Locus 15583

Sequence ID dm3.chrX
Location 19,770,781 – 19,770,839
Length 58
Max. P 0.989252
window21490 window21491

overview

Window 0

Location 19,770,781 – 19,770,839
Length 58
Sequences 10
Columns 66
Reading direction forward
Mean pairwise identity 62.72
Shannon entropy 0.75192
G+C content 0.43905
Mean single sequence MFE -13.58
Consensus MFE -7.58
Energy contribution -7.57
Covariance contribution -0.01
Combinations/Pair 1.50
Mean z-score -1.11
Structure conservation index 0.56
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.36
SVM RNA-class probability 0.989252
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19770781 58 + 22422827
---AAAGUACUCUUAGUCCACUG--GUGCAGGCGACAAAAUGGUCACCCGAUGGAAUAUUAUU---
---...(((((...((....)))--)))).((.(((......))).))...............--- (  -9.20, z-score =   0.63, R)
>droPer1.super_13 1139707 63 + 2293547
GGAAUGCUCUUCUUCGUGCACUGUUGCACAGGCGACAAACUCGUCGCCUGAAAAGUGGGCACA---
....(((((...((((((((....)))))(((((((......))))))))))....)))))..--- ( -25.90, z-score =  -3.40, R)
>dp4.chrXL_group1e 5114045 63 - 12523060
GGAAUGCUCUUCUUCGUGCAUUGUUGCACAGGCGACAAACUGGUCGCCUGCAAAGUGGUCACA---
....(((........(((((....)))))(((((((......))))))))))...........--- ( -22.30, z-score =  -1.99, R)
>droEre2.scaffold_4690 9974438 58 + 18748788
---AAAGUGCUCUUAGUCCACUG--GUGCAGGCGACAAAACAGUCGCUCGAUGGAAUAUUAUC---
---....(((.((.((....)))--).)))((((((......))))))...............--- ( -12.50, z-score =  -0.47, R)
>droYak2.chrX 10167316 58 - 21770863
---AAAGUGCUCUUAGUCCAAUG--GCGCAGGCGACAAAACGGUCGCUCCAUGAAAUAUUAUC---
---...(((((.((.....)).)--)))).((((((......))))))...............--- ( -13.60, z-score =  -1.21, R)
>droSec1.super_8 2033883 58 + 3762037
---AAAGUACUCUUAGUCCACUG--GUGCAGGCGACAAAACGGUCACCCGAUGAAAUAUUAUU---
---...(((((...((....)))--)))).((.(((......))).))...............--- (  -9.20, z-score =   0.19, R)
>droSim1.chrX 15241157 58 + 17042790
---AAAGUGCUCUUAGUCCACUG--GUGCAGGUGACAAAACGGUCACCCGAAGAAAUAUUAUU---
---....(((.((.((....)))--).)))((((((......))))))...............--- ( -13.20, z-score =  -1.16, R)
>droVir3.scaffold_12970 1779149 58 - 11907090
---AAAAUUCUCUUUGUGUAU-AG-AAACAGGCGACAAAAACGUCUCUCAUGAAAAUGUUCGG---
---..................-.(-((..(((((.......)))))..(((....))))))..--- (  -5.90, z-score =   0.54, R)
>droMoj3.scaffold_6473 11326292 62 + 16943266
---AAAAUUCUCUUCGUGUAUGAA-AAAAAGGCGACAAAAGUGUCGUAAGCGUGGAAAAUGAAAUG
---...(((.(((.(((.......-......((((((....))))))..))).))).)))...... ( -10.26, z-score =  -1.40, R)
>droGri2.scaffold_14853 3607693 57 - 10151454
---AAAAUUCUCUUCGUGUAC-AU-GCACAGGCGACAAAUCUGUCGCUAAUAAGUCGUUUUU----
---............((((..-..-)))).(((((((....)))))))..............---- ( -13.70, z-score =  -2.87, R)
>consensus
___AAAGUGCUCUUAGUCCACUG__GCACAGGCGACAAAACGGUCGCCCGAAGAAAUAUUAUA___
..............................((((((......)))))).................. ( -7.58 =  -7.57 +  -0.01)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 19,770,781 – 19,770,839
Length 58
Sequences 10
Columns 66
Reading direction reverse
Mean pairwise identity 62.72
Shannon entropy 0.75192
G+C content 0.43905
Mean single sequence MFE -13.58
Consensus MFE -5.54
Energy contribution -5.48
Covariance contribution -0.06
Combinations/Pair 1.40
Mean z-score -1.40
Structure conservation index 0.41
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.59
SVM RNA-class probability 0.952850
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19770781 58 - 22422827
---AAUAAUAUUCCAUCGGGUGACCAUUUUGUCGCCUGCAC--CAGUGGACUAAGAGUACUUU---
---........(((((((((((((......))))))))...--..))))).............--- ( -15.60, z-score =  -2.07, R)
>droPer1.super_13 1139707 63 - 2293547
---UGUGCCCACUUUUCAGGCGACGAGUUUGUCGCCUGUGCAACAGUGCACGAAGAAGAGCAUUCC
---.((((.(..(((((((((((((....))))))))(((((....)))))))))).).))))... ( -24.60, z-score =  -3.32, R)
>dp4.chrXL_group1e 5114045 63 + 12523060
---UGUGACCACUUUGCAGGCGACCAGUUUGUCGCCUGUGCAACAAUGCACGAAGAAGAGCAUUCC
---...........((((((((((......)))))))(((((....)))))........))).... ( -21.00, z-score =  -2.37, R)
>droEre2.scaffold_4690 9974438 58 - 18748788
---GAUAAUAUUCCAUCGAGCGACUGUUUUGUCGCCUGCAC--CAGUGGACUAAGAGCACUUU---
---........(((((((.(((((......))))).))...--..))))).............--- ( -12.20, z-score =  -0.80, R)
>droYak2.chrX 10167316 58 + 21770863
---GAUAAUAUUUCAUGGAGCGACCGUUUUGUCGCCUGCGC--CAUUGGACUAAGAGCACUUU---
---........(((((((.(((((......))))).....)--)).)))).............--- ( -10.70, z-score =   0.09, R)
>droSec1.super_8 2033883 58 - 3762037
---AAUAAUAUUUCAUCGGGUGACCGUUUUGUCGCCUGCAC--CAGUGGACUAAGAGUACUUU---
---........(((((((((((((......))))))))...--..))))).............--- ( -12.70, z-score =  -0.77, R)
>droSim1.chrX 15241157 58 - 17042790
---AAUAAUAUUUCUUCGGGUGACCGUUUUGUCACCUGCAC--CAGUGGACUAAGAGCACUUU---
---.............((((((((......))))))))...--.((((.........))))..--- ( -12.90, z-score =  -1.01, R)
>droVir3.scaffold_12970 1779149 58 + 11907090
---CCGAACAUUUUCAUGAGAGACGUUUUUGUCGCCUGUUU-CU-AUACACAAAGAGAAUUUU---
---......((((((......((((....))))...(((..-..-..)))....))))))...--- (  -6.70, z-score =   0.34, R)
>droMoj3.scaffold_6473 11326292 62 - 16943266
CAUUUCAUUUUCCACGCUUACGACACUUUUGUCGCCUUUUU-UUCAUACACGAAGAGAAUUUU---
....................(((((....)))))..(((((-(((......))))))))....--- (  -8.90, z-score =  -3.10, R)
>droGri2.scaffold_14853 3607693 57 + 10151454
----AAAAACGACUUAUUAGCGACAGAUUUGUCGCCUGUGC-AU-GUACACGAAGAGAAUUUU---
----........(((....(((((......))))).((((.-..-...))))..)))......--- ( -10.50, z-score =  -1.01, R)
>consensus
___AAUAAUAUUUCAUCGGGCGACCGUUUUGUCGCCUGCAC__CAGUGCACUAAGAGAACUUU___
...................(((((......)))))............................... ( -5.54 =  -5.48 +  -0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:02:14 2011