Locus 15483

Sequence ID dm3.chrX
Location 19,271,948 – 19,272,053
Length 105
Max. P 0.796058
window21346 window21347

overview

Window 6

Location 19,271,948 – 19,272,053
Length 105
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 88.45
Shannon entropy 0.19591
G+C content 0.57338
Mean single sequence MFE -41.32
Consensus MFE -35.68
Energy contribution -35.96
Covariance contribution 0.28
Combinations/Pair 1.06
Mean z-score -1.62
Structure conservation index 0.86
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.72
SVM RNA-class probability 0.796058
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19271948 105 + 22422827
CAGGAAUCUCGUUAACGAGUUCUGGGACUGUGGGUGCAAGUUUUCUACGUGCCGGGUCUCG-------AGGAGAUUGGGCGGCGAAUUAAGGUGUCGCCAGUUGCCGGUUGC--------
..((((((((.(...((((..((((.((.(((((.........))))))).))))..))))-------).)))))).(((((((........))))))).....))......-------- ( -37.10, z-score =  -1.31, R)
>droEre2.scaffold_4690 9523357 113 + 18748788
CAGGAAUCUCGUUAACGAGUUCUGGGACUGUGGGGGCAAGUUUUCUACGUGCCGGGUCUCG-------AGGAGAUUGGGCGGCGAGUUAAGGUGUCGCCAGUAGCCGGUUUCGGGUUUCG
..(((((((((....))))..(((..(((((((.((((..((..((.((((((.((((((.-------..)))))).))).)))))..))..)))).))).....))))..)))))))). ( -42.90, z-score =  -2.02, R)
>droYak2.chrX 9713503 120 - 21770863
CAGGAAUCUCGUUAACGAGUUCUGGGACUGUGGAGGCAAGUUUUCUACGUGCCGGGUCUCGGCUCUUGACGAGAUUGGGCGCCGAAUUAAGGUGUCGCCAGUAGCCGAUUGCCGAUUGCC
..(((((((((((((((((..((((.((.(((((((.....))))))))).))))..))))....))))))))))).((((((.......)))))).)).(((..((.....))..))). ( -46.10, z-score =  -1.70, R)
>droSec1.super_8 1564313 105 + 3762037
CACGAAUCUCGUUAACGAGUUCUGGGACUGUGGGGGCAAGUUCUCUACGUGCCGGGUCUCG-------AGGAGAUUGGGCGGCGAAUUAAGGUGUCGCCAGUUGCCGGUUGC--------
..(.((((((.(...((((..((((.((.(((((((.....))))))))).))))..))))-------).)))))).).((((((.....((.....))..)))))).....-------- ( -39.90, z-score =  -1.56, R)
>droSim1.chrX_random 5024481 105 + 5698898
CAGGAAUCUCGUUAACGAGUUCUGGGACUGUGGGGGCAAGUUCUCUACGUGCCGGGUCUCG-------AGGAGAUUGGGCGGCGAAUUAAGGUGUCGCCAGUUGCCGGUGCC--------
..((((((((.(...((((..((((.((.(((((((.....))))))))).))))..))))-------).)))))).(((((((........))))))).....))......-------- ( -40.60, z-score =  -1.53, R)
>consensus
CAGGAAUCUCGUUAACGAGUUCUGGGACUGUGGGGGCAAGUUUUCUACGUGCCGGGUCUCG_______AGGAGAUUGGGCGGCGAAUUAAGGUGUCGCCAGUUGCCGGUUGC________
..((((((((.(...((((..((((.((.(((((((.....))))))))).))))..)))).......).)))))).(((((((........))))))).....)).............. (-35.68 = -35.96 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 19,271,948 – 19,272,053
Length 105
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 88.45
Shannon entropy 0.19591
G+C content 0.57338
Mean single sequence MFE -28.14
Consensus MFE -23.10
Energy contribution -23.10
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.72
Structure conservation index 0.82
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.56
SVM RNA-class probability 0.741269
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19271948 105 - 22422827
--------GCAACCGGCAACUGGCGACACCUUAAUUCGCCGCCCAAUCUCCU-------CGAGACCCGGCACGUAGAAAACUUGCACCCACAGUCCCAGAACUCGUUAACGAGAUUCCUG
--------((.....))..((((.(((..........((((.....((((..-------.))))..))))..((((.....)))).......)))))))..((((....))))....... ( -25.10, z-score =  -1.92, R)
>droEre2.scaffold_4690 9523357 113 - 18748788
CGAAACCCGAAACCGGCUACUGGCGACACCUUAACUCGCCGCCCAAUCUCCU-------CGAGACCCGGCACGUAGAAAACUUGCCCCCACAGUCCCAGAACUCGUUAACGAGAUUCCUG
......(((....)))((((.(((((.........)))))(((...((((..-------.))))...)))..))))......................(((((((....)))).)))... ( -26.20, z-score =  -1.94, R)
>droYak2.chrX 9713503 120 + 21770863
GGCAAUCGGCAAUCGGCUACUGGCGACACCUUAAUUCGGCGCCCAAUCUCGUCAAGAGCCGAGACCCGGCACGUAGAAAACUUGCCUCCACAGUCCCAGAACUCGUUAACGAGAUUCCUG
(((....((...((((((..(((((((.((.......)).).......))))))..))))))...))((((.((.....)).))))......)))...(((((((....)))).)))... ( -35.01, z-score =  -1.45, R)
>droSec1.super_8 1564313 105 - 3762037
--------GCAACCGGCAACUGGCGACACCUUAAUUCGCCGCCCAAUCUCCU-------CGAGACCCGGCACGUAGAGAACUUGCCCCCACAGUCCCAGAACUCGUUAACGAGAUUCGUG
--------((....(((((..(((((.........)))))(((...((((..-------.))))...)))...........)))))............(((((((....)))).))))). ( -27.40, z-score =  -1.82, R)
>droSim1.chrX_random 5024481 105 - 5698898
--------GGCACCGGCAACUGGCGACACCUUAAUUCGCCGCCCAAUCUCCU-------CGAGACCCGGCACGUAGAGAACUUGCCCCCACAGUCCCAGAACUCGUUAACGAGAUUCCUG
--------((....(((((..(((((.........)))))(((...((((..-------.))))...)))...........))))).)).........(((((((....)))).)))... ( -27.00, z-score =  -1.48, R)
>consensus
________GCAACCGGCAACUGGCGACACCUUAAUUCGCCGCCCAAUCUCCU_______CGAGACCCGGCACGUAGAAAACUUGCCCCCACAGUCCCAGAACUCGUUAACGAGAUUCCUG
...................((((.(((.............(((...((((..........))))...)))..((((.....)))).......)))))))..((((....))))....... (-23.10 = -23.10 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:00:18 2011