUCGACAUCUGCAUCUGCAUCAGCAUCGGCAUCUG-CUGCGCCCGCAUCCCGUACAAGUUUCA-
-.......-(((((.(((((....(((((.........(((....)))....(((....)))..))).)).))))).)-)))).......................- ( -24.10, z-score =  -0.27, R)
>consensus
_UCAU__UCGUUGCGGCUGCACAUGCUCUGCAUCUACAUAUACAU__GCAUCUGCAUCUGCAUCUGCAUCUGCCCGCAUCUGCAGCUGUAUUCUCGUCAAGUUUCCA
.........(((((((.(((..((((...))))....................((...(((....)))...))..))).)))))))..................... (-10.82 = -11.16 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:46:49 2011