Locus 15422

Sequence ID dm3.chrX
Location 18,965,411 – 18,965,572
Length 161
Max. P 0.991485
window21243 window21244

overview

Window 3

Location 18,965,411 – 18,965,572
Length 161
Sequences 4
Columns 166
Reading direction forward
Mean pairwise identity 62.46
Shannon entropy 0.53811
G+C content 0.41341
Mean single sequence MFE -39.09
Consensus MFE -13.89
Energy contribution -15.95
Covariance contribution 2.06
Combinations/Pair 1.28
Mean z-score -3.09
Structure conservation index 0.36
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.48
SVM RNA-class probability 0.991485
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 18965411 161 + 22422827
GUCUACGUAGUGACGAAGCGCACCUGAAGAAGGCGACUUCUGCAUUAAGACGUGCAUUAAAUGAAAACCUAUUGUGGUUGUCCGUUCAUAAUGGCGU-UAUAA-CGCUAUUUAAGCAUAAAAUGAUAAU--CA-GCAUUUUUAUGUUGAAGAUGCCAUCGUGACCA
(((.(((..((((((..((((..((..(((((....)))))......))..)))).......((.((((......)))).)))).)))).(((((((-(....-.(((.....)))............(--((-((((....))))))).)))))))))))))).. ( -44.20, z-score =  -2.01, R)
>droSim1.chrX 14660161 125 + 17042790
GUCUACGUAGUGACGAAGCGC-------------GACUUCUACAUUAAGACG---AUGAAAUGAAAACCUAUCGUGGUUUUCCUUUCAAAACGAUAUGUCAAA-CGCUAUUUAAUCAUAAAAUGAUAAUGCCA-UCGUCACUA-----------------------
.......(((((((((((((.-------------(((.(((......)))..---.(((((.(((((((......))))))).))))).........)))...-)))).....(((((...))))).......-)))))))))----------------------- ( -33.50, z-score =  -3.94, R)
>droSec1.super_8 1256451 125 + 3762037
GUCUACGUAGUGACGAAGCGC-------------GACUUCUACAUUCAGACG---AUGAAAUGAAAACCUAUCGUGGUUGUCCUUUCAAAACGAUAUGUCAAA-CGCUAUUUAAGCAUAAAAUGAUAAUGCCU-UCGUCACUA-----------------------
.......(((((((((((.((-------------(((.(((......)))..---.(((((.((.((((......)))).)).))))).........)))...-.(((.....))).............))))-)))))))))----------------------- ( -34.50, z-score =  -3.48, R)
>droEre2.scaffold_4690 9240342 129 + 18748788
GACCGCGUAGUGACGAAGCGC--------------GCCCGAGGAAGGCGACUAACAUGUGAAGACGAAGAAAUGUGGUUGUCCGAUCACAACGACAUGCAUUUUCGGGAGAAAAUGAAAAUGUUGCAAGGGCAAUCGUCACUA-----------------------
.......(((((((((.....--------------((((((....((((((((.(((..............)))))))))))...))....((((((.(((((((....)))))))...))))))...))))..)))))))))----------------------- ( -44.14, z-score =  -2.92, R)
>consensus
GUCUACGUAGUGACGAAGCGC_____________GACUUCUACAUUAAGACG___AUGAAAUGAAAACCUAUCGUGGUUGUCCGUUCAAAACGACAUGUAAAA_CGCUAUUUAAGCAUAAAAUGAUAAUGCCA_UCGUCACUA_______________________
.......(((((((((........................................(((((.(((((((......))))))).)))))........((((.......................)))).......)))))))))....................... (-13.89 = -15.95 +   2.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 18,965,411 – 18,965,572
Length 161
Sequences 4
Columns 166
Reading direction reverse
Mean pairwise identity 62.46
Shannon entropy 0.53811
G+C content 0.41341
Mean single sequence MFE -37.12
Consensus MFE -13.23
Energy contribution -16.85
Covariance contribution 3.62
Combinations/Pair 1.17
Mean z-score -2.65
Structure conservation index 0.36
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.72
SVM RNA-class probability 0.963468
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 18965411 161 - 22422827
UGGUCACGAUGGCAUCUUCAACAUAAAAAUGC-UG--AUUAUCAUUUUAUGCUUAAAUAGCG-UUAUA-ACGCCAUUAUGAACGGACAACCACAAUAGGUUUUCAUUUAAUGCACGUCUUAAUGCAGAAGUCGCCUUCUUCAGGUGCGCUUCGUCACUACGUAGAC
...(((..(((((....(((.(((....))).-))--)..........(((((.....))))-)....-..)))))..)))(((((.((((......)))).))......((((........))))((((((((((.....))))).))))).......))).... ( -38.50, z-score =  -1.60, R)
>droSim1.chrX 14660161 125 - 17042790
-----------------------UAGUGACGA-UGGCAUUAUCAUUUUAUGAUUAAAUAGCG-UUUGACAUAUCGUUUUGAAAGGAAAACCACGAUAGGUUUUCAUUUCAU---CGUCUUAAUGUAGAAGUC-------------GCGCUUCGUCACUACGUAGAC
-----------------------(((((((((-.(((...(((((...)))))......(((-(((.((((..((...(((((.(((((((......))))))).))))).---)).....))))..))).)-------------))))))))))))))....... ( -36.70, z-score =  -3.54, R)
>droSec1.super_8 1256451 125 - 3762037
-----------------------UAGUGACGA-AGGCAUUAUCAUUUUAUGCUUAAAUAGCG-UUUGACAUAUCGUUUUGAAAGGACAACCACGAUAGGUUUUCAUUUCAU---CGUCUGAAUGUAGAAGUC-------------GCGCUUCGUCACUACGUAGAC
-----------------------(((((((((-((((...........(((((.....))))-)..(((....((...(((((.((.((((......)))).)).))))).---))((((....)))).)))-------------)).)))))))))))....... ( -37.50, z-score =  -3.38, R)
>droEre2.scaffold_4690 9240342 129 - 18748788
-----------------------UAGUGACGAUUGCCCUUGCAACAUUUUCAUUUUCUCCCGAAAAUGCAUGUCGUUGUGAUCGGACAACCACAUUUCUUCGUCUUCACAUGUUAGUCGCCUUCCUCGGGC--------------GCGCUUCGUCACUACGCGGUC
-----------------------(((((((((..((......(((((...(((((((....))))))).((((.(((((......))))).))))..............))))).(.(((((.....))))--------------)))).)))))))))....... ( -35.80, z-score =  -2.08, R)
>consensus
_______________________UAGUGACGA_UGGCAUUAUCAUUUUAUGAUUAAAUAGCG_UUAGACAUAUCGUUUUGAAAGGACAACCACAAUAGGUUUUCAUUUCAU___CGUCUUAAUGCAGAAGUC_____________GCGCUUCGUCACUACGUAGAC
.......................(((((((................................................(((((.(((((((......))))))).)))))................((((((((((.....))))).))))))))))))....... (-13.23 = -16.85 +   3.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:58:56 2011