Locus 15515

Sequence ID dm3.chrX
Location 19,345,594 – 19,345,700
Length 106
Max. P 0.724374
window21391 window21392

overview

Window 1

Location 19,345,594 – 19,345,700
Length 106
Sequences 3
Columns 108
Reading direction forward
Mean pairwise identity 77.02
Shannon entropy 0.31844
G+C content 0.46744
Mean single sequence MFE -18.67
Consensus MFE -11.75
Energy contribution -11.87
Covariance contribution 0.12
Combinations/Pair 1.17
Mean z-score -1.90
Structure conservation index 0.63
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.47
SVM RNA-class probability 0.707560
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19345594 106 + 22422827
AGUUCCAUUCCAGUUCCAUCUAUUCAAAGAGCUCCUGUUCCU--ACUCCUAAGAGCAUGUGUCCCUACUGCCUUCCGUUGCUUUUUGCCACCAAUAGCAACACUUUUG
............................((((....))))..--......(((.(((.(((....)))))))))..((((((..(((....))).))))))....... ( -15.00, z-score =  -1.14, R)
>droEre2.scaffold_4690 9586430 88 + 18748788
---------CUAGUU---UCCAGUCACAGAGUUCCUGCAGCU--------AAGAGCAUGUGUCCCUAUUUUCUUCCGCUGCUUUUUGCCACCAAUAGCAACACUCUGG
---------......---........((((((....(((((.--------(((((.(((......))).)))))..)))))...((((........)))).)))))). ( -20.50, z-score =  -1.66, R)
>droSec1.super_8 1629606 108 + 3762037
AGUUCCAUCCCAGUUCCAUUCAUUCAAAGAGCUCCAGCUCCUCUACUCGUAAGAGCAUGUGUCCCUACUGCCUUCCGUUGCUUUUUGCCACCAAUAGCAACACUUUUG
..........((((......(((.....((((....)))).....(((....)))...))).....))))......((((((..(((....))).))))))....... ( -20.50, z-score =  -2.90, R)
>consensus
AGUUCCAU_CCAGUUCCAUCCAUUCAAAGAGCUCCUGCUCCU__ACUC_UAAGAGCAUGUGUCCCUACUGCCUUCCGUUGCUUUUUGCCACCAAUAGCAACACUUUUG
..........................(((((.....((((............))))....................((((((..(((....))).)))))).))))). (-11.75 = -11.87 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 19,345,594 – 19,345,700
Length 106
Sequences 3
Columns 108
Reading direction reverse
Mean pairwise identity 77.02
Shannon entropy 0.31844
G+C content 0.46744
Mean single sequence MFE -27.17
Consensus MFE -18.54
Energy contribution -18.99
Covariance contribution 0.45
Combinations/Pair 1.05
Mean z-score -1.74
Structure conservation index 0.68
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.51
SVM RNA-class probability 0.724374
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19345594 106 - 22422827
CAAAAGUGUUGCUAUUGGUGGCAAAAAGCAACGGAAGGCAGUAGGGACACAUGCUCUUAGGAGU--AGGAACAGGAGCUCUUUGAAUAGAUGGAACUGGAAUGGAACU
.....(((((.((((((...((.....))..(....).)))))).))))).(((((....))))--)....(((....(((......))).....))).......... ( -25.70, z-score =  -1.50, R)
>droEre2.scaffold_4690 9586430 88 - 18748788
CCAGAGUGUUGCUAUUGGUGGCAAAAAGCAGCGGAAGAAAAUAGGGACACAUGCUCUU--------AGCUGCAGGAACUCUGUGACUGGA---AACUAG---------
.((((((.((((((....))))))...(((((..((((..((.(.....)))..))))--------.)))))....)))))).....(..---..)...--------- ( -25.40, z-score =  -1.37, R)
>droSec1.super_8 1629606 108 - 3762037
CAAAAGUGUUGCUAUUGGUGGCAAAAAGCAACGGAAGGCAGUAGGGACACAUGCUCUUACGAGUAGAGGAGCUGGAGCUCUUUGAAUGAAUGGAACUGGGAUGGAACU
.....(((((.((((((...((.....))..(....).)))))).))))).(((((....)))))(((((((....)))))))......................... ( -30.40, z-score =  -2.34, R)
>consensus
CAAAAGUGUUGCUAUUGGUGGCAAAAAGCAACGGAAGGCAGUAGGGACACAUGCUCUUA_GAGU__AGGAGCAGGAGCUCUUUGAAUGGAUGGAACUGG_AUGGAACU
.....(((((.((((((...((.....))..(....).)))))).)))))..(((((................))))).............................. (-18.54 = -18.99 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:00:54 2011