Locus 10639

Sequence ID dm3.chr3R
Location 15,323,982 – 15,324,108
Length 126
Max. P 0.993428
window14630 window14631

overview

Window 0

Location 15,323,982 – 15,324,089
Length 107
Sequences 7
Columns 107
Reading direction reverse
Mean pairwise identity 69.40
Shannon entropy 0.61484
G+C content 0.34974
Mean single sequence MFE -20.83
Consensus MFE -7.88
Energy contribution -7.99
Covariance contribution 0.11
Combinations/Pair 1.47
Mean z-score -2.03
Structure conservation index 0.38
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.44
SVM RNA-class probability 0.940402
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 15323982 107 - 27905053
GCAAGUGCAACCUUUUUAAUGAAUUUAAUUAAAAUUCAUUAGACAACGAAAAUUGUUAACGGCAUUUCGGUCAUAUGAGAUGCCCAGGGGCAAAAACAAAGACAGAG
.....(((..(((.((((((((((((.....)))))))))))).................(((((((((......))))))))).))).)))............... ( -25.80, z-score =  -3.25, R)
>droSim1.chr3R 21365933 106 + 27517382
GCAAGUGCAACCUUUUUAAUGAAUUUAAUUAAAAUUCAUUAGACAACGAAAAUUGUUAACGGCAUUUCGGUCAUAUGAGAUGGCCAGAGGCAAAAACAGAGACAGA-
((((((((........((((((((((.....))))))))))(((((......)))))....)))))).((((((.....))))))....))...............- ( -23.80, z-score =  -2.66, R)
>droYak2.chr3R 4060282 101 - 28832112
----GUGUAAGC-UUUUAAUGAAUUUAAUUAAAAUUCAUUAGACAACGAAAAUUGUUAGUGACAUUUCGGUCAUAUGAGAUGCCCAGAGAAAAAAACAGAAACAGA-
----((.....(-(((((((((((((.....))))))))))(((((......))))).(.(.(((((((......))))))).))))))......)).........- ( -15.30, z-score =  -0.74, R)
>droEre2.scaffold_4770 11429064 105 + 17746568
GCGAGUGCAACCUUUUUAAUGAAUUUAAUUAAAAUUCAUUAGACAACGAAAAUUGUUAACGACAUUUCGGUCAUAUGAGAUGCCCAGAGG-ACAAACAGAGACAGA-
((....))..(((((.((((((((((.....))))))))))(((((......))))).....(((((((......)))))))...)))))-...............- ( -18.40, z-score =  -1.39, R)
>droAna3.scaffold_13340 8622267 99 + 23697760
ACGAGUGCAAGCUUUUUAAUGAAUUUAAUUAAAAUUCAUUAGACAGC-AAAAUUGUUGACAACACUU-GGUCAUACGAGAUGGCCAGACAGAAAAACAGAG------
..(((((...(((.((((((((((((.....)))))))))))).)))-....(((....))))))))-((((((.....))))))................------ ( -25.40, z-score =  -4.27, R)
>droVir3.scaffold_13047 2943272 89 + 19223366
------GCUAACGUUUUAAUGGAUUUAAUUAAAAUUCAUUUUAUCCUGGCCAUAGUGCCCAGCACAU-----GAACGAGGUACCAGG----AAUACCAGGAUUC---
------...........(((((((((.....)))))))))..(((((((((...(((((..(.....-----...)..)))))..))----....)))))))..--- ( -20.30, z-score =  -1.64, R)
>droGri2.scaffold_15116 643845 95 + 1808639
--AGGCUCAACCUUUUUAAUGAAUUUAAUUAAAAUUCAUU-CACGAC-AGAAUUGUGCAUAGUGAAGAGAACAAUGGGGACAACUUGA---AUCGAUGGGGA-----
--.(..((((.(((((((((((((((.....)))))))).-(((((.-....))))).....))))))).....((....))..))))---..)........----- ( -16.80, z-score =  -0.28, R)
>consensus
_CAAGUGCAACCUUUUUAAUGAAUUUAAUUAAAAUUCAUUAGACAACGAAAAUUGUUAACGGCAUUUCGGUCAUAUGAGAUGCCCAGAGG_AAAAACAGAGACAGA_
....((((........((((((((((.....))))))))))(((((......)))))....)))).......................................... ( -7.88 =  -7.99 +   0.11)

alignment

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secondary structure

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dotplot

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Window 1

Location 15,323,992 – 15,324,108
Length 116
Sequences 5
Columns 116
Reading direction reverse
Mean pairwise identity 83.19
Shannon entropy 0.30337
G+C content 0.36237
Mean single sequence MFE -30.90
Consensus MFE -15.87
Energy contribution -16.59
Covariance contribution 0.72
Combinations/Pair 1.17
Mean z-score -3.66
Structure conservation index 0.51
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.61
SVM RNA-class probability 0.993428
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 15323992 116 - 27905053
UUAUGUCCUUGGGCACCCAGCAAGUGCAACCUUUUUAAUGAAUUUAAUUAAAAUUCAUUAGACAACGAAAAUUGUUAACGGCAUUUCGGUCAUAUGAGAUGCCCAGGGGCAAAAAC
...((((((((((((.(((((....)).(((..((((((((((((.....))))))))))))....((((..(((.....))))))))))....)).).))))))))))))..... ( -37.80, z-score =  -4.63, R)
>droSim1.chr3R 21365942 116 + 27517382
UUAUGUCCUUGGGCACCCAGCAAGUGCAACCUUUUUAAUGAAUUUAAUUAAAAUUCAUUAGACAACGAAAAUUGUUAACGGCAUUUCGGUCAUAUGAGAUGGCCAGAGGCAAAAAC
...((.((((.(((..((.((....))......((((((((((((.....)))))))))))).................))(((((((......)))))))))).))))))..... ( -29.10, z-score =  -2.36, R)
>droYak2.chr3R 4060291 111 - 28832112
UUUUACCCUUUGGGACGCAGUGUAAGC-----UUUUAAUGAAUUUAAUUAAAAUUCAUUAGACAACGAAAAUUGUUAGUGACAUUUCGGUCAUAUGAGAUGCCCAGAGAAAAAAAC
.......(((((((.(((.........-----...((((((((((.....))))))))))(((((......))))).))).(((((((......))))))))))))))........ ( -27.60, z-score =  -3.51, R)
>droEre2.scaffold_4770 11429073 115 + 17746568
UUAUGCCCUUUGGAGCCCAGCGAGUGCAACCUUUUUAAUGAAUUUAAUUAAAAUUCAUUAGACAACGAAAAUUGUUAACGACAUUUCGGUCAUAUGAGAUGCCCAGAGGACAAAC-
...((.(((((((.((....((.(((..(((..((((((((((((.....))))))))))))....((((..((((...)))))))))))))).))....))))))))).))...- ( -29.40, z-score =  -3.78, R)
>droAna3.scaffold_13340 8622271 110 + 23697760
---UGUCCUGCAGGAC-UAACGAGUGCAAGCUUUUUAAUGAAUUUAAUUAAAAUUCAUUAGACAGC-AAAAUUGUUGACAACACUU-GGUCAUACGAGAUGGCCAGACAGAAAAAC
---.((((....))))-....(((((...(((.((((((((((((.....)))))))))))).)))-....(((....))))))))-((((((.....))))))............ ( -30.60, z-score =  -4.04, R)
>consensus
UUAUGUCCUUGGGCACCCAGCGAGUGCAACCUUUUUAAUGAAUUUAAUUAAAAUUCAUUAGACAACGAAAAUUGUUAACGACAUUUCGGUCAUAUGAGAUGCCCAGAGGAAAAAAC
......((((.((.....(((((..........((((((((((((.....)))))))))))).........))))).....(((((((......))))))).)).))))....... (-15.87 = -16.59 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:27:46 2011