Locus 8079

Sequence ID dm3.chr3L
Location 20,094,380 – 20,094,479
Length 99
Max. P 0.940521
window11120 window11121

overview

Window 0

Location 20,094,380 – 20,094,479
Length 99
Sequences 8
Columns 111
Reading direction forward
Mean pairwise identity 69.81
Shannon entropy 0.59958
G+C content 0.69372
Mean single sequence MFE -42.44
Consensus MFE -26.40
Energy contribution -27.20
Covariance contribution 0.80
Combinations/Pair 1.14
Mean z-score -1.04
Structure conservation index 0.62
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.44
SVM RNA-class probability 0.940521
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 20094380 99 + 24543557
------------CCAUUUCCGCCCAUUCUGUCGCCGCCGUGGGCGUGGCUGCCGCUGGAGCGGAAGAGGCGACCGGCGCCUCCAAGCUCCGCGGCCGAGAUGCCAUCGAGG
------------((.....(((((((..((....))..)))))))((((.(((((.(((((....((((((.....))))))...))))))))))......))))....)) ( -46.80, z-score =  -0.91, R)
>droAna3.scaffold_13337 18254279 102 - 23293914
CCCGAUAUGGCGCCGGGUCCGCCCGCCAAACCGCCA---------UGGCUGCCGUUGGAACGAAAGAGGCGACCGGCGCCUCCCAGUUCCGCGGCCGAGAUGCCAUCAAUG
...(((((((((.((((....))))......)))))---------)(((.(((((.(((((....((((((.....))))))...))))))))))......)))))).... ( -45.10, z-score =  -2.06, R)
>droSim1.chr3L 19389172 99 + 22553184
------------CCAUUUCCACCCAUUCCGGCACCGCCGUGCGCGUGGCUGCCGCUGGAGCGGAAGAGGCGACCGGCGCCUCCAAGCUCCGCGGCCGAGAUGCCAUCAAGG
------------.((((((..........(.((((((...))).))).).(((((.(((((....((((((.....))))))...)))))))))).))))))......... ( -43.00, z-score =  -0.97, R)
>droSec1.super_11 10390 84 + 2888827
------------CCAUUUCCACCCAUUCCG---------------UGGCUGCCGCUGGAGCGGAAGAGGCGACCGGCGCCUCCAAGCUCCGCGGCCGAGAUGCCAUCGAGG
------------.............(((.(---------------((((.(((((.(((((....((((((.....))))))...))))))))))......))))).))). ( -38.70, z-score =  -2.15, R)
>droYak2.chr3L 3729271 108 - 24197627
CCUAAGCUUCCGCCAUUCCUGCCCAUUCCGGCGCCGCCG---GAGUGGCUGGCGCUGGAGCGGAAGAGGCGACCGGCGCCUCCAAGCUCCGCGGCCGAGAUACCAUCGAGG
(((........(((...((.(((.((((((((...))))---))))))).)).((.(((((....((((((.....))))))...))))))))))(((.......)))))) ( -50.40, z-score =  -1.25, R)
>droEre2.scaffold_4784 19832131 111 + 25762168
CCUAAGAUUCCGCCGCUCCUGCCCAUUGCGGCGCCGCCGUGGGCGUGGCUGGCGCUGGAGCGGAAGAGGCGACCGGCGCCUCCCAGCUCCGCGGCGGAAAUGCCAUCGAGG
.......(((((((((....((((((.(((....))).))))))(..((((((((....)))...((((((.....)))))))))))..))))))))))............ ( -60.50, z-score =  -1.95, R)
>dp4.chrXR_group6 4677684 111 + 13314419
GUUGAACCACCACCGCCCCCAGUACUACCACCUCCGCCAAGGCAGUGGCCGCCAUGCGAGCGAUAGAGACGACCGGCGCCACCCAGCUCGGCAGCCGAGAUGCCAUUGAUG
.....................................((((((((((((.(((...((..(....)...))...))))))))....(((((...))))).)))).)))... ( -27.50, z-score =   0.49, R)
>droPer1.super_9 2978343 111 + 3637205
GUUGAACCACCACCGCCCCCAGUACUACCACCUCCGCCAAGGCAGUGGCCGCCAUGCGAGCGAUAGAGACGACCGGCGCCACCCAGCUCGGCAGCCGAGAUGCCAUUGAUG
.....................................((((((((((((.(((...((..(....)...))...))))))))....(((((...))))).)))).)))... ( -27.50, z-score =   0.49, R)
>consensus
__U_A____CC_CCAUUCCCACCCAUUCCGCCGCCGCCG_GGGAGUGGCUGCCGCUGGAGCGGAAGAGGCGACCGGCGCCUCCAAGCUCCGCGGCCGAGAUGCCAUCGAGG
............................................(((((.(((((.(((((....((((((.....))))))...))))))))))......)))))..... (-26.40 = -27.20 +   0.80)

alignment

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secondary structure

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dotplot

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Window 1

Location 20,094,380 – 20,094,479
Length 99
Sequences 8
Columns 111
Reading direction reverse
Mean pairwise identity 69.81
Shannon entropy 0.59958
G+C content 0.69372
Mean single sequence MFE -47.81
Consensus MFE -26.40
Energy contribution -25.34
Covariance contribution -1.06
Combinations/Pair 1.43
Mean z-score -0.61
Structure conservation index 0.55
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.10
SVM RNA-class probability 0.544476
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 20094380 99 - 24543557
CCUCGAUGGCAUCUCGGCCGCGGAGCUUGGAGGCGCCGGUCGCCUCUUCCGCUCCAGCGGCAGCCACGCCCACGGCGGCGACAGAAUGGGCGGAAAUGG------------
......((((......((((((((((..(((((((.....)))))))...))))).))))).))))((((((....(....)....)))))).......------------ ( -47.70, z-score =  -0.94, R)
>droAna3.scaffold_13337 18254279 102 + 23293914
CAUUGAUGGCAUCUCGGCCGCGGAACUGGGAGGCGCCGGUCGCCUCUUUCGUUCCAACGGCAGCCA---------UGGCGGUUUGGCGGGCGGACCCGGCGCCAUAUCGGG
.....(((((......((((.(((((.((((((((.....))))))))..)))))..)))).))))---------)..((((.((((.(.((....)).))))).)))).. ( -45.60, z-score =  -0.33, R)
>droSim1.chr3L 19389172 99 - 22553184
CCUUGAUGGCAUCUCGGCCGCGGAGCUUGGAGGCGCCGGUCGCCUCUUCCGCUCCAGCGGCAGCCACGCGCACGGCGGUGCCGGAAUGGGUGGAAAUGG------------
(((...(((((((...((((((((((..(((((((.....)))))))...))))).))))).(((........))))))))))....))).........------------ ( -50.50, z-score =  -1.44, R)
>droSec1.super_11 10390 84 - 2888827
CCUCGAUGGCAUCUCGGCCGCGGAGCUUGGAGGCGCCGGUCGCCUCUUCCGCUCCAGCGGCAGCCA---------------CGGAAUGGGUGGAAAUGG------------
(((((.((((......((((((((((..(((((((.....)))))))...))))).))))).))))---------------)))...))..........------------ ( -39.00, z-score =  -0.86, R)
>droYak2.chr3L 3729271 108 + 24197627
CCUCGAUGGUAUCUCGGCCGCGGAGCUUGGAGGCGCCGGUCGCCUCUUCCGCUCCAGCGCCAGCCACUC---CGGCGGCGCCGGAAUGGGCAGGAAUGGCGGAAGCUUAGG
(((............(((.(((((((..(((((((.....)))))))...))))).))))).(((..((---((((...))))))...))))))...(((....))).... ( -51.30, z-score =  -0.26, R)
>droEre2.scaffold_4784 19832131 111 - 25762168
CCUCGAUGGCAUUUCCGCCGCGGAGCUGGGAGGCGCCGGUCGCCUCUUCCGCUCCAGCGCCAGCCACGCCCACGGCGGCGCCGCAAUGGGCAGGAGCGGCGGAAUCUUAGG
(((....((...((((((((((..(((((((((((.....))))))...(((....))))))))..)(((((..(((....)))..)))))....))))))))).)).))) ( -58.80, z-score =  -1.58, R)
>dp4.chrXR_group6 4677684 111 - 13314419
CAUCAAUGGCAUCUCGGCUGCCGAGCUGGGUGGCGCCGGUCGUCUCUAUCGCUCGCAUGGCGGCCACUGCCUUGGCGGAGGUGGUAGUACUGGGGGCGGUGGUGGUUCAAC
.((((..(((..(.((((.((((.......)))))))))..))).(((((((((.((..((.((((((.((.....)).)))))).))..)).)))))))))))))..... ( -44.80, z-score =   0.26, R)
>droPer1.super_9 2978343 111 - 3637205
CAUCAAUGGCAUCUCGGCUGCCGAGCUGGGUGGCGCCGGUCGUCUCUAUCGCUCGCAUGGCGGCCACUGCCUUGGCGGAGGUGGUAGUACUGGGGGCGGUGGUGGUUCAAC
.((((..(((..(.((((.((((.......)))))))))..))).(((((((((.((..((.((((((.((.....)).)))))).))..)).)))))))))))))..... ( -44.80, z-score =   0.26, R)
>consensus
CCUCGAUGGCAUCUCGGCCGCGGAGCUGGGAGGCGCCGGUCGCCUCUUCCGCUCCAGCGGCAGCCACGCCC_CGGCGGCGCCGGAAUGGGCGGAAACGG_GG____U_A__
......((((......((((.(((((..(((((((.....)))))))...)))))..)))).)))).............(((......))).................... (-26.40 = -25.34 +  -1.06)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:39:05 2011