Locus 10432

Sequence ID dm3.chr3R
Location 13,768,294 – 13,768,424
Length 130
Max. P 0.944892
window14349 window14350

overview

Window 9

Location 13,768,294 – 13,768,414
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 75.42
Shannon entropy 0.46796
G+C content 0.52965
Mean single sequence MFE -34.52
Consensus MFE -18.14
Energy contribution -18.72
Covariance contribution 0.58
Combinations/Pair 1.31
Mean z-score -1.54
Structure conservation index 0.53
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.50
SVM RNA-class probability 0.720921
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 13768294 120 - 27905053
GGAGUGCUGUCCAUGGCAGCGUUCAUUAAUUGAACAGCUCGAAAGCGCUCCCCGAGUGCUUGGCCACAAGUCGAAAGCCCCAAAACACGCUUCCUGGCCACCAAUGCACCAUGGCGGUAG
....(((((.((((((....(((((.....))))).((....((((((((...))))))))(((((.(((((....)...........))))..)))))......)).))))))))))). ( -41.30, z-score =  -1.76, R)
>droAna3.scaffold_13340 11753580 91 + 23697760
AGUGCACCGUCCAUGCCAGCGUUCAUUAAUUGAAGAGGUCG-AAGUGCAAAGCUAUUGCUUCCUCAAAAG------GGCACAAAAAAC-CCCAACAUCC---------------------
.((((.((....(((....))).......((((.((((.((-((((.....))).))))))).))))..)------))))).......-..........--------------------- ( -18.40, z-score =  -0.45, R)
>droEre2.scaffold_4770 9887772 99 + 17746568
GGAGUGCUGUCCAUGGCAGCGUUCAUUAAUUGAACAGCUCGAAAGCGCUCGCCGAAUGCUUGGCCA--------------CAAAACACGCUUCCCAGCCAGCA-------AUAGUGGUAU
.(((((((((.....)))))(((((.....))))).(((....)))))))((((..((((.(((..--------------................)))))))-------....)))).. ( -30.07, z-score =  -0.69, R)
>droYak2.chr3R 2355487 119 - 28832112
GGAGUGCUGUCCAUGGCAGCGUUCAUUAAUUGAACACAUCGAAAGCGCUCCCCAAAUGCUUGGCCACAAGU-GUAAGCCCCAAAACACGCUCCAUAGCCACCAAUACUCCAUAGUGGUAU
((((((.(((....(((((((((((.....)))))....(....).)))......(((((((....)))))-))..))).....)))))))))...(((((............))))).. ( -35.40, z-score =  -2.81, R)
>droSec1.super_12 1735937 119 + 2123299
GGAGUGCUGUCCAUGGCAGCGUUCAUUAAUUGAACAGCUCGAAAGCGCUCCCCGAGUGCUUGGCCACAAGU-CUAAGCCCCAACACACGCUUCCUGGCCACCAAUGCACCAUGGCGGUAU
...((((((.((((((....(((((.....))))).((....((((((((...))))))))(((((.((((-................))))..)))))......)).)))))))))))) ( -40.99, z-score =  -1.69, R)
>droSim1.chr3R 19794488 119 + 27517382
GGAGUGCUGUCCAUGGCAGCGUUCAUUAAUUGAACAGCUCGAAAGCGCUCCCCGAGUGCUUGGCCACAAGU-CUAAGCCCCAAAACACGCUUCCUGGCCACCAAUGCACCAUGGCGGUAU
...((((((.((((((....(((((.....))))).((....((((((((...))))))))(((((.((((-................))))..)))))......)).)))))))))))) ( -40.99, z-score =  -1.84, R)
>consensus
GGAGUGCUGUCCAUGGCAGCGUUCAUUAAUUGAACAGCUCGAAAGCGCUCCCCGAGUGCUUGGCCACAAGU__UAAGCCCCAAAACACGCUUCCUAGCCACCAAUGCACCAUGGCGGUAU
((((((((.((...(((...(((((.....))))).))).)).))))))))((((....))))........................((((.....................)))).... (-18.14 = -18.72 +   0.58)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 13,768,317 – 13,768,424
Length 107
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 74.65
Shannon entropy 0.46270
G+C content 0.53706
Mean single sequence MFE -31.98
Consensus MFE -20.93
Energy contribution -20.72
Covariance contribution -0.22
Combinations/Pair 1.36
Mean z-score -1.66
Structure conservation index 0.65
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.50
SVM RNA-class probability 0.944892
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 13768317 107 - 27905053
-------------CCACCACAUGGGAGUGCUGUCCAUGGCAGCGUUCAUUAAUUGAACAGCUCGAAAGCGCUCCCCGAGUGCUUGGCCACAAGUCGAAAGCCCCAAAACACGCUUCCUGG
-------------......((.(((((((.(((....(((.(((((((.....))))).))((((((((((((...))))))))(....)...))))..))).....)))))))))))). ( -35.50, z-score =  -2.05, R)
>droAna3.scaffold_13340 11753588 106 + 23697760
GUGCUGCCAAUUUGGGCGUCAUAAGUGCACCGUCCAUGCCAGCGUUCAUUAAUUGAAGAGGUCG-AAGUGCAAAGCUAUUGCUUCCUCAAAAG------GGCACAAAAAACCC-------
.((.((((..((((((.........(((((((.((.((....))((((.....))))..)).))-..)))))((((....)))).))))))..------))))))........------- ( -26.30, z-score =  -0.04, R)
>droEre2.scaffold_4770 9887788 93 + 17746568
-------------CCACCACAUGGGAGUGCUGUCCAUGGCAGCGUUCAUUAAUUGAACAGCUCGAAAGCGCUCGCCGAAUGCUUGGCCACAAAACACGCUUCCCAG--------------
-------------........((((((((((((.....)))))(((((.....)))))(((.(....).))).(((((....)))))..........)).))))).-------------- ( -31.00, z-score =  -2.21, R)
>droYak2.chr3R 2355510 106 - 28832112
-------------CUACCACAUGGGAGUGCUGUCCAUGGCAGCGUUCAUUAAUUGAACACAUCGAAAGCGCUCCCCAAAUGCUUGGCCACAAGUG-UAAGCCCCAAAACACGCUCCAUAG
-------------..........((((((.(((....(((((((((((.....)))))....(....).)))......(((((((....))))))-)..))).....))))))))).... ( -30.50, z-score =  -2.12, R)
>droSec1.super_12 1735960 106 + 2123299
-------------CCACCACAUGGGAGUGCUGUCCAUGGCAGCGUUCAUUAAUUGAACAGCUCGAAAGCGCUCCCCGAGUGCUUGGCCACAAGUC-UAAGCCCCAACACACGCUUCCUGG
-------------......((.(((((((.(((....(((((((((((.....))))).)))...((((((((...))))))))(((.....)))-...))).....)))))))))))). ( -34.30, z-score =  -1.70, R)
>droSim1.chr3R 19794511 106 + 27517382
-------------CCACCACAUGGGAGUGCUGUCCAUGGCAGCGUUCAUUAAUUGAACAGCUCGAAAGCGCUCCCCGAGUGCUUGGCCACAAGUC-UAAGCCCCAAAACACGCUUCCUGG
-------------......((.(((((((.(((....(((((((((((.....))))).)))...((((((((...))))))))(((.....)))-...))).....)))))))))))). ( -34.30, z-score =  -1.85, R)
>consensus
_____________CCACCACAUGGGAGUGCUGUCCAUGGCAGCGUUCAUUAAUUGAACAGCUCGAAAGCGCUCCCCGAGUGCUUGGCCACAAGUC_UAAGCCCCAAAACACGCUUCCUGG
.............(((...((((((((((((.((...(((...(((((.....))))).))).)).)))))))))...)))..))).................................. (-20.93 = -20.72 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:23:53 2011