Locus 7465

Sequence ID dm3.chr3L
Location 14,972,459 – 14,972,595
Length 136
Max. P 0.863301
window10284 window10285

overview

Window 4

Location 14,972,459 – 14,972,571
Length 112
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 87.76
Shannon entropy 0.23042
G+C content 0.50223
Mean single sequence MFE -29.25
Consensus MFE -20.57
Energy contribution -21.13
Covariance contribution 0.56
Combinations/Pair 1.09
Mean z-score -2.31
Structure conservation index 0.70
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.96
SVM RNA-class probability 0.863301
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 14972459 112 + 24543557
UCCCCUAAUCAUUUCCUUUUCGCCGUGACUCCUUUCGAGAACCCUCCUCCUUAUAA------AAUCAUGGGAACGUACGUUAUGCGUGCGCUCCUCACGCGCAGGACACGUACGGAAG
............((((..(((.((((((........(((.......))).......------..))))))))).((((((....(.(((((.......))))).)..)))))))))). ( -30.93, z-score =  -2.61, R)
>droSim1.chr3L 14289388 112 + 22553184
UCCCCUAAUCAUUUCCUUUUUGCCGUGACUCCUUUCGAGAACCCUCCUCCUUAUAA------AAUCAUGGGAACGUACGUUAUGCGUGCGCUCCUCACGCGCAGGACACGUACGGAAG
............((((...((.((((((........(((.......))).......------..)))))).)).((((((....(.(((((.......))))).)..)))))))))). ( -30.03, z-score =  -2.44, R)
>droSec1.super_0 7088993 112 + 21120651
UCCCCUAAUCAUUUCCUUUUUGCCGUGACUCCUUUCGAGAACCCUCCUCCUUAUAA------AAUCAUGGGAACGUACGUUAGGCGUGCGCUCCUCAAGCGCAGGACACGUACGGAAG
............((((...((.((((((........(((.......))).......------..)))))).)).((((((....(.((((((.....)))))).)..)))))))))). ( -31.23, z-score =  -2.14, R)
>droYak2.chr3L 15060185 109 + 24197627
UCCCCUAAUCAUUUCCUUUUUUCCGUGACUCCUUUCGAGAACCCUC---CUUAUAA------AAUCAUGGGAACGUACGUUAUGCGUGCGCUCCUCACGCGCAGGACACGUACGGAAG
............((((...(((((((((........(((....)))---.......------..))))))))).((((((....(.(((((.......))))).)..)))))))))). ( -32.13, z-score =  -3.56, R)
>droEre2.scaffold_4784 14929126 109 + 25762168
UCCCCUAAUCAUUUCCUUUCUGCCGUGACUCCUUUCGAGAACCCUC---CUUAUAA------AAUCAUGGGAACGUACGUUAUGCGUGCGCUCCUCACGCGCAGGACACGUACGGAAG
............((((.(((((((((((........(((....)))---.......------.......(((.((((((.....)))))).)))))))).)))))).......)))). ( -30.00, z-score =  -2.43, R)
>droAna3.scaffold_13337 19145220 111 - 23293914
UCCCCUAAUCAUUUCCUUUUU-------CUUUUUCAGAAACCCUCUCCAUUUAUAGCCAUGGGAACAUGGGAACACACUUUAUGCGUACGCUCCUCACGCGCAGGACACGUUCGGAAG
............((((..(((-------((.....))))).....(((........(((((....)))))............(((((...........)))))))).......)))). ( -21.20, z-score =  -0.64, R)
>consensus
UCCCCUAAUCAUUUCCUUUUUGCCGUGACUCCUUUCGAGAACCCUCCUCCUUAUAA______AAUCAUGGGAACGUACGUUAUGCGUGCGCUCCUCACGCGCAGGACACGUACGGAAG
............((((............(((.....)))..(((........................)))...((((((....(.(((((.......))))).)..)))))))))). (-20.57 = -21.13 +   0.56)

alignment

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secondary structure

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dotplot

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Window 5

Location 14,972,499 – 14,972,595
Length 96
Sequences 7
Columns 113
Reading direction forward
Mean pairwise identity 77.04
Shannon entropy 0.42011
G+C content 0.53189
Mean single sequence MFE -27.94
Consensus MFE -19.36
Energy contribution -20.24
Covariance contribution 0.88
Combinations/Pair 1.26
Mean z-score -0.99
Structure conservation index 0.69
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.06
SVM RNA-class probability 0.526205
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 14972499 96 + 24543557
--------ACCCUCCUCCUUAUAAAAUCAUGGGAACGUACGUUAUGCGUGCGCUCCUCACGCGCAGGACACGUACGGAAGAAACCGUGGGAAUCG---AAACCGAAA------
--------.(((.(.((((...........)))).(((((((....(.(((((.......))))).)..))))))).........).)))..(((---....)))..------ ( -28.40, z-score =  -1.33, R)
>droSim1.chr3L 14289428 96 + 22553184
--------ACCCUCCUCCUUAUAAAAUCAUGGGAACGUACGUUAUGCGUGCGCUCCUCACGCGCAGGACACGUACGGAAGAAACCGUGGGAAUCG---AAACCGAAA------
--------.(((.(.((((...........)))).(((((((....(.(((((.......))))).)..))))))).........).)))..(((---....)))..------ ( -28.40, z-score =  -1.33, R)
>droSec1.super_0 7089033 96 + 21120651
--------ACCCUCCUCCUUAUAAAAUCAUGGGAACGUACGUUAGGCGUGCGCUCCUCAAGCGCAGGACACGUACGGAAGAAACCGUGGUAUUCG---AAACCGAAA------
--------.................(((((((...(((((((....(.((((((.....)))))).)..))))))).......))))))).((((---....)))).------ ( -30.60, z-score =  -2.05, R)
>droYak2.chr3L 15060225 92 + 24197627
-----------ACCCUCCUUAUAAAAUCAUGGGAACGUACGUUAUGCGUGCGCUCCUCACGCGCAGGACACGUACGGAAGAAACCGUGGGAAUCG---AAACCGAA-------
-----------.(((((((...........)))).(((((((....(.(((((.......))))).)..)))))))...........)))..(((---....))).------- ( -28.20, z-score =  -1.42, R)
>droEre2.scaffold_4784 14929166 92 + 25762168
-----------ACCCUCCUUAUAAAAUCAUGGGAACGUACGUUAUGCGUGCGCUCCUCACGCGCAGGACACGUACGGAAGAAAUCGUGGGAAUCG---AAACCGAA-------
-----------.(((((((...........)))).(((((((....(.(((((.......))))).)..)))))))...........)))..(((---....))).------- ( -28.20, z-score =  -1.47, R)
>droAna3.scaffold_13337 19145251 113 - 23293914
AACCCUCUCCAUUUAUAGCCAUGGGAACAUGGGAACACACUUUAUGCGUACGCUCCUCACGCGCAGGACACGUUCGGAAGGAACCGUGGGAAUCGGGGAACCCAAGAAUCGUU
..((((.(((........(((((....)))))...(((.......((....))((((..((.((.......)).))..))))...))))))...))))............... ( -29.80, z-score =   0.53, R)
>droPer1.super_12 966076 79 - 2414086
-------------------------AUGGCGAGGACAUGCUCCAUGCGUACGCUGCUCACGCGCAGGACACGCACGGAAGGAACCGUGAGAACCG---AACCCGAAA------
-------------------------....((.((......(((.(((((...((((......))))...))))).))).((...(....)..)).---..))))...------ ( -22.00, z-score =   0.13, R)
>consensus
_________C_CUCCUCCUUAUAAAAUCAUGGGAACGUACGUUAUGCGUGCGCUCCUCACGCGCAGGACACGUACGGAAGAAACCGUGGGAAUCG___AAACCGAAA______
..........................((((((...(((((((....(.(((((.......))))).)..))))))).......))))))........................ (-19.36 = -20.24 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:27:30 2011