Locus 14529

Sequence ID	dm3.chrX
Location	13,910,222 – 13,910,329
Length	107
Max. P	0.998035

overview

Window 1

Location	13,910,222 – 13,910,329
Length	107
Sequences	9
Columns	120
Reading direction	forward
Mean pairwise identity	66.61
Shannon entropy	0.64313
G+C content	0.51882
Mean single sequence MFE	-31.99
Consensus MFE	-28.77
Energy contribution	-24.63
Covariance contribution	-4.14
Combinations/Pair	1.80
Mean z-score	-0.97
Structure conservation index	0.90
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	2.05
SVM RNA-class probability	0.980598
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chrX 13910222 107 + 22422827
CGGUUGCGUAACUGACCGUGUGGCCCAAUGGAUAAGGCGUCGGACUUCGGAUCCGAAGAUUGCAGGUUCGAGUCCUGUCACGGUCGAAGC-UCAGGCUAUAUUUUUUU------------
.(.(((.((...((((((((.(((((.........)).)))(((((.((((((.(.......).)))))))))))...))))))))..))-.))).)...........------------ ( -32.90, z-score =  -0.19, R)
>droSim1.chrX 6290597 98 - 17042790
CGGUUGCGCAACUGACCGUGUGGCCCAAUGGAUAAGGCGUCGGACUUCGGAUCCGAAGAUUGCAGGUUCGAGUCCUGUCACGGUCGUAGC-UCAGGUUA---------------------
...(((.((.((.(((((((.(((((.........)).)))(((((.((((((.(.......).)))))))))))...))))))))).))-.)))....--------------------- ( -33.80, z-score =  -0.43, R)
>droSec1.super_20 543807 102 + 1148123
CGGUUGCGCAACUGACCGUGUGGCCCAAUGGAUAAGGCGUCGGACUUCGGAUCCGAAGAUUGCAGGUUCGAGUCCUGUCACGGUCGUAGC-UUACGACUUUUU-----------------
.(((((.((.((.(((((((.(((((.........)).)))(((((.((((((.(.......).)))))))))))...))))))))).))-...)))))....----------------- ( -34.80, z-score =  -0.76, R)
>droYak2.chrX 8196753 101 + 21770863
CGAUUGCGUAACUGACCGUGUGGCCUAAUGGAUAAGGCGUCGGACUUCGGAUCCGAAGAUUGCAGGUUCGAGUCCUGUCACGGUCGUAAUGUCAAGUUUUU-------------------
...((((((.((.(((((((..((((........)))).((((((....).))))).....(((((.......)))))))))))))).))).)))......------------------- ( -34.80, z-score =  -1.91, R)
>droEre2.scaffold_4770 17614591 97 + 17746568
CGAAUUUACAUC-GGUCCUGUGGCGCAAUGGAUAACGCGUCUGACUACGGAUCAGAAGAUUCCAGGUUCGACUCCUGGCAGGAUCG-G--GUUAACUUUUU-------------------
..........((-(((((((((((((..........))))).......(((((....)))))((((.......)))))))))))))-)--...........------------------- ( -29.40, z-score =  -1.25, R)
>droAna3.scaffold_13266 1140290 98 - 19884421
AAAUUAGGCACCCGGUCCUGUGGCGCAAUGGAUAACGCGUCUGACUACGGAUCAGAAGAUUCCAGGUUCGACUCCUGGCAGGAUCG-AA-AAUAUUUUUU--------------------
............((((((((((((((..........))))).......(((((....)))))((((.......)))))))))))))-..-..........-------------------- ( -28.70, z-score =  -1.10, R)
>dp4.chr3 1788224 94 - 19779522
-------GCAACGGGUCCUGUGGCGCAAUGGAUAACGCGUCUGACUACGGAUCAGAAGAUUCCAGGUUCGACUCCUGGCAGGAUCG-GA-GAUAUCUUUUUUU-----------------
-------....(.(((((((((((((..........))))).......(((((....)))))((((.......)))))))))))).-).-.............----------------- ( -27.90, z-score =  -0.52, R)
>droWil1.scaffold_180700 724594 92 - 6630534
--------CAACAGCCCGGCUAGCUCAGUCGGUAGAGCAUGAGACUCUUAAUCUCAGGGUCGUGGGUUCGAGCCCCACGUUGGGCGAAAAAUAACUUUUU--------------------
--------.....(((((((..((((........))))....((((((.......))))))(((((.......))))))))))))...............-------------------- ( -32.90, z-score =  -2.41, R)
>anoGam1.chr3L 7656875 109 - 41284009
---------ACG-GGUCCUGUGGCGCAAUGGAUAACGCGUCUGACUACGGAUCAGAAGAUUCCAGGUUCGACUCCUGGCAGGAUCG-AUCGUUAUCUGGGGAUAGCAACCUCUCUUUUUU
---------...-(((((((((((((..........))))).......(((((....)))))((((.......)))))))))))).-...((((((....)))))).............. ( -32.70, z-score =  -0.17, R)
>consensus
CG_UUGCGCAACUGACCGUGUGGCCCAAUGGAUAACGCGUCGGACUACGGAUCAGAAGAUUGCAGGUUCGAGUCCUGGCACGGUCG_AACGUUAUGUUUUU___________________
.............(((((((..(((..........))).(((((.......))))).....(((((.......))))))))))))................................... (-28.77 = -24.63 +  -4.14)

alignment

secondary structure

dotplot

Window 2

Location	13,910,222 – 13,910,329
Length	107
Sequences	9
Columns	120
Reading direction	reverse
Mean pairwise identity	66.61
Shannon entropy	0.64313
G+C content	0.51882
Mean single sequence MFE	-29.08
Consensus MFE	-24.11
Energy contribution	-21.28
Covariance contribution	-2.83
Combinations/Pair	1.63
Mean z-score	-1.84
Structure conservation index	0.83
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	3.24
SVM RNA-class probability	0.998035
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chrX 13910222 107 - 22422827
------------AAAAAAAUAUAGCCUGA-GCUUCGACCGUGACAGGACUCGAACCUGCAAUCUUCGGAUCCGAAGUCCGACGCCUUAUCCAUUGGGCCACACGGUCAGUUACGCAACCG
------------...........((...(-(((..(((((((.((((.......))))......((((((.....)))))).((((........))))..)))))))))))..))..... ( -31.90, z-score =  -2.28, R)
>droSim1.chrX 6290597 98 + 17042790
---------------------UAACCUGA-GCUACGACCGUGACAGGACUCGAACCUGCAAUCUUCGGAUCCGAAGUCCGACGCCUUAUCCAUUGGGCCACACGGUCAGUUGCGCAACCG
---------------------.....((.-((.(((((((((.((((.......))))......((((((.....)))))).((((........))))..))))))).)).)).)).... ( -32.30, z-score =  -2.26, R)
>droSec1.super_20 543807 102 - 1148123
-----------------AAAAAGUCGUAA-GCUACGACCGUGACAGGACUCGAACCUGCAAUCUUCGGAUCCGAAGUCCGACGCCUUAUCCAUUGGGCCACACGGUCAGUUGCGCAACCG
-----------------.....(.(((((-.((..(((((((.((((.......))))......((((((.....)))))).((((........))))..)))))))))))))))..... ( -32.10, z-score =  -1.73, R)
>droYak2.chrX 8196753 101 - 21770863
-------------------AAAAACUUGACAUUACGACCGUGACAGGACUCGAACCUGCAAUCUUCGGAUCCGAAGUCCGACGCCUUAUCCAUUAGGCCACACGGUCAGUUACGCAAUCG
-------------------......(((.....(((((((((.((((.......))))......((((((.....)))))).((((........))))..))))))).))....)))... ( -28.80, z-score =  -2.59, R)
>droEre2.scaffold_4770 17614591 97 - 17746568
-------------------AAAAAGUUAAC--C-CGAUCCUGCCAGGAGUCGAACCUGGAAUCUUCUGAUCCGUAGUCAGACGCGUUAUCCAUUGCGCCACAGGACC-GAUGUAAAUUCG
-------------------...........--.-((.((((((((((.......))))).....((((((.....)))))).((((........))))..))))).)-)........... ( -25.60, z-score =  -1.81, R)
>droAna3.scaffold_13266 1140290 98 + 19884421
--------------------AAAAAAUAUU-UU-CGAUCCUGCCAGGAGUCGAACCUGGAAUCUUCUGAUCCGUAGUCAGACGCGUUAUCCAUUGCGCCACAGGACCGGGUGCCUAAUUU
--------------------..........-((-((.((((((((((.......))))).....((((((.....)))))).((((........))))..))))).)))).......... ( -26.50, z-score =  -1.08, R)
>dp4.chr3 1788224 94 + 19779522
-----------------AAAAAAAGAUAUC-UC-CGAUCCUGCCAGGAGUCGAACCUGGAAUCUUCUGAUCCGUAGUCAGACGCGUUAUCCAUUGCGCCACAGGACCCGUUGC-------
-----------------.............-..-((.((((((((((.......))))).....((((((.....)))))).((((........))))..)))))..))....------- ( -23.70, z-score =  -0.95, R)
>droWil1.scaffold_180700 724594 92 + 6630534
--------------------AAAAAGUUAUUUUUCGCCCAACGUGGGGCUCGAACCCACGACCCUGAGAUUAAGAGUCUCAUGCUCUACCGACUGAGCUAGCCGGGCUGUUG--------
--------------------...............((((..((((((.......))))))....((((((.....)))))).((((........)))).....)))).....-------- ( -31.00, z-score =  -2.65, R)
>anoGam1.chr3L 7656875 109 + 41284009
AAAAAAGAGAGGUUGCUAUCCCCAGAUAACGAU-CGAUCCUGCCAGGAGUCGAACCUGGAAUCUUCUGAUCCGUAGUCAGACGCGUUAUCCAUUGCGCCACAGGACC-CGU---------
..........(((((.((((....)))).))))-)..((((((((((.......))))).....((((((.....)))))).((((........))))..)))))..-...--------- ( -29.80, z-score =  -1.18, R)
>consensus
___________________AAAAACAUAACGUU_CGACCCUGACAGGACUCGAACCUGCAAUCUUCGGAUCCGAAGUCAGACGCCUUAUCCAUUGCGCCACACGGCCAGUUGCGCAA_CG
.....................................(((((.((((.......))))......((((((.....)))))).((((........))))..)))))............... (-24.11 = -21.28 +  -2.83)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:41:49 2011