Locus 9423

Sequence ID	dm3.chr3R
Location	6,566,484 – 6,566,594
Length	110
Max. P	0.887478

overview

Window 1

Location	6,566,484 – 6,566,594
Length	110
Sequences	7
Columns	112
Reading direction	forward
Mean pairwise identity	73.16
Shannon entropy	0.54448
G+C content	0.47391
Mean single sequence MFE	-29.80
Consensus MFE	-15.48
Energy contribution	-17.04
Covariance contribution	1.56
Combinations/Pair	1.52
Mean z-score	-1.14
Structure conservation index	0.52
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.39
SVM RNA-class probability	0.671802
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 6566484 110 + 27905053
AAUUCGUUU-AAUAUUUGCUUGGCCUCUCAAAUCGAUACCUGGAGCUGCGGGAGAUGCUCCACUACCACUCCACAGGGAGCCUGGCCAACUCGUAAGCCAAGGCUUACAAA-
.........-.........((((((...............((((((..(....)..))))))......((((....))))...))))))...((((((....))))))...- ( -33.50, z-score =  -1.62, R)
>droSim1.chr3R 12722570 110 - 27517382
AUUUCAUUU-UAUAUUUGCUUGGCCUCUCAAAUCGAUACCUGGAGCUGCGGGAGAUGCUACACUACCACUCCACAGGGAGCCUGGCCAACUCGUAAGCCAAGGCUUACAAA-
.........-.........((((((......(((....((((......)))).)))............((((....))))...))))))...((((((....))))))...- ( -28.00, z-score =  -0.42, R)
>droSec1.super_0 5745206 110 - 21120651
AUUUCAUUU-UAUAUUAGCUUGGCCUCUCAAAUCGAUACCUGGAGCUGCGGGAGAUGCUACACUACCACUCCACAGGGAGCCUGGCCAACUCGUAAGCCAAGGCUUACAAA-
.........-......((.((((((......(((....((((......)))).)))............((((....))))...)))))))).((((((....))))))...- ( -28.20, z-score =  -0.43, R)
>droYak2.chr3R 10606610 110 + 28832112
AUUUCAUUU-UAUAUUUGUUUGGCCUCUCAAAUCGAUACCUGGAGCUGCGGGAGGUGCUCCUACUCCACUCCACAGGGAGCCUGGCCAACUCGUAAGCCAUGGUUUACAAA-
.........-.........((((((...............(((((....(((((...))))).)))))((((....))))...))))))...((((((....))))))...- ( -31.30, z-score =  -0.86, R)
>droEre2.scaffold_4770 2708795 110 - 17746568
AUUUCACUU-UAUAUUUGUUUGGCCUCUCAAAUCGAUACCUGAAGCUGCGGGAAAUGCUUCACUACCACUCCACAGGGUGGCUGGCCAACUCGUAAGCCAUGGCUUACAAG-
.........-.........((((((...............((((((..........))))))...((((((....))))))..))))))...((((((....))))))...- ( -33.00, z-score =  -2.54, R)
>droAna3.scaffold_13340 1212706 103 + 23697760
AUUUCAUUUAUUUAUUUGUUCGCCUCCUCAAAUCGAUAC-UAGAGCAGCGGGA--UGCACGUACCCCACU-----GGGAUCCUGGCUAACUCUUAAGCUAUGGCUUACAAA-
..............(((((..((((((.....((.....-..)).(((.(((.--((....)).))).))-----))))...(((((........))))).)))..)))))- ( -22.00, z-score =  -0.36, R)
>droMoj3.scaffold_6540 31116554 106 - 34148556
---UCGAUG-GAAAUAUGCUCAGAGUC-CACAGCGGGCGAUUGAGCUGCGGGUGGUGUUUUGUGUGUGGAA-GUAUCUACGCGAAAAGUGUCUUGAACUUUCGUCUUUAAAA
---..((((-(((....((((((.(((-(.....))))..)))))).......((..((((.((((((((.-...)))))))).))))..))......)))))))....... ( -32.60, z-score =  -1.72, R)
>consensus
AUUUCAUUU_UAUAUUUGCUUGGCCUCUCAAAUCGAUACCUGGAGCUGCGGGAGAUGCUCCACUACCACUCCACAGGGAGCCUGGCCAACUCGUAAGCCAUGGCUUACAAA_
...................((((((................(((((..........))))).......((((....))))...))))))...((((((....)))))).... (-15.48 = -17.04 +   1.56)

alignment

secondary structure

dotplot

Window 2

Location	6,566,484 – 6,566,594
Length	110
Sequences	7
Columns	112
Reading direction	reverse
Mean pairwise identity	73.16
Shannon entropy	0.54448
G+C content	0.47391
Mean single sequence MFE	-32.00
Consensus MFE	-16.00
Energy contribution	-17.41
Covariance contribution	1.42
Combinations/Pair	1.35
Mean z-score	-1.57
Structure conservation index	0.50
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	1.08
SVM RNA-class probability	0.887478
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 6566484 110 - 27905053
-UUUGUAAGCCUUGGCUUACGAGUUGGCCAGGCUCCCUGUGGAGUGGUAGUGGAGCAUCUCCCGCAGCUCCAGGUAUCGAUUUGAGAGGCCAAGCAAAUAUU-AAACGAAUU
-(((((((((....)))))))))((((((..(((((....)))))((((.((((((..........))))))..)))).........)))))).........-......... ( -38.00, z-score =  -1.79, R)
>droSim1.chr3R 12722570 110 + 27517382
-UUUGUAAGCCUUGGCUUACGAGUUGGCCAGGCUCCCUGUGGAGUGGUAGUGUAGCAUCUCCCGCAGCUCCAGGUAUCGAUUUGAGAGGCCAAGCAAAUAUA-AAAUGAAAU
-(((((((((....)))))))))((((((...(((((((..(.((((.((........)).))))..)..)))).........))).)))))).........-......... ( -33.30, z-score =  -0.97, R)
>droSec1.super_0 5745206 110 + 21120651
-UUUGUAAGCCUUGGCUUACGAGUUGGCCAGGCUCCCUGUGGAGUGGUAGUGUAGCAUCUCCCGCAGCUCCAGGUAUCGAUUUGAGAGGCCAAGCUAAUAUA-AAAUGAAAU
-.((((((((....))))))))((((((..(((...((((((.(.(((.(.....)))).)))))))((((((((....))))).))))))..))))))...-......... ( -36.60, z-score =  -1.80, R)
>droYak2.chr3R 10606610 110 - 28832112
-UUUGUAAACCAUGGCUUACGAGUUGGCCAGGCUCCCUGUGGAGUGGAGUAGGAGCACCUCCCGCAGCUCCAGGUAUCGAUUUGAGAGGCCAAACAAAUAUA-AAAUGAAAU
-((((((.....((((((.((((((((((..(((((....)))))(((((.((((...))))....))))).)))..)))))))..))))))......))))-))....... ( -33.80, z-score =  -1.53, R)
>droEre2.scaffold_4770 2708795 110 + 17746568
-CUUGUAAGCCAUGGCUUACGAGUUGGCCAGCCACCCUGUGGAGUGGUAGUGAAGCAUUUCCCGCAGCUUCAGGUAUCGAUUUGAGAGGCCAAACAAAUAUA-AAGUGAAAU
-(((((((((....)))))))))((((((.(((((((...)).)))))..((((((..........))))))...............)))))).........-......... ( -37.50, z-score =  -3.10, R)
>droAna3.scaffold_13340 1212706 103 - 23697760
-UUUGUAAGCCAUAGCUUAAGAGUUAGCCAGGAUCCC-----AGUGGGGUACGUGCA--UCCCGCUGCUCUA-GUAUCGAUUUGAGGAGGCGAACAAAUAAAUAAAUGAAAU
-....(((((....)))))...(((.(((.......(-----((((((((......)--))))))))(((.(-((....))).)))..))).)))................. ( -26.60, z-score =  -1.02, R)
>droMoj3.scaffold_6540 31116554 106 + 34148556
UUUUAAAGACGAAAGUUCAAGACACUUUUCGCGUAGAUAC-UUCCACACACAAAACACCACCCGCAGCUCAAUCGCCCGCUGUG-GACUCUGAGCAUAUUUC-CAUCGA---
..............(((((((.........(.((.((...-.)).)).)............(((((((..........))))))-).)).))))).......-......--- ( -18.20, z-score =  -0.81, R)
>consensus
_UUUGUAAGCCAUGGCUUACGAGUUGGCCAGGCUCCCUGUGGAGUGGUAGUGGAGCAUCUCCCGCAGCUCCAGGUAUCGAUUUGAGAGGCCAAGCAAAUAUA_AAAUGAAAU
.(((((((((....)))))))))((((((..............((((..............))))..(((.((((....))))))).))))))................... (-16.00 = -17.41 +   1.42)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:04:08 2011