Locus 15738

Sequence ID dm3.chrX
Location 20,732,286 – 20,732,392
Length 106
Max. P 0.694251
window21680 window21681

overview

Window 0

Location 20,732,286 – 20,732,382
Length 96
Sequences 10
Columns 115
Reading direction forward
Mean pairwise identity 70.36
Shannon entropy 0.55709
G+C content 0.44361
Mean single sequence MFE -27.51
Consensus MFE -8.84
Energy contribution -9.05
Covariance contribution 0.21
Combinations/Pair 1.07
Mean z-score -2.13
Structure conservation index 0.32
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.43
SVM RNA-class probability 0.694251
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 20732286 96 + 22422827
----UUUGCGGUUGGUUCCACAAAAA------------GGGGCGAUGGAUGUUGGGUGACCAACAAAUUGAAACGAAUUCUCGUA---UUGGAGUUCGAAUUGCAAUUGAGAUUG
----.((((((((.(((((.......------------)))))......((((((....))))))........((((((((....---..))))))))))))))))......... ( -31.00, z-score =  -3.10, R)
>droSim1.chrX_random 378472 96 + 5698898
----AUUGCGGUUGGUUCCACAAAAA------------GGGGCGAUGGAUGUUGGGUGACCAACAAAUUGAAACGAAUUCUCGUA---UUGGAGUUCGAAUUGCAAUUGAGAUUG
----(((((((((.(((((.......------------)))))......((((((....))))))........((((((((....---..)))))))))))))))))........ ( -31.40, z-score =  -3.21, R)
>droSec1.super_8 2993281 96 + 3762037
----AUUGCGGUUGGUUCCACAAAAA------------GGGGCGAUGGAUGUUGGGUGACCAACAAAUUGAAACGAAUUCUCGUA---UUGGAGUUCGAAUUGCAAUUGAGAUUG
----(((((((((.(((((.......------------)))))......((((((....))))))........((((((((....---..)))))))))))))))))........ ( -31.40, z-score =  -3.21, R)
>droEre2.scaffold_4690 17315285 98 + 18748788
----GCUGCGGUUGGUGCCACACAAAAA----------GGGGCGGUGGAUGUUGGGUGACCAACAAAUUGAAACGAAUUCUCGUA---UUGGAGUUCGAAUUGCAAUUGAGAUUG
----..((((((((.((((...(.....----------).)))).)...((((((....))))))........((((((((....---..))))))))))))))).......... ( -29.40, z-score =  -1.72, R)
>droYak2.chrX 19948975 108 + 21770863
----AUUGCGGUUGGUUCCGCCAAAGAGAGGGGGGGGGGGGGCGUUGGAUGUUGGGUGACCAACAAAUUGAAACGAAUUCUCGUA---UUGGAGUUCGAAUUGCAAUUGAGAUUG
----(((((((((.(((((.((.............)).)))))......((((((....))))))........((((((((....---..)))))))))))))))))........ ( -35.42, z-score =  -2.74, R)
>droAna3.scaffold_13334 52411 95 - 1562580
UCCGAUUGCGGUUGGUUUCAG-----------------GAGGCCAUGGAUGUUGGGUCACCAACAAAUUGAAACGAAUUCUCGUA---UUGGAGUUCGAAUUGCAAUUGAAAUUG
..((((((((((((((((...-----------------.))))).....((((((....))))))........((((((((....---..)))))))))))))))))))...... ( -32.00, z-score =  -2.88, R)
>dp4.chrXL_group1e 9376853 93 + 12523060
----CCUGUGGUUGAAGAGGGUG---------------GAGGCUUGGGGGGUGGCACAACCAACAAAUUGAAACGAAUUCUCGUA---UUGGAGUUCGAAUUGCAAUUGAAAUUG
----..((..(((...(..(((.---------------...(((........)))...)))..).........((((((((....---..)))))))))))..)).......... ( -20.00, z-score =   0.42, R)
>droVir3.scaffold_12970 5051127 78 + 11907090
--------------------------------AUUGCGGUAACGCUGGGCGGCAACUG--CAACAAAUUGAAACGAAUUCCCCUA---UUGGAGUUCGAAUUGCAAUUGAAAUUG
--------------------------------.(((((((..(((...)))...))))--)))..(((((...((((((((....---..)))))))).....)))))....... ( -22.70, z-score =  -2.32, R)
>droMoj3.scaffold_6473 4567267 78 + 16943266
--------------------------------AUUGCGGUUAGGCUGGGCGGCAAUUG--CAACAAAUGGAAACGAAUUCCCGUA---UUGGAGUUCGAAUUGCAAUUGAAAUUG
--------------------------------...((.(((......))).))(((((--(((.....(....)(((((((....---..)))))))...))))))))....... ( -22.20, z-score =  -1.65, R)
>droGri2.scaffold_15081 3986860 81 - 4274704
--------------------------------AUUGCGGUUACGCUGGGCGGUGACUG--CAACAAAUUGAAACGAAUUCACGUAGUAUUGGAGUUUGAAUUGCAAUCGAAAUUG
--------------------------------.((((((((((((...)).)))))))--)))...((((...(((((((.((......))))))))).....))))........ ( -19.60, z-score =  -0.94, R)
>consensus
____AUUGCGGUUGGUUCCAC_________________GGGGCGAUGGAUGUUGGGUGACCAACAAAUUGAAACGAAUUCUCGUA___UUGGAGUUCGAAUUGCAAUUGAAAUUG
.................................................................(((((...(((((((.((......))))))))).....)))))....... ( -8.84 =  -9.05 +   0.21)

alignment

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secondary structure

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dotplot

Postscript

Window 1

Location 20,732,293 – 20,732,392
Length 99
Sequences 10
Columns 114
Reading direction forward
Mean pairwise identity 73.89
Shannon entropy 0.49717
G+C content 0.44440
Mean single sequence MFE -27.67
Consensus MFE -9.63
Energy contribution -9.84
Covariance contribution 0.21
Combinations/Pair 1.06
Mean z-score -2.02
Structure conservation index 0.35
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.00
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>dm3.chrX 20732293 99 + 22422827
UUGGUUCCACA------------AAAAGGGGCGAUGGAUGUUGGGUGACCAACAAAUUGAAACGAAUUCUCGUA---UUGGAGUUCGAAUUGCAAUUGAGAUUGGUUGCACUGC
...(((((...------------....)))))......((((((....))))))........((((((((....---..))))))))...(((((((......))))))).... ( -30.40, z-score =  -2.57, R)
>droSim1.chrX_random 378479 99 + 5698898
UUGGUUCCACA------------AAAAGGGGCGAUGGAUGUUGGGUGACCAACAAAUUGAAACGAAUUCUCGUA---UUGGAGUUCGAAUUGCAAUUGAGAUUGGUUGCACUGC
...(((((...------------....)))))......((((((....))))))........((((((((....---..))))))))...(((((((......))))))).... ( -30.40, z-score =  -2.57, R)
>droSec1.super_8 2993288 99 + 3762037
UUGGUUCCACA------------AAAAGGGGCGAUGGAUGUUGGGUGACCAACAAAUUGAAACGAAUUCUCGUA---UUGGAGUUCGAAUUGCAAUUGAGAUUGGUUGCACUGC
...(((((...------------....)))))......((((((....))))))........((((((((....---..))))))))...(((((((......))))))).... ( -30.40, z-score =  -2.57, R)
>droEre2.scaffold_4690 17315292 101 + 18748788
UUGGUGCCACACA----------AAAAGGGGCGGUGGAUGUUGGGUGACCAACAAAUUGAAACGAAUUCUCGUA---UUGGAGUUCGAAUUGCAAUUGAGAUUGGUUGCACUGC
..(((((.((.((----------(..((..(((((...((((((....))))))........((((((((....---..)))))))).)))))..))....))))).))))).. ( -33.30, z-score =  -2.93, R)
>droYak2.chrX 19948982 111 + 21770863
UUGGUUCCGCCAAAGAGAGGGGGGGGGGGGGCGUUGGAUGUUGGGUGACCAACAAAUUGAAACGAAUUCUCGUA---UUGGAGUUCGAAUUGCAAUUGAGAUUGGUUGCACUGC
...(((((.((.............)).)))))......((((((....))))))........((((((((....---..))))))))...(((((((......))))))).... ( -34.42, z-score =  -1.95, R)
>droAna3.scaffold_13334 52422 91 - 1562580
UUGGUUUCA-----------------GGAGGCCAUGGAUGUUGGGUCACCAACAAAUUGAAACGAAUUCUCGUA---UUGGAGUUCGAAUUGCAAUUGAAAUUGGUUGCAC---
.((((((..-----------------..))))))....((((((....))))))........((((((((....---..))))))))...(((((((......))))))).--- ( -27.20, z-score =  -2.18, R)
>dp4.chrXL_group1e 9376860 96 + 12523060
---------------UUGAAGAGGGUGGAGGCUUGGGGGGUGGCACAACCAACAAAUUGAAACGAAUUCUCGUA---UUGGAGUUCGAAUUGCAAUUGAAAUUGGUUGCACCAC
---------------........((((...(((........))).(((((((..(((((...((((((((....---..)))))))).....)))))....))))))))))).. ( -27.30, z-score =  -1.90, R)
>droVir3.scaffold_12970 5051134 81 + 11907090
----------------------------UAACGCUGGGCGGCAACUG--CAACAAAUUGAAACGAAUUCCCCUA---UUGGAGUUCGAAUUGCAAUUGAAAUUGGUUUCGCUGC
----------------------------.........(((((...((--((((.....)...((((((((....---..))))))))..)))))...((((....))))))))) ( -21.40, z-score =  -1.47, R)
>droMoj3.scaffold_6473 4567274 81 + 16943266
----------------------------UUAGGCUGGGCGGCAAUUG--CAACAAAUGGAAACGAAUUCCCGUA---UUGGAGUUCGAAUUGCAAUUGAAAUUGGUUUCACUGC
----------------------------..((((..(....((((((--(((.....(....)(((((((....---..)))))))...)))))))))...)..))))...... ( -24.80, z-score =  -2.47, R)
>droGri2.scaffold_15081 3986867 84 - 4274704
----------------------------UUACGCUGGGCGGUGACUG--CAACAAAUUGAAACGAAUUCACGUAGUAUUGGAGUUUGAAUUGCAAUCGAAAUUGGUUUCGCUGC
----------------------------.........(((((((.((--((((.....)...(((((((.((......)))))))))..))))).))((((....))))))))) ( -17.10, z-score =   0.45, R)
>consensus
UUGGUUCCA_________________AGGGGCGAUGGAUGUUGGGUGACCAACAAAUUGAAACGAAUUCUCGUA___UUGGAGUUCGAAUUGCAAUUGAAAUUGGUUGCACUGC
.................................................(((..(((((...(((((((.((......))))))))).....)))))....))).......... ( -9.63 =  -9.84 +   0.21)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:04:53 2011