Locus 15097

Sequence ID dm3.chrX
Location 17,384,956 – 17,385,043
Length 87
Max. P 0.998374
window20803 window20804

overview

Window 3

Location 17,384,956 – 17,385,043
Length 87
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 76.45
Shannon entropy 0.40887
G+C content 0.47620
Mean single sequence MFE -30.98
Consensus MFE -25.43
Energy contribution -26.18
Covariance contribution 0.76
Combinations/Pair 1.29
Mean z-score -2.91
Structure conservation index 0.82
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.34
SVM RNA-class probability 0.998374
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17384956 87 + 22422827
-------GGGUGACCCGGUGGCGCCGAGGGCGGGGUCGCAAGGUUACCCUU----------AGAAAAACCGAAAAUGGUUUUUAAUUAAAAAAUGCAGAAAAAG
-------((((((((..(((((.(((....))).)))))..))))))))..----------..(((((((......)))))))..................... ( -34.00, z-score =  -3.83, R)
>droSim1.chrU 760955 87 - 15797150
-------GGGUGACCCGGUGGCGCCGAGGGCGGGGUCGCAAGGUUACCCUU----------AGAAAAACCGAAAAUGGUUUUUAAUUAAAAAAUGCAGAAAAAG
-------((((((((..(((((.(((....))).)))))..))))))))..----------..(((((((......)))))))..................... ( -34.00, z-score =  -3.83, R)
>droSec1.super_17 1230664 86 + 1527944
-------GGGUGACCCGGUGGCGCCGAGGGCGAGGUCGCAAGGUUACCCUU----------AGAAAAACCAAAAAUGGUUUUUA-UUAAAAAAUGCAGAAAACG
-------((((((((..((((((((...)))...)))))..))))))))((----------((((((((((....)))))))).-))))............... ( -29.90, z-score =  -2.87, R)
>droYak2.chrX 16012793 97 + 21770863
-------GGGUGACCCGGUGGCGCCGAGGGCGGGGUCGCAAGGUUACCCUCUAAAAAACAAAAAAAAACCGAAAAUGGUUUUUAAUUAAAAAAUGCAGAAAAAG
-------((((((((..(((((.(((....))).)))))..))))))))..............(((((((......)))))))..................... ( -33.90, z-score =  -3.71, R)
>droEre2.scaffold_4690 7724247 92 + 18748788
-------GGGUGACCCGAUGGCGUGGAGGGCGGGGUCGCAAGGUUACCCUCUAAAA-----AAAAAAACCGAAAAUGGUUUUUAAUUAAAAAAUGCAGAAAAAG
-------((....)).....((((((((((...(..(....)..).))))))....-----..(((((((......))))))).........))))........ ( -26.00, z-score =  -2.04, R)
>droAna3.scaffold_13248 1785646 95 - 4840945
AGGUGACCCCCGCCCCGCCCGAGGAAGAGGAGAGGUCACAAGGUCGUCGCU---------GCGGAAAGCCAAAAAUGGUUUUCAAUUAAAAGCCAAAAAGCCAA
..(((((((((...((......))....)).).))))))..(((....(((---------...((((((((....)))))))).......)))......))).. ( -28.10, z-score =  -1.18, R)
>consensus
_______GGGUGACCCGGUGGCGCCGAGGGCGGGGUCGCAAGGUUACCCUU__________AGAAAAACCGAAAAUGGUUUUUAAUUAAAAAAUGCAGAAAAAG
.......((((((((..(((((.(((....))).)))))..))))))))..............((((((((....))))))))..................... (-25.43 = -26.18 +   0.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 17,384,956 – 17,385,043
Length 87
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 76.45
Shannon entropy 0.40887
G+C content 0.47620
Mean single sequence MFE -23.85
Consensus MFE -16.41
Energy contribution -16.75
Covariance contribution 0.34
Combinations/Pair 1.24
Mean z-score -1.67
Structure conservation index 0.69
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.26
SVM RNA-class probability 0.917121
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17384956 87 - 22422827
CUUUUUCUGCAUUUUUUAAUUAAAAACCAUUUUCGGUUUUUCU----------AAGGGUAACCUUGCGACCCCGCCCUCGGCGCCACCGGGUCACCC-------
........((...........(((((((......)))))))..----------((((....))))))(((((((((...)))).....)))))....------- ( -23.30, z-score =  -2.08, R)
>droSim1.chrU 760955 87 + 15797150
CUUUUUCUGCAUUUUUUAAUUAAAAACCAUUUUCGGUUUUUCU----------AAGGGUAACCUUGCGACCCCGCCCUCGGCGCCACCGGGUCACCC-------
........((...........(((((((......)))))))..----------((((....))))))(((((((((...)))).....)))))....------- ( -23.30, z-score =  -2.08, R)
>droSec1.super_17 1230664 86 - 1527944
CGUUUUCUGCAUUUUUUAA-UAAAAACCAUUUUUGGUUUUUCU----------AAGGGUAACCUUGCGACCUCGCCCUCGGCGCCACCGGGUCACCC-------
........((.........-.((((((((....))))))))..----------((((....))))))(((((((((...)))).....)))))....------- ( -23.10, z-score =  -1.86, R)
>droYak2.chrX 16012793 97 - 21770863
CUUUUUCUGCAUUUUUUAAUUAAAAACCAUUUUCGGUUUUUUUUUGUUUUUUAGAGGGUAACCUUGCGACCCCGCCCUCGGCGCCACCGGGUCACCC-------
........((......(((..(((((((......)))))))..))).......((((....))))))(((((((((...)))).....)))))....------- ( -25.40, z-score =  -2.28, R)
>droEre2.scaffold_4690 7724247 92 - 18748788
CUUUUUCUGCAUUUUUUAAUUAAAAACCAUUUUCGGUUUUUUU-----UUUUAGAGGGUAACCUUGCGACCCCGCCCUCCACGCCAUCGGGUCACCC-------
........((.......((..(((((((......)))))))..-----))...((((....))))))(((((.((.......))....)))))....------- ( -19.60, z-score =  -1.67, R)
>droAna3.scaffold_13248 1785646 95 + 4840945
UUGGCUUUUUGGCUUUUAAUUGAAAACCAUUUUUGGCUUUCCGC---------AGCGACGACCUUGUGACCUCUCCUCUUCCUCGGGCGGGGCGGGGGUCACCU
..((((....)))).......((((.(((....))).))))...---------............(((((((((((((.((....)).)))).))))))))).. ( -28.40, z-score =  -0.03, R)
>consensus
CUUUUUCUGCAUUUUUUAAUUAAAAACCAUUUUCGGUUUUUCU__________AAGGGUAACCUUGCGACCCCGCCCUCGGCGCCACCGGGUCACCC_______
........((...........(((((((......)))))))............((((....))))))((((((((.....))).....)))))........... (-16.41 = -16.75 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:52:57 2011