Locus 15319

Sequence ID dm3.chrX
Location 18,403,420 – 18,403,550
Length 130
Max. P 0.844333
window21104 window21105

overview

Window 4

Location 18,403,420 – 18,403,519
Length 99
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 64.60
Shannon entropy 0.63974
G+C content 0.56463
Mean single sequence MFE -39.05
Consensus MFE -10.57
Energy contribution -10.57
Covariance contribution 0.01
Combinations/Pair 1.38
Mean z-score -2.32
Structure conservation index 0.27
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.89
SVM RNA-class probability 0.844333
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 18403420 99 + 22422827
UCCACAAUCUACGGCCGCAGUUGAGUGAUUGCCCCGCUGUGUGGAGUGUCCCAUGACAAAGGGAUAUUCGUAGGUGCGCUUAGGCGCAGUCA--UGUCCAC------
((((((.....(((..((((((....)))))).)))...))))))(((((((........))))))).(((.(.(((((....))))).).)--)).....------ ( -34.90, z-score =  -1.36, R)
>droSim1.chrX 14209040 93 + 17042790
CCCACAAUCUGUGGCCGG---UGAGUGAUUGCCCCGCUGGGUGGAGUGUCCCAUGACAAAGGGAUAUUGGUGGCUCCGU---GGCGCAGUCA--UGUCCAC------
.((((.....))))..((---...((((((((.((((.((((.(.(((((((........)))))))...).)))).))---)).)))))))--)..))..------ ( -40.50, z-score =  -1.99, R)
>droSec1.super_8 709632 93 + 3762037
CCCACAAUCUGUGGCCGG---UGAGUGAUUGCCCCGCUGGGUGGAGUGUCCCAUGACAAAGGGAUAUUCGUAGCUCCGU---GGCGCAGUCA--UGCCCAC------
.((((.....))))..((---.(.((((((((.((((.((((.(((((((((........)))))))))...)))).))---)).)))))))--).)))..------ ( -43.40, z-score =  -3.49, R)
>droYak2.chrX 17034453 98 + 21770863
----CUAUCUGUGGCCAAG--UGAGUGAUUGCCCCGCUCCGUGGAGUGUCCCAUGACAAAGGGAUAUUCAGAGG-ACGCGGUGACGCAGUCA--UGUCUAUGUCCAC
----......((((.((((--...((((((((((((((((...(((((((((........)))))))))...))-).)))).)..)))))))--)..)).)).)))) ( -42.40, z-score =  -3.87, R)
>dp4.chrXL_group3a 342118 104 + 2690836
GCCGCUAUCUGGGAUCGUGGAUAAAUGAGUGUCCAGUUC--UCGAGUGGCC-GUGACACGGGACAUUUUUCACCGCCGUGUCUGCCAUUUCAGCUGGUCAUCAUCAC
.((((.(((...))).))))....((((.((.((((((.--..(((((((.-..(((((((..............))))))).))))))).)))))).))))))... ( -36.54, z-score =  -1.62, R)
>droPer1.super_39 356588 104 - 745454
GCCGCUAUCUGGGAUCGUGGAUAAAUGAGUGUCCAGUUC--UCGAGUGGCC-GUGACACGGGACAUUUUUCACCGCCGUGUCUGCCAUUUCAGCUGGUCAUCAUCAC
.((((.(((...))).))))....((((.((.((((((.--..(((((((.-..(((((((..............))))))).))))))).)))))).))))))... ( -36.54, z-score =  -1.62, R)
>consensus
CCCACAAUCUGUGGCCGGG__UGAGUGAUUGCCCCGCUC_GUGGAGUGUCCCAUGACAAAGGGAUAUUCGUAGCUCCGUGU_GGCGCAGUCA__UGUCCAC______
............((.((........(((((((.((((......(((((((((........)))))))))........))...)).)))))))..)).))........ (-10.57 = -10.57 +   0.01)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 18,403,455 – 18,403,550
Length 95
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 62.91
Shannon entropy 0.65674
G+C content 0.57579
Mean single sequence MFE -34.88
Consensus MFE -13.66
Energy contribution -13.67
Covariance contribution 0.00
Combinations/Pair 1.33
Mean z-score -1.36
Structure conservation index 0.39
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.57
SVM RNA-class probability 0.745053
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 18403455 95 + 22422827
GCUGUGUGGAGUGUCCCAUGACAAAGGGAUAUUCGUAGGUGCGCUUAGGCGCAGUCA--UGUC------CACGUACCGGAUGAGUCCGGACAUA--CCCUCCACC
.....((((((((((((........))))))......(((((((....)))).....--....------...((.(((((....)))))))..)--)))))))). ( -35.40, z-score =  -1.69, R)
>droSim1.chrX 14209072 94 + 17042790
GCUGGGUGGAGUGUCCCAUGACAAAGGGAUAUUGGUGG---CUCCGUGGCGCAGUCA--UGUC------CACGUACCGGAUGAGUCCGGACAUAUACCUUCCACC
....(((((((((((((........))))))).((((.---...(((((.(((....--))))------))))..(((((....))))).....)))).)))))) ( -38.20, z-score =  -1.69, R)
>droSec1.super_8 709664 94 + 3762037
GCUGGGUGGAGUGUCCCAUGACAAAGGGAUAUUCGUAG---CUCCGUGGCGCAGUCA--UGCC------CACGUACCGGAUGAGUCCGGACAUAUACCUUCCAUC
(..((((((((((((((........)))))))))((..---...(((((.(((....--))))------))))..(((((....)))))))...)))))..)... ( -38.30, z-score =  -2.61, R)
>droYak2.chrX 17034482 100 + 21770863
GCUCCGUGGAGUGUCCCAUGACAAAGGGAUAUUCAGAGG-ACGCGGUGACGCAGUCA--UGUCUAUGUCCACGUACCGGAUGAGUCCGGACAUA--CCUUCUACC
....(((((((((((((........)))))))))(((.(-(((((....))).))).--..))).....))))..(((((....))))).....--......... ( -37.50, z-score =  -1.94, R)
>dp4.chrXL_group3a 342153 101 + 2690836
--GUUCUCGAGUGGCC-GUGACACGGGACAUUUUUCACCGCCGUGUCUGCCAUUUCAGCUGGUCAUCAUCACGCACUGGAGACCCUCGGGC-CCCAUACCGCACC
--..((((.((((((.-..(((((((..............))))))).)))......((((((....)))).))))).))))....(((..-......))).... ( -29.94, z-score =  -0.04, R)
>droPer1.super_39 356623 101 - 745454
--GUUCUCGAGUGGCC-GUGACACGGGACAUUUUUCACCGCCGUGUCUGCCAUUUCAGCUGGUCAUCAUCACGCACUGGAGACCCUCGGGC-CACAUACCGCACC
--((.((((((((((.-..(((((((..............))))))).))))........((((..((........))..)))))))))).-.)).......... ( -29.94, z-score =  -0.18, R)
>consensus
GCUGUGUGGAGUGUCCCAUGACAAAGGGAUAUUCGUAG___CGCGGUGGCGCAGUCA__UGUC______CACGUACCGGAUGAGUCCGGACAUA_ACCCUCCACC
........(((((((((........)))))))))......................................((.((((......)))))).............. (-13.66 = -13.67 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:57:03 2011