Locus 14297

Sequence ID dm3.chrX
Location 12,429,183 – 12,429,286
Length 103
Max. P 0.983864
window19683 window19684

overview

Window 3

Location 12,429,183 – 12,429,286
Length 103
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 75.15
Shannon entropy 0.48380
G+C content 0.50804
Mean single sequence MFE -33.40
Consensus MFE -21.43
Energy contribution -21.60
Covariance contribution 0.17
Combinations/Pair 1.32
Mean z-score -1.46
Structure conservation index 0.64
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.28
SVM RNA-class probability 0.920359
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chrX 12429183 103 + 22422827
GCUCCUUUCGUUGCCACCACAGUUGAGCGAACAUUGGAAAUUGUUCUGCUCACGGGAGCAGAAGUUGAGCGGGUGGCACUUUAUCGAUGGUGGGAUGGGUGGA
..(((.((((((((((((...(((.((((((((.(....).)))))(((((....)))))...))).))).))))))(((........)))..)))))).))) ( -37.10, z-score =  -1.55, R)
>droPer1.super_12 2316709 100 - 2414086
--UUUUUUUGAUGCCCCCCCAUUUGAAAGAAAAUUGGAAAUU-UUUUUUAUACGGGAACAAAAGAAGAAGGGGGGGUUAAAGGUCGAGAAUUGAGGAUGGAGG
--..((((((((((((((((.....(((((((((.....)))-))))))....(....)..........)))))))).....))))))))............. ( -27.30, z-score =  -1.76, R)
>droYak2.chrX 6705575 98 + 21770863
GCUCCUUUCGUUGCCACCACAGUUGAGCGAACAUUGGAAAUUGUUCUGCUCACGGGAGCAGAAGUUGAGCGGGUGGCACUUUAUCGA--GUGG-GUGAGUG--
((((((((((.(((((((...(((.((((((((.(....).)))))(((((....)))))...))).))).)))))))......)))--)..)-).)))).-- ( -36.90, z-score =  -2.08, R)
>droSec1.super_21 185346 98 + 1102487
GCUCCUUUCGUUGCCACCACAGUUGAGCGAACAUUGGAAAUUGUUCUGCUCACGGGAGCAGAAGUUGAGCGGGUGGCACUUUAUCGA--GUGG-GUGGGUG--
((.((.((((.(((((((...(((.((((((((.(....).)))))(((((....)))))...))).))).)))))))......)))--).))-)).....-- ( -36.30, z-score =  -1.72, R)
>droSim1.chrX 9559445 98 + 17042790
GCUCCUUUCGUUGCCACCACAGUUGAGCGAACAUUGGAAAUUGUUCUGCUCACGGGAGCAGAAGUUGAGCGGGUGGCACUUUAUCGA--GUGG-AUGGGUG--
..(((.((((.(((((((...(((.((((((((.(....).)))))(((((....)))))...))).))).)))))))......)))--).))-)......-- ( -36.70, z-score =  -2.10, R)
>droGri2.scaffold_14853 2585017 90 - 10151454
ACCCCUUUGUUUGCCACUACAGUUGAGCGCACAUUGGAAAUUGUUCUGCUUGCGGGAGCAGAAGUUGAG---GCAGCCCAAAAGUGGGGAAGG----------
...(((((..(((((....(((((...(........).)))))((((((((....)))))))).....)---))))((((....)))))))))---------- ( -26.10, z-score =   0.44, R)
>consensus
GCUCCUUUCGUUGCCACCACAGUUGAGCGAACAUUGGAAAUUGUUCUGCUCACGGGAGCAGAAGUUGAGCGGGUGGCACUUUAUCGA__GUGG_GUGGGUG__
............((((((...(((.(((..(((........)))(((((((....))))))).))).))).)))))).......................... (-21.43 = -21.60 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 12,429,183 – 12,429,286
Length 103
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 75.15
Shannon entropy 0.48380
G+C content 0.50804
Mean single sequence MFE -26.28
Consensus MFE -17.71
Energy contribution -17.22
Covariance contribution -0.49
Combinations/Pair 1.44
Mean z-score -1.87
Structure conservation index 0.67
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.15
SVM RNA-class probability 0.983864
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chrX 12429183 103 - 22422827
UCCACCCAUCCCACCAUCGAUAAAGUGCCACCCGCUCAACUUCUGCUCCCGUGAGCAGAACAAUUUCCAAUGUUCGCUCAACUGUGGUGGCAACGAAAGGAGC
(((....(((........)))....((((((((((.........)).....(((((.(((((........))))))))))...).)))))))......))).. ( -28.00, z-score =  -2.28, R)
>droPer1.super_12 2316709 100 + 2414086
CCUCCAUCCUCAAUUCUCGACCUUUAACCCCCCCUUCUUCUUUUGUUCCCGUAUAAAAAA-AAUUUCCAAUUUUCUUUCAAAUGGGGGGGCAUCAAAAAAA--
...........................(((((((......((((((......))))))((-(((.....))))).........)))))))...........-- ( -16.60, z-score =  -1.00, R)
>droYak2.chrX 6705575 98 - 21770863
--CACUCAC-CCAC--UCGAUAAAGUGCCACCCGCUCAACUUCUGCUCCCGUGAGCAGAACAAUUUCCAAUGUUCGCUCAACUGUGGUGGCAACGAAAGGAGC
--.......-...(--((.......((((((((((.........)).....(((((.(((((........))))))))))...).))))))).(....)))). ( -29.30, z-score =  -2.37, R)
>droSec1.super_21 185346 98 - 1102487
--CACCCAC-CCAC--UCGAUAAAGUGCCACCCGCUCAACUUCUGCUCCCGUGAGCAGAACAAUUUCCAAUGUUCGCUCAACUGUGGUGGCAACGAAAGGAGC
--.......-...(--((.......((((((((((.........)).....(((((.(((((........))))))))))...).))))))).(....)))). ( -29.30, z-score =  -2.50, R)
>droSim1.chrX 9559445 98 - 17042790
--CACCCAU-CCAC--UCGAUAAAGUGCCACCCGCUCAACUUCUGCUCCCGUGAGCAGAACAAUUUCCAAUGUUCGCUCAACUGUGGUGGCAACGAAAGGAGC
--......(-((..--(((......((((((((((.........)).....(((((.(((((........))))))))))...).))))))).)))..))).. ( -29.80, z-score =  -2.67, R)
>droGri2.scaffold_14853 2585017 90 + 10151454
----------CCUUCCCCACUUUUGGGCUGC---CUCAACUUCUGCUCCCGCAAGCAGAACAAUUUCCAAUGUGCGCUCAACUGUAGUGGCAAACAAAGGGGU
----------....((((((..((((((.((---.......((((((......))))))(((........)))))))))))..)).((.....))...)))). ( -24.70, z-score =  -0.44, R)
>consensus
__CACCCAC_CCAC__UCGAUAAAGUGCCACCCGCUCAACUUCUGCUCCCGUGAGCAGAACAAUUUCCAAUGUUCGCUCAACUGUGGUGGCAACGAAAGGAGC
..........................((((((........((((((((....))))))))...............((......))))))))............ (-17.71 = -17.22 +  -0.49)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:37:34 2011