Locus 15497

Sequence ID dm3.chrX
Location 19,303,266 – 19,303,417
Length 151
Max. P 0.994682
window21366 window21367 window21368

overview

Window 6

Location 19,303,266 – 19,303,382
Length 116
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.17
Shannon entropy 0.16805
G+C content 0.53452
Mean single sequence MFE -43.23
Consensus MFE -40.88
Energy contribution -40.80
Covariance contribution -0.08
Combinations/Pair 1.10
Mean z-score -2.70
Structure conservation index 0.95
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.72
SVM RNA-class probability 0.994682
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19303266 116 + 22422827
GCUCCGCUUCGCGGUUAUCUGAUUGGGUGCGUGGAGACAAAAGAUGGGUCACGUGGUUUUGUGACCCGACA---UGGUCAUGCAGAAAA-GGAACGAGGCGGAGUAGUUCAUUUCGGCAG
((((((((((((((((....)))))..(((((((...((...(.(((((((((......))))))))).).---)).))))))).....-....)))))))))))............... ( -43.90, z-score =  -2.59, R)
>droSim1.chrX 14920786 111 + 17042790
GCUCCGCUUCGCGGUUAUCUGAUUGGGUGCGUGGAGACAAAAGAUGGGUCACGUGGUUG-GUGACCCGACA---UGGUCACGCAGAAAA-UAAACGAGGCGGAGGAGUUCAUUUUG----
.(((((((((((((((....)))))..(((((((...((...(.((((((((.......-)))))))).).---)).))))))).....-....))))))))))............---- ( -43.10, z-score =  -3.06, R)
>droSec1.super_8 1595268 111 + 3762037
GCUCCGCUUCGCGGUUAUCUGAUUGGGUGCGUGGAGACAAAAGAUGGGUCACGUGGUUU-GUGACCCGACA---UGGUCACGCAGAAAA-UAAACGAGGCGGAGGAGUUCAUUUCG----
.(((((((((((((((....)))))..(((((((...((...(.(((((((((.....)-)))))))).).---)).))))))).....-....))))))))))(((.....))).---- ( -44.50, z-score =  -3.32, R)
>droYak2.chrX 9744995 115 - 21770863
GCUCCGCUACGCGGUUAUCUGGUUGGAUGCGUGGAGACAAAAGAUGGGUCACGUGGUUU-GUGACCAGACACCAUGGUCACGCAGAAAAAUGAACGAGGCGGAGGAGUUCAUUUCG----
.(((((((.(((((....)))(((...(((((((...((.......(((((((.....)-))))))........)).)))))))....)))...)).)))))))(((.....))).---- ( -37.56, z-score =  -1.02, R)
>droEre2.scaffold_4690 9553284 112 + 18748788
GCUUCGCUUCGCGGUUGUCUGGUUGGGUGCGUGGAGACAAAAGAUGGGUCACGUGGUUU-GUGACCCAGCA---UGGUCACGCAAAAAGAUGAACGAGGCGGAGAAGCUCAUUUCG----
.((((((((((...(..(((..(((.((((.((....))...(.(((((((((.....)-)))))))).).---..).))).)))..)))..).))))))))))............---- ( -47.10, z-score =  -3.48, R)
>consensus
GCUCCGCUUCGCGGUUAUCUGAUUGGGUGCGUGGAGACAAAAGAUGGGUCACGUGGUUU_GUGACCCGACA___UGGUCACGCAGAAAA_UGAACGAGGCGGAGGAGUUCAUUUCG____
.(((((((((((((....)))......(((((((...((.....((((((((........))))))))......)).)))))))..........))))))))))................ (-40.88 = -40.80 +  -0.08)

alignment

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secondary structure

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dotplot

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Window 7

Location 19,303,266 – 19,303,382
Length 116
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.17
Shannon entropy 0.16805
G+C content 0.53452
Mean single sequence MFE -33.66
Consensus MFE -28.19
Energy contribution -28.99
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -3.06
Structure conservation index 0.84
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.54
SVM RNA-class probability 0.992372
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19303266 116 - 22422827
CUGCCGAAAUGAACUACUCCGCCUCGUUCC-UUUUCUGCAUGACCA---UGUCGGGUCACAAAACCACGUGACCCAUCUUUUGUCUCCACGCACCCAAUCAGAUAACCGCGAAGCGGAGC
................((((((.((((...-...((((...(((..---.)))(((((((........)))))))........................)))).....)))).)))))). ( -33.40, z-score =  -3.11, R)
>droSim1.chrX 14920786 111 - 17042790
----CAAAAUGAACUCCUCCGCCUCGUUUA-UUUUCUGCGUGACCA---UGUCGGGUCAC-CAACCACGUGACCCAUCUUUUGUCUCCACGCACCCAAUCAGAUAACCGCGAAGCGGAGC
----............((((((.(((((((-(((..((((((..((---.(..(((((((-.......)))))))..)...))....)))))).......))))))..)))).)))))). ( -35.40, z-score =  -4.10, R)
>droSec1.super_8 1595268 111 - 3762037
----CGAAAUGAACUCCUCCGCCUCGUUUA-UUUUCUGCGUGACCA---UGUCGGGUCAC-AAACCACGUGACCCAUCUUUUGUCUCCACGCACCCAAUCAGAUAACCGCGAAGCGGAGC
----............((((((.(((((((-(((..((((((..((---.(..(((((((-.......)))))))..)...))....)))))).......))))))..)))).)))))). ( -36.00, z-score =  -3.81, R)
>droYak2.chrX 9744995 115 + 21770863
----CGAAAUGAACUCCUCCGCCUCGUUCAUUUUUCUGCGUGACCAUGGUGUCUGGUCAC-AAACCACGUGACCCAUCUUUUGUCUCCACGCAUCCAACCAGAUAACCGCGUAGCGGAGC
----............((((((..(((..........(((((..((.((((...((((((-.......))))))))))...))....)))))(((......)))....)))..)))))). ( -32.80, z-score =  -2.23, R)
>droEre2.scaffold_4690 9553284 112 - 18748788
----CGAAAUGAGCUUCUCCGCCUCGUUCAUCUUUUUGCGUGACCA---UGCUGGGUCAC-AAACCACGUGACCCAUCUUUUGUCUCCACGCACCCAACCAGACAACCGCGAAGCGAAGC
----........(((((...((.((((...(((...((((((..((---.(.((((((((-.......)))))))).)...))....)))))).......))).....)))).))))))) ( -30.70, z-score =  -2.05, R)
>consensus
____CGAAAUGAACUCCUCCGCCUCGUUCA_UUUUCUGCGUGACCA___UGUCGGGUCAC_AAACCACGUGACCCAUCUUUUGUCUCCACGCACCCAAUCAGAUAACCGCGAAGCGGAGC
................((((((.((((.........((((((........(..(((((((........)))))))..).........))))))........(.....))))).)))))). (-28.19 = -28.99 +   0.80)

alignment

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secondary structure

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dotplot

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Window 8

Location 19,303,301 – 19,303,417
Length 116
Sequences 5
Columns 121
Reading direction reverse
Mean pairwise identity 85.06
Shannon entropy 0.25520
G+C content 0.48730
Mean single sequence MFE -27.92
Consensus MFE -18.72
Energy contribution -18.60
Covariance contribution -0.12
Combinations/Pair 1.15
Mean z-score -1.96
Structure conservation index 0.67
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.29
SVM RNA-class probability 0.631536
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19303301 116 - 22422827
UUGUACG-CUUACAGGGUAUUUAAGUCUCUGCCUGCCUGCCGAAAUGAACUACUCCGCCUCGUUC-CUUUUCUGCAUGACCA---UGUCGGGUCACAAAACCACGUGACCCAUCUUUUGUC
......(-(...(((((.........)))))...)).(((.((((.((((...........))))-..)))).))).(((..---.)))(((((((........))))))).......... ( -27.80, z-score =  -1.49, R)
>droSim1.chrX 14920821 103 - 17042790
---------UUACAGGGUAUUUAAAUCUCU----GCCCGCCAAAAUGAACUCCUCCGCCUCGUUUA-UUUUCUGCGUGACCA---UGUCGGGUCAC-CAACCACGUGACCCAUCUUUUGUC
---------((((.(((((..........)----))))((.(((((((((...........)))))-))))..))))))...---....(((((((-.......))))))).......... ( -26.60, z-score =  -2.85, R)
>droSec1.super_8 1595303 111 - 3762037
UUGUACG-CUUACAGGGUAUUUAAAUCUCC----GCGUGCCGAAAUGAACUCCUCCGCCUCGUUU-AUUUUCUGCGUGACCA---UGUCGGGUCAC-AAACCACGUGACCCAUCUUUUGUC
.((((..-..))))((((...........(----(((((..(((((((((...........))))-)))))....((((((.---.....))))))-....)))))))))).......... ( -27.10, z-score =  -1.29, R)
>droYak2.chrX 9745030 112 + 21770863
----AUGUUUUACAGGGUAUUUAAAUCUCU----GCCCGCCGAAAUGAACUCCUCCGCCUCGUUCAUUUUUCUGCGUGACCAUGGUGUCUGGUCAC-AAACCACGUGACCCAUCUUUUGUC
----(((..((((.(((((..........)----))))((.(((((((((...........)))))))))...))(((((((.......)))))))-.......))))..)))........ ( -28.80, z-score =  -2.38, R)
>droEre2.scaffold_4690 9553319 112 - 18748788
UUGUACG-CUUACAGGGUAUUCAAACCUCU----GCCUGCCGAAAUGAGCUUCUCCGCCUCGUUCAUCUUUUUGCGUGACCA---UGCUGGGUCAC-AAACCACGUGACCCAUCUUUUGUC
....(((-(...((((((......))).))----)......(((.(((((......).)))))))........))))(((..---.(.((((((((-.......)))))))).)....))) ( -29.30, z-score =  -1.80, R)
>consensus
UUGUACG_CUUACAGGGUAUUUAAAUCUCU____GCCUGCCGAAAUGAACUCCUCCGCCUCGUUCAUUUUUCUGCGUGACCA___UGUCGGGUCAC_AAACCACGUGACCCAUCUUUUGUC
..............((((....................((.((((.((((...........))))...)))).))((((((.........))))))...........)))).......... (-18.72 = -18.60 +  -0.12)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:00:35 2011