Locus 13691

Sequence ID dm3.chrX
Location 8,411,212 – 8,411,359
Length 147
Max. P 0.992016
window18838 window18839

overview

Window 8

Location 8,411,212 – 8,411,359
Length 147
Sequences 5
Columns 148
Reading direction forward
Mean pairwise identity 62.65
Shannon entropy 0.63831
G+C content 0.36741
Mean single sequence MFE -31.00
Consensus MFE -13.26
Energy contribution -13.22
Covariance contribution -0.04
Combinations/Pair 1.26
Mean z-score -1.40
Structure conservation index 0.43
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.94
SVM RNA-class probability 0.856554
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 8411212 147 + 22422827
AACACACUAUCGAUAAGAGUCUCUAAAGAGUUACAAAUAUCGAUAAGAGCGUAGGUUAUUUAAAAGUAUAUCGCAUCCCUGGUAAUCAAUCGAUAGUUGGUAUAUC-UUAGAUAAAUAUCGAUAACCGUAAACCAGUUUGUCGGUGAU
.......((((((((...((((...((((..(((...(((((((....(((.....((((....))))...))).....((.....)))))))))....)))..))-))))))...))))))))((((((((....)))).))))... ( -29.80, z-score =  -0.82, R)
>droEre2.scaffold_4690 12047111 132 - 18748788
UUAAGGUUAUCGAUAG--------AUUGACUCGUCAACAUCGAUAAAUAU-----UUUUGAAAAAGUAUAUCGUAUUGGUGAUAUGCCAUCGAUAGUUGGUAUUUU--UCGCGAAAUAUCGAUAUCCUAACAACAGUUUG-UGGCGAU
...(((.((((((((.--------.((((....))))((.(((((..(((-----(((....)))))))))))...))((((.((((((.(....).))))))...--))))....)))))))).))).((((....)))-)...... ( -30.40, z-score =  -0.99, R)
>droYak2.chrX 8868408 126 - 21770863
UAAACGUUAUCGAUAA--------AUAGGGUAGCCAACAUCGAUACG--------------AAAAGUCUAUCGCAUCGGCGAUGUGUCAUCGAUAGUUAGUAUUUUAUUUGAUAAAUAUCGAUGUCCGAUAACUUGUUUGGCGGCGAU
((((((((((((....--------...((....)).(((((((((..--------------.......((((((....))))))(((((..(((((........))))))))))..))))))))).)))))))..)))))........ ( -30.90, z-score =  -0.53, R)
>droSec1.super_35 260305 115 + 471130
UAAGCACUAUCGAUAACUGCCUUAACAGAGUCACCAACAUCGAUAGGUG----------------AUAUGUC----------------AUCGAUAGUUGGUAAAUA-UUCGAUUAUUAUCGAUAUCCGUAAACCAGUUCGACGGUGAU
....(((..((((..((((..(((...((...((((((((((((.((..----------------.....))----------------)))))).)))))).....-.(((((....)))))..))..)))..))))))))..))).. ( -30.30, z-score =  -2.21, R)
>droSim1.chrX 6704607 115 + 17042790
UCAGCACUAUCGAUAACUGUCUUGACAGAGUUACCAACAUCGAUAGAUG----------------AUAUGUC----------------AUCGAUAGCUGGUAUAUC-UUCGAUAAGUAUCGAUAUCCGCAAACCAGUUUGACGGUGAU
(((....((((((((.((...((((.(((..(((((.(((((((.(((.----------------....)))----------------)))))).).)))))..))-)))))..)))))))))).(((((((....)))).)))))). ( -33.60, z-score =  -2.46, R)
>consensus
UAAACACUAUCGAUAA__G_CU__ACAGAGUCACCAACAUCGAUAAGUG____________AAAAGUAUAUCG_AU____G_U_____AUCGAUAGUUGGUAUAUC_UUCGAUAAAUAUCGAUAUCCGAAAACCAGUUUGACGGUGAU
.......((((((((.................((((((((((((............................................)))))).)))))).((((....))))..)))))))).(((.............))).... (-13.26 = -13.22 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 8,411,212 – 8,411,359
Length 147
Sequences 5
Columns 148
Reading direction reverse
Mean pairwise identity 62.65
Shannon entropy 0.63831
G+C content 0.36741
Mean single sequence MFE -31.21
Consensus MFE -13.37
Energy contribution -14.53
Covariance contribution 1.16
Combinations/Pair 1.12
Mean z-score -2.23
Structure conservation index 0.43
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.51
SVM RNA-class probability 0.992016
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 8411212 147 - 22422827
AUCACCGACAAACUGGUUUACGGUUAUCGAUAUUUAUCUAA-GAUAUACCAACUAUCGAUUGAUUACCAGGGAUGCGAUAUACUUUUAAAUAACCUACGCUCUUAUCGAUAUUUGUAACUCUUUAGAGACUCUUAUCGAUAGUGUGUU
.....((.((..(((((....(((((((((((..((((...-)))).......)))))).))))))))))...))))...................((((.((.(((((((...((..(((....)))))...))))))))).)))). ( -28.00, z-score =  -0.54, R)
>droEre2.scaffold_4690 12047111 132 + 18748788
AUCGCCA-CAAACUGUUGUUAGGAUAUCGAUAUUUCGCGA--AAAAUACCAACUAUCGAUGGCAUAUCACCAAUACGAUAUACUUUUUCAAAA-----AUAUUUAUCGAUGUUGACGAGUCAAU--------CUAUCGAUAACCUUAA
...((((-......((((.((......(((....)))...--....)).))))......))))(((((........)))))............-----....(((((((((((((....)))))--------..))))))))...... ( -23.92, z-score =  -1.16, R)
>droYak2.chrX 8868408 126 + 21770863
AUCGCCGCCAAACAAGUUAUCGGACAUCGAUAUUUAUCAAAUAAAAUACUAACUAUCGAUGACACAUCGCCGAUGCGAUAGACUUUU--------------CGUAUCGAUGUUGGCUACCCUAU--------UUAUCGAUAACGUUUA
...............((((((((.((((((((.(((.............))).)))))))).......((((((((((((((....)--------------).))))).)))))))........--------...))))))))..... ( -31.32, z-score =  -2.75, R)
>droSec1.super_35 260305 115 - 471130
AUCACCGUCGAACUGGUUUACGGAUAUCGAUAAUAAUCGAA-UAUUUACCAACUAUCGAU----------------GACAUAU----------------CACCUAUCGAUGUUGGUGACUCUGUUAAGGCAGUUAUCGAUAGUGCUUA
..(((..((((((((.((((((((..(((((....))))).-...((((((((.((((((----------------(......----------------....))))))))))))))).)))).)))).))))..))))..))).... ( -38.50, z-score =  -4.36, R)
>droSim1.chrX 6704607 115 - 17042790
AUCACCGUCAAACUGGUUUGCGGAUAUCGAUACUUAUCGAA-GAUAUACCAGCUAUCGAU----------------GACAUAU----------------CAUCUAUCGAUGUUGGUAACUCUGUCAAGACAGUUAUCGAUAGUGCUGA
..(((..((.(((((.((((((((..(((((....))))).-....(((((((.((((((----------------(......----------------....))))))))))))))..)))).)))).)))))...))..))).... ( -34.30, z-score =  -2.36, R)
>consensus
AUCACCGUCAAACUGGUUUACGGAUAUCGAUAUUUAUCGAA_AAUAUACCAACUAUCGAU_____A_C____AU_CGAUAUACUUUU____________CACCUAUCGAUGUUGGUAACUCUAU__AG_C__UUAUCGAUAGUGUUUA
....(((.............))).((((((((..............(((((((.((((((............................................)))))))))))))................))))))))....... (-13.37 = -14.53 +   1.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:26:01 2011