Locus 4910

Sequence ID dm3.chr2R
Location 16,318,220 – 16,318,271
Length 51
Max. P 0.992777
window6752 window6753

overview

Window 2

Location 16,318,220 – 16,318,271
Length 51
Sequences 6
Columns 64
Reading direction forward
Mean pairwise identity 78.43
Shannon entropy 0.36488
G+C content 0.37234
Mean single sequence MFE -10.82
Consensus MFE -8.74
Energy contribution -8.50
Covariance contribution -0.24
Combinations/Pair 1.36
Mean z-score -1.42
Structure conservation index 0.81
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.09
SVM RNA-class probability 0.888964
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 16318220 51 + 21146708
-------------CUUGGAAAACUUUUCGGUCAUCGAAAAGUUUCGGGCAUAGAUUGUACAUUA
-------------....((((.(((((((.....)))))))))))(..((.....))..).... ( -11.00, z-score =  -1.98, R)
>droSim1.chr2R 14974705 51 + 19596830
-------------CUUGGAAAACUUUUCGGCCAUCGAAAAGUUUCGGGCAUAGAUUGUACAUUA
-------------....((((.(((((((.....)))))))))))(..((.....))..).... ( -11.00, z-score =  -1.52, R)
>droSec1.super_1 13874620 51 + 14215200
-------------CUUGGAAAACUUUUCGGCCAUCGAAAAGUUUUGGGCAUAGAUUGUACAUUA
-------------.....(((((((((((.....)))))))))))(..((.....))..).... ( -11.90, z-score =  -2.00, R)
>droYak2.chr2R 8256923 51 - 21139217
-------------CUUGGAAAACUUUUCGGCCAUCGAAAAGUUUCGGGCAUAGAUUGUACAUUA
-------------....((((.(((((((.....)))))))))))(..((.....))..).... ( -11.00, z-score =  -1.52, R)
>droEre2.scaffold_4845 10463888 51 + 22589142
-------------CUUGGAAAACUUUUCGGCCAUCGAAAAGUUUCGGGCAUAGAUUGUACAUUA
-------------....((((.(((((((.....)))))))))))(..((.....))..).... ( -11.00, z-score =  -1.52, R)
>droGri2.scaffold_15245 16068139 64 - 18325388
CUUUUCAAAGUUUUGUGUUCGUCUUUUUAGCUAUCGAAAAAGUUGGCAAGCAAAUUGAACAAUA
...............((((((..((.((.((((.(......).)))).)).))..))))))... (  -9.00, z-score =   0.00, R)
>consensus
_____________CUUGGAAAACUUUUCGGCCAUCGAAAAGUUUCGGGCAUAGAUUGUACAUUA
.............((((((..((((((((.....))))))))))))))................ ( -8.74 =  -8.50 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 16,318,220 – 16,318,271
Length 51
Sequences 6
Columns 64
Reading direction reverse
Mean pairwise identity 78.43
Shannon entropy 0.36488
G+C content 0.37234
Mean single sequence MFE -9.75
Consensus MFE -8.02
Energy contribution -8.47
Covariance contribution 0.45
Combinations/Pair 1.27
Mean z-score -2.38
Structure conservation index 0.82
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.56
SVM RNA-class probability 0.992777
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 16318220 51 - 21146708
UAAUGUACAAUCUAUGCCCGAAACUUUUCGAUGACCGAAAAGUUUUCCAAG-------------
...................(((((((((((.....))))))))))).....------------- ( -10.70, z-score =  -3.83, R)
>droSim1.chr2R 14974705 51 - 19596830
UAAUGUACAAUCUAUGCCCGAAACUUUUCGAUGGCCGAAAAGUUUUCCAAG-------------
...................(((((((((((.....))))))))))).....------------- ( -10.70, z-score =  -2.67, R)
>droSec1.super_1 13874620 51 - 14215200
UAAUGUACAAUCUAUGCCCAAAACUUUUCGAUGGCCGAAAAGUUUUCCAAG-------------
...................(((((((((((.....))))))))))).....------------- ( -10.30, z-score =  -2.92, R)
>droYak2.chr2R 8256923 51 + 21139217
UAAUGUACAAUCUAUGCCCGAAACUUUUCGAUGGCCGAAAAGUUUUCCAAG-------------
...................(((((((((((.....))))))))))).....------------- ( -10.70, z-score =  -2.67, R)
>droEre2.scaffold_4845 10463888 51 - 22589142
UAAUGUACAAUCUAUGCCCGAAACUUUUCGAUGGCCGAAAAGUUUUCCAAG-------------
...................(((((((((((.....))))))))))).....------------- ( -10.70, z-score =  -2.67, R)
>droGri2.scaffold_15245 16068139 64 + 18325388
UAUUGUUCAAUUUGCUUGCCAACUUUUUCGAUAGCUAAAAAGACGAACACAAAACUUUGAAAAG
...(((((...(((.....)))((((((.(....).))))))..)))))............... (  -5.40, z-score =   0.48, R)
>consensus
UAAUGUACAAUCUAUGCCCGAAACUUUUCGAUGGCCGAAAAGUUUUCCAAG_____________
...................(((((((((((.....))))))))))).................. ( -8.02 =  -8.47 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:38:24 2011