Locus 14054

Sequence ID	dm3.chrX
Location	10,854,668 – 10,854,767
Length	99
Max. P	0.912488

overview

Window 5

Location	10,854,668 – 10,854,767
Length	99
Sequences	12
Columns	111
Reading direction	forward
Mean pairwise identity	73.10
Shannon entropy	0.59421
G+C content	0.69081
Mean single sequence MFE	-44.78
Consensus MFE	-20.70
Energy contribution	-21.42
Covariance contribution	0.72
Combinations/Pair	1.36
Mean z-score	-1.59
Structure conservation index	0.46
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	1.22
SVM RNA-class probability	0.912488
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chrX 10854668 99 + 22422827
CCCGAGCCGCCGCCCAGACAUUGAAUGUGCCGCUGGAGCGCCUGGAAUC--CCGCCAGGCGCACGCCCAGCGCAACGAGCACGGCG---UGGAUGGCGGAUCAC-------
...((.((((((.(((.((((...))))((((((((.((((((((....--...))))))))....)))))((.....))..))).---))).)))))).))..------- ( -49.20, z-score =  -3.25, R)
>droPer1.super_30 422937 108 - 958394
CCCGAGCCGCUGCCCAGACCCUAAAUGUUCCGCUGGAGCGCCUGGAAUC--UCGCCAGGCGCAUGCCCAGCGCAACGAGCACGGCACCUUGAACGG-GAACGAGGGGGAGA
(((..((((.(((.(((...))....(((.((((((.((((((((....--...))))))))....)))))).)))).))))))).(((((.....-...))))))))... ( -48.20, z-score =  -2.09, R)
>dp4.chrXL_group1e 680432 108 + 12523060
CCCGAGCCGCUGCCCAGACCCUAAAUGUUCCGCUGGAGCGCCUGGAAUC--UCGCCAGGCGCAUGCCCAGCGCAACGAGCACGGCACCUUGAACGG-GAACGAGGGGGAGA
(((..((((.(((.(((...))....(((.((((((.((((((((....--...))))))))....)))))).)))).))))))).(((((.....-...))))))))... ( -48.20, z-score =  -2.09, R)
>anoGam1.chr2L 36995060 108 - 48795086
UGCGGGCGGCCGCGGCCACCCUGAAUGUGCCGCUCGAGCGGCUGGAAACGUCCAACGUGAACAGCCCCGGCUCGCCGAACCAAAUGUCGCCGACCGACAAGGGCCACC---
....((((((.(((((((.......)).)))))..(((((((((...(((.....)))...)))))...)))))))...((...(((((.....))))).)))))...--- ( -44.40, z-score =  -0.58, R)
>droAna3.scaffold_13417 5864165 102 - 6960332
CCCGGGCCGCCGCCCAGACCCUAAAUGUGCCGCUGGAGCGCCUGGAGUC--CCGCCAGGCGCACAACCAGCGCAACGAGCACGGCG---UGGAGGGCUCCUCCUCCC----
...((((....)))).............((((((((.((((((((....--...))))))))....)))))((.....))..))).---.((((((....)))))).---- ( -47.40, z-score =  -1.50, R)
>droEre2.scaffold_4690 14472758 99 - 18748788
CCCGAGCCGCCGCCCAGACCUUGAAUGUGCCGCUGGAGCGCCUGGAAUC--CCGCCAGGCGCACGCCCAGCGCAACGAGCACGGCG---UGGAUGGGGGAUUGC-------
(((.(.((((.(((.....((((....(((.(((((.((((((((....--...))))))))....)))))))).))))...))))---))).).)))......------- ( -46.00, z-score =  -1.47, R)
>droYak2.chrX 10501245 99 - 21770863
CCCGUGCCGCCGCCCAGACUUUGAAUGUGCCGCUGGAGCGCCUGGAAUC--CCGCCAGGCGCACGCCCAGCGCACCGAGCACGGCG---UGGAUGGAGGAUCAC-------
.((((.((((.(((..(.(((.....((((.(((((.((((((((....--...))))))))....))))))))).))))..))))---)))))))........------- ( -44.10, z-score =  -1.64, R)
>droSec1.super_15 1556976 99 + 1954846
CCCGAGCCGCCGCCCAGACAUUGAAUGUGCCGCUGGAGCGCCUGGAAUC--CCGCCAGGCGCACGCCCAGCGCAACGAGCACGGCG---UGGAUGGCGGAUCAC-------
...((.((((((.(((.((((...))))((((((((.((((((((....--...))))))))....)))))((.....))..))).---))).)))))).))..------- ( -49.20, z-score =  -3.25, R)
>droSim1.chrX_random 3059087 99 + 5698898
CCCGAGCCGCCGCCCAGACAUUGAACGUGCCGCUGGAGCGCCUGGAAUC--CCGCCAGGCGCACGCCCAGCGCAACGAGCACGGCG---UGGAUGGCGGAUCAC-------
...((.((((((.(((..(..((..(((..((((((.((((((((....--...))))))))....))))))..)))..))..)..---))).)))))).))..------- ( -48.70, z-score =  -3.02, R)
>droWil1.scaffold_180702 904392 102 + 4511350
CCCGGGCAGCUGCUCAGACAUUGAAUGUGCCGCUAGAGCGCCUGGAAUC--CCGCCAGGCGCAUGCUCAGCGGAAUGAACAUGGCAAUUCGAAUGGUGAACUUA-------
.((((((....)))).((.((((.((((.(((((((.((((((((....--...))))))))...)).))))).....))))..))))))....))........------- ( -38.30, z-score =  -1.41, R)
>droMoj3.scaffold_6328 695767 88 - 4453435
CACGCGCCGCUGCGCAAACGCUGAACGUGCCGCUGGAGCGUCUGGAGGC--GCGACAGGC------UGGGCGCAACGAGCACGCCCACUCCAAUGG---------------
..((.((((.(((((....(((...((((((.(..(.....)..).)))--)))...)))------...))))).)).)).)).(((......)))--------------- ( -35.70, z-score =   0.52, R)
>droVir3.scaffold_13042 1895729 96 - 5191987
CACGCGCCGCCGCUCAAACGCUGAACGUGCCGCUGGAGCGUCUGGAGUC--GCGCCAGGCGCAUGCCCAGCGCCAGGAGCACGCCCAUUCCAAUGGCA-------------
...........((((...(((((..((((((.((((.(((.(....).)--)).))))).)))))..)))))....))))..(((.........))).------------- ( -38.00, z-score =   0.68, R)
>consensus
CCCGAGCCGCCGCCCAGACCCUGAAUGUGCCGCUGGAGCGCCUGGAAUC__CCGCCAGGCGCACGCCCAGCGCAACGAGCACGGCG___UGGAUGGCGGAUCAC_______
...(.((....)).)..........(((((((((((.((((((((.........))))))))...)).))))......)))))............................ (-20.70 = -21.42 +   0.72)

alignment

secondary structure

dotplot

Window 6

Location	10,854,668 – 10,854,767
Length	99
Sequences	12
Columns	111
Reading direction	reverse
Mean pairwise identity	73.10
Shannon entropy	0.59421
G+C content	0.69081
Mean single sequence MFE	-47.35
Consensus MFE	-25.16
Energy contribution	-26.48
Covariance contribution	1.33
Combinations/Pair	1.32
Mean z-score	-0.74
Structure conservation index	0.53
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.15
SVM RNA-class probability	0.566097
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chrX 10854668 99 - 22422827
-------GUGAUCCGCCAUCCA---CGCCGUGCUCGUUGCGCUGGGCGUGCGCCUGGCGG--GAUUCCAGGCGCUCCAGCGGCACAUUCAAUGUCUGGGCGGCGGCUCGGG
-------.(((.(((((..(((---.(((..((.....))((((((...((((((((...--....)))))))))))))))))((((...)))).)))..))))).))).. ( -49.10, z-score =  -1.01, R)
>droPer1.super_30 422937 108 + 958394
UCUCCCCCUCGUUC-CCGUUCAAGGUGCCGUGCUCGUUGCGCUGGGCAUGCGCCUGGCGA--GAUUCCAGGCGCUCCAGCGGAACAUUUAGGGUCUGGGCAGCGGCUCGGG
.....(((......-((......)).((((((((((((.(((((((...((((((((...--....))))))))))))))).)))....((...))))))).))))..))) ( -48.30, z-score =  -0.77, R)
>dp4.chrXL_group1e 680432 108 - 12523060
UCUCCCCCUCGUUC-CCGUUCAAGGUGCCGUGCUCGUUGCGCUGGGCAUGCGCCUGGCGA--GAUUCCAGGCGCUCCAGCGGAACAUUUAGGGUCUGGGCAGCGGCUCGGG
.....(((......-((......)).((((((((((((.(((((((...((((((((...--....))))))))))))))).)))....((...))))))).))))..))) ( -48.30, z-score =  -0.77, R)
>anoGam1.chr2L 36995060 108 + 48795086
---GGUGGCCCUUGUCGGUCGGCGACAUUUGGUUCGGCGAGCCGGGGCUGUUCACGUUGGACGUUUCCAGCCGCUCGAGCGGCACAUUCAGGGUGGCCGCGGCCGCCCGCA
---.((((((..(((((.....)))))...)))..((((.((((.(((..(((....((((....))))(((((....))))).......)))..))).))))))))))). ( -54.00, z-score =  -1.30, R)
>droAna3.scaffold_13417 5864165 102 + 6960332
----GGGAGGAGGAGCCCUCCA---CGCCGUGCUCGUUGCGCUGGUUGUGCGCCUGGCGG--GACUCCAGGCGCUCCAGCGGCACAUUUAGGGUCUGGGCGGCGGCCCGGG
----(((.(((((...))))).---((((((((((..((((((((....((((((((...--....)))))))).))))).)))......))))....)))))).)))... ( -53.40, z-score =  -0.60, R)
>droEre2.scaffold_4690 14472758 99 + 18748788
-------GCAAUCCCCCAUCCA---CGCCGUGCUCGUUGCGCUGGGCGUGCGCCUGGCGG--GAUUCCAGGCGCUCCAGCGGCACAUUCAAGGUCUGGGCGGCGGCUCGGG
-------...............---..(((.((.((((((((((((...((((((((...--....))))))))))))))(((.(......))))...)))))))).))). ( -44.10, z-score =   0.42, R)
>droYak2.chrX 10501245 99 + 21770863
-------GUGAUCCUCCAUCCA---CGCCGUGCUCGGUGCGCUGGGCGUGCGCCUGGCGG--GAUUCCAGGCGCUCCAGCGGCACAUUCAAAGUCUGGGCGGCGGCACGGG
-------(((..........))---).((((((.((.(((((((((...((((((((...--....))))))))))))))(((.........)))...))).)))))))). ( -46.60, z-score =  -0.54, R)
>droSec1.super_15 1556976 99 - 1954846
-------GUGAUCCGCCAUCCA---CGCCGUGCUCGUUGCGCUGGGCGUGCGCCUGGCGG--GAUUCCAGGCGCUCCAGCGGCACAUUCAAUGUCUGGGCGGCGGCUCGGG
-------.(((.(((((..(((---.(((..((.....))((((((...((((((((...--....)))))))))))))))))((((...)))).)))..))))).))).. ( -49.10, z-score =  -1.01, R)
>droSim1.chrX_random 3059087 99 - 5698898
-------GUGAUCCGCCAUCCA---CGCCGUGCUCGUUGCGCUGGGCGUGCGCCUGGCGG--GAUUCCAGGCGCUCCAGCGGCACGUUCAAUGUCUGGGCGGCGGCUCGGG
-------.(((.(((((..(((---.((..((..(((.((((((((...((((((((...--....)))))))))))))).)))))..))..)).)))..))))).))).. ( -50.60, z-score =  -1.13, R)
>droWil1.scaffold_180702 904392 102 - 4511350
-------UAAGUUCACCAUUCGAAUUGCCAUGUUCAUUCCGCUGAGCAUGCGCCUGGCGG--GAUUCCAGGCGCUCUAGCGGCACAUUCAAUGUCUGAGCAGCUGCCCGGG
-------...(((((.((((.(((((((((((((((......)))))))((((((((...--....))))))))......)))).))))))))..)))))........... ( -38.90, z-score =  -1.70, R)
>droMoj3.scaffold_6328 695767 88 + 4453435
---------------CCAUUGGAGUGGGCGUGCUCGUUGCGCCCA------GCCUGUCGC--GCCUCCAGACGCUCCAGCGGCACGUUCAGCGUUUGCGCAGCGGCGCGUG
---------------((((....))))((((((.((((((((..(------(((((.((.--(((.(..(.....)..).))).))..))).))).)))))))))))))). ( -39.70, z-score =  -0.26, R)
>droVir3.scaffold_13042 1895729 96 + 5191987
-------------UGCCAUUGGAAUGGGCGUGCUCCUGGCGCUGGGCAUGCGCCUGGCGC--GACUCCAGACGCUCCAGCGGCACGUUCAGCGUUUGAGCGGCGGCGCGUG
-------------..((((....))))(((((((.(((((((..(((....)))..))))--..(((.(((((((..((((...)))).))))))))))))).))))))). ( -46.10, z-score =  -0.22, R)
>consensus
_______GUGAUCCGCCAUCCA___CGCCGUGCUCGUUGCGCUGGGCGUGCGCCUGGCGG__GAUUCCAGGCGCUCCAGCGGCACAUUCAAGGUCUGGGCGGCGGCUCGGG
...........................(((.((.((((((((((((...(((.((((.(.....).)))).)))))))))(((.........)))...)))))))).))). (-25.16 = -26.48 +   1.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:32:43 2011