Locus 15397

Sequence ID dm3.chrX
Location 18,841,533 – 18,841,644
Length 111
Max. P 0.705717
window21206 window21207

overview

Window 6

Location 18,841,533 – 18,841,644
Length 111
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 78.64
Shannon entropy 0.40259
G+C content 0.47222
Mean single sequence MFE -31.10
Consensus MFE -17.75
Energy contribution -19.59
Covariance contribution 1.84
Combinations/Pair 1.36
Mean z-score -1.62
Structure conservation index 0.57
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.30
SVM RNA-class probability 0.635581
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 18841533 111 + 22422827
----AGUCCCAGGCAGAACCUUUAACGUUCUAUCGACAAAAGUCUCAUUGUCUCACGGGCCACAUGGCCCUGUAAUCAAAUAUCAAUGAGAUGAAGGAGGUACUAUCAUUCUGCA
----........(((((((((((..((......))......(((((((((......(((((....)))))((....)).....)))))))))))))).(((...))).)))))). ( -32.50, z-score =  -2.55, R)
>droSim1.chrX_random 4891541 111 + 5698898
----AGUCCCAGGCAGAACCUUUAACGGUCUACCGACAAAAGUCUCAUUGUCUCACGGGCCACAUGGCCCUGUAAUCAAAUGUCAAUGAGAUGAAGGAGGUACUAUCAUUCUGCA
----........(((((((((((..(((....)))......(((((((((.(....(((((....)))))((....))...).)))))))))))))).(((...))).)))))). ( -37.20, z-score =  -3.09, R)
>droSec1.super_8 1145691 111 + 3762037
----AGUCCCAGGCAGAACCUUUAACGGCCUACCGACAAAAGUCUCAUUGUCUCACGGGCCACAUGGCCCUGUAAUCAAAUGUCAAUGAGAUGAAGGACGUACUAUCAUUCUGCA
----........(((((((((((..(((....)))......(((((((((.(....(((((....)))))((....))...).))))))))))))))..(......).)))))). ( -35.90, z-score =  -3.09, R)
>droYak2.chrX 17458456 111 + 21770863
----AGUUUCAGGCAGAAUCUUUAACGGUCUACCGACAAAAAUCUCAUUGUCUCACGGAGCUCGUGGCCCUGCAAUCAAAUAUCAAUGAGAUGGAGGAGGCACUAUCAUCCUGCA
----........((((...........((((.((..((....((((((((...((((.....))))((...))..........))))))))))..)))))).........)))). ( -25.65, z-score =   0.23, R)
>droEre2.scaffold_4690 9133453 111 + 18748788
----AGUCCCAGGCAGAACCUUUAACGGUCUAUCGACAAAAGUCUCAUUGUCUCACGGGCCACAUGGCCCUGCAAUCAAAUAUCAAUGAGAUGGAGGCGGUACUAUCAUCCUGCA
----........((((.(((......))).(((((.(....(((((((((...((.(((((....)))))))...........)))))))))....))))))........)))). ( -32.24, z-score =  -1.52, R)
>droVir3.scaffold_12726 779741 100 + 2840439
CAACAGCGUGCCACGCCGUCGCCAGCGUGUCUUUGACAAAAGGCUCAUUGUUUUGC----CAUAUGGUCCCGUAAUCAAAUAUCAAUG----GAAGGGUCCACUUCCA-------
.......(.(((((((........))))(((...)))....))).)((((.((((.----..((((....))))..))))...))))(----((((......))))).------- ( -23.10, z-score =   0.27, R)
>consensus
____AGUCCCAGGCAGAACCUUUAACGGUCUACCGACAAAAGUCUCAUUGUCUCACGGGCCACAUGGCCCUGUAAUCAAAUAUCAAUGAGAUGAAGGAGGUACUAUCAUUCUGCA
...........(..((.((((((..(((....)))......(((((((((...((.(((((....)))))))...........)))))))))...)))))).))..)........ (-17.75 = -19.59 +   1.84)

alignment

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secondary structure

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dotplot

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Window 7

Location 18,841,533 – 18,841,644
Length 111
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 78.64
Shannon entropy 0.40259
G+C content 0.47222
Mean single sequence MFE -33.25
Consensus MFE -20.89
Energy contribution -22.50
Covariance contribution 1.61
Combinations/Pair 1.25
Mean z-score -1.48
Structure conservation index 0.63
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.46
SVM RNA-class probability 0.705717
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 18841533 111 - 22422827
UGCAGAAUGAUAGUACCUCCUUCAUCUCAUUGAUAUUUGAUUACAGGGCCAUGUGGCCCGUGAGACAAUGAGACUUUUGUCGAUAGAACGUUAAAGGUUCUGCCUGGGACU----
.(((((((................((((((((........((((.(((((....)))))))))..))))))))((((...((......))..)))))))))))........---- ( -32.20, z-score =  -1.56, R)
>droSim1.chrX_random 4891541 111 - 5698898
UGCAGAAUGAUAGUACCUCCUUCAUCUCAUUGACAUUUGAUUACAGGGCCAUGUGGCCCGUGAGACAAUGAGACUUUUGUCGGUAGACCGUUAAAGGUUCUGCCUGGGACU----
.(((((((................((((((((.(....).((((.(((((....)))))))))..))))))))((((...(((....)))..)))))))))))........---- ( -36.60, z-score =  -2.17, R)
>droSec1.super_8 1145691 111 - 3762037
UGCAGAAUGAUAGUACGUCCUUCAUCUCAUUGACAUUUGAUUACAGGGCCAUGUGGCCCGUGAGACAAUGAGACUUUUGUCGGUAGGCCGUUAAAGGUUCUGCCUGGGACU----
................(((((...((((((((.(....).((((.(((((....)))))))))..))))))))........((((((((......)).)))))).))))).---- ( -38.80, z-score =  -2.41, R)
>droYak2.chrX 17458456 111 - 21770863
UGCAGGAUGAUAGUGCCUCCUCCAUCUCAUUGAUAUUUGAUUGCAGGGCCACGAGCUCCGUGAGACAAUGAGAUUUUUGUCGGUAGACCGUUAAAGAUUCUGCCUGAAACU----
.(((((((...............(((((((((.............((((.....))))(....).)))))))))(((((.(((....))).))))))))))))........---- ( -28.60, z-score =  -0.46, R)
>droEre2.scaffold_4690 9133453 111 - 18748788
UGCAGGAUGAUAGUACCGCCUCCAUCUCAUUGAUAUUUGAUUGCAGGGCCAUGUGGCCCGUGAGACAAUGAGACUUUUGUCGAUAGACCGUUAAAGGUUCUGCCUGGGACU----
.(((((((................((((((((........(..(.(((((....))))))..)..))))))))((((.(((....)))....)))))))))))........---- ( -32.50, z-score =  -0.72, R)
>droVir3.scaffold_12726 779741 100 - 2840439
-------UGGAAGUGGACCCUUC----CAUUGAUAUUUGAUUACGGGACCAUAUG----GCAAAACAAUGAGCCUUUUGUCAAAGACACGCUGGCGACGGCGUGGCACGCUGUUG
-------((((((......))))----))......((((((...(((..(((.((----......)))))..)))...))))))..(((((((....)))))))........... ( -30.80, z-score =  -1.58, R)
>consensus
UGCAGAAUGAUAGUACCUCCUUCAUCUCAUUGAUAUUUGAUUACAGGGCCAUGUGGCCCGUGAGACAAUGAGACUUUUGUCGAUAGACCGUUAAAGGUUCUGCCUGGGACU____
.(((((((................((((((((.....((....))(((((....)))))......))))))))((((...((......))..)))))))))))............ (-20.89 = -22.50 +   1.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:58:26 2011