Locus 13494

Sequence ID	dm3.chrX
Location	6,901,579 – 6,901,703
Length	124
Max. P	0.990095

overview

Window 7

Location	6,901,579 – 6,901,672
Length	93
Sequences	7
Columns	113
Reading direction	reverse
Mean pairwise identity	65.34
Shannon entropy	0.60881
G+C content	0.38681
Mean single sequence MFE	-22.47
Consensus MFE	-10.02
Energy contribution	-8.89
Covariance contribution	-1.14
Combinations/Pair	1.75
Mean z-score	-2.20
Structure conservation index	0.45
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	2.40
SVM RNA-class probability	0.990095
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chrX 6901579 93 - 22422827
---UUUGCUCCAGUAAUGCUCAACCAUUAGCAUCUUGCUAAGUGGUUUCAA-AAACUGGA------------UGCAAAUGCAG----AACUGCAUUUGAUCUACUUUCAAACU
---(((((((((((.......((((((((((.....))).)))))))....-..))))))------------.)))))((((.----...))))(((((.......))))).. ( -28.22, z-score =  -3.91, R)
>droSec1.super_24 128814 93 - 912625
---UUUGCUCCAGUUAUGCUCAACCAUUAGCAUCUUGCUAAGUGAUUUCAA-AAACUGGA------------UGUAAAUGCAG----AACUGCAUUUGAUCUACUUUCGAAUG
---((((((((((((.((.(((....(((((.....))))).)))...)).-.)))))))------------.))))).(((.----...)))((((((.......)))))). ( -23.00, z-score =  -2.54, R)
>droYak2.chrX 7322426 91 + 21770863
---UUUGCUGCAGUGAUGUUUAACCAUUAGCGUCUUGCUAAGUGGUUUCUA-AA--UGGC------------UGCAAGUGCAG----AACUGCAUUUGAUCUACUUUCAAAUG
---(((((((((((.((....((((((((((.....))).)))))))....-.)--).))------------))))...))))----)....(((((((.......))))))) ( -29.10, z-score =  -2.93, R)
>droEre2.scaffold_4690 15823663 90 - 18748788
---UUUGCUCCAGUAAUGUUUAACCAUUAGCAUCUCGCUAAGUGGUUU-UA-AA--UGAA------------UGCAAAUGCAG----AACUGCAUUUGAUCUACUUGCAAAUG
---(((((...((((..((((((((((((((.....))).))))))..-))-))--)...------------..((((((((.----...))))))))...)))).))))).. ( -25.20, z-score =  -3.18, R)
>droAna3.scaffold_13417 387252 97 - 6960332
UCCGAUUUUCCAUUUAACUUUAACUAUUAACGUCUUGCUAAGUGAUUUAAA-A---UGAA------------UGCAAAUGGUGCUUUGCUUGCAUUUGAUCUACUUAAAUAUU
......................................(((((((((..((-(---((..------------.(((((......)))))...))))))))).)))))...... ( -13.20, z-score =  -0.55, R)
>dp4.chrXL_group1e 6791213 108 - 12523060
---UCCCAUCCAACAA-ACUCUACUUCUAGCGCCCUGCUAAGUGAUUUCCACAGACUGCAAUCUCCUCCUCCCAUAACCAUGG-AUGCUUUGCAUUUGAUCUACUUUGGGCUC
---.............-..............((((....(((((((.....((((.(((((...(.(((............))-).)..)))))))))))).)))).)))).. ( -18.80, z-score =  -1.02, R)
>droPer1.super_25 126543 108 - 1448063
---UCCCAUCCAACAA-ACUCUACUUCUAGCGCCCUGCUAAGUGAUUUCCACAGACUGCAAUCUCCUCCUCCCAUAACCAUGG-AUGAUUUGCAUUUGAUCUACUUUGGGUUC
---.((((........-....((((..((((.....)))))))).......((((.(((((..((.(((............))-).)).)))))))))........))))... ( -19.80, z-score =  -1.24, R)
>consensus
___UUUGCUCCAGUAAUGCUCAACCAUUAGCGUCUUGCUAAGUGAUUUCAA_AAACUGGA____________UGCAAAUGCAG____AACUGCAUUUGAUCUACUUUCAAAUG
....((((................(((((((.....))).))))..............................(((((((((......)))))))))........))))... (-10.02 =  -8.89 +  -1.14)

alignment

secondary structure

dotplot

Window 8

Location	6,901,611 – 6,901,703
Length	92
Sequences	6
Columns	114
Reading direction	forward
Mean pairwise identity	63.68
Shannon entropy	0.61778
G+C content	0.37842
Mean single sequence MFE	-17.82
Consensus MFE	-7.49
Energy contribution	-7.63
Covariance contribution	0.14
Combinations/Pair	1.43
Mean z-score	-1.20
Structure conservation index	0.42
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.23
SVM RNA-class probability	0.605895
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chrX 6901611 92 + 22422827
---------------UUGCAUCCAGUUUUUGAAACCACUUAGCAAGAUGCUAAUGGUUGAGCAUUACUGGAG---CAAAGACGUUUACCAAACAGAAGCUAAAAAAACAU----
---------------((((.((((((...((.(((((.(((((.....))))))))))...))..)))))))---)))................................---- ( -25.40, z-score =  -3.72, R)
>droSec1.super_24 128846 91 + 912625
---------------UUACAUCCAGUUUUUGAAAUCACUUAGCAAGAUGCUAAUGGUUGAGCAUAACUGGAG---CAAAGACGUUUGCCAAACAGAAGCUGAAAAA-CAU----
---------------.....(((((((..((.(((((.(((((.....))))))))))...)).)))))))(---((((....)))))....(((...))).....-...---- ( -21.90, z-score =  -2.11, R)
>droYak2.chrX 7322458 89 - 21770863
---------------UUGCAGCCA--UUUAGAAACCACUUAGCAAGACGCUAAUGGUUAAACAUCACUGCAG---CAAACACGUCCACCAAACAGUAGCUAAAAAA-CAU----
---------------((((((...--......(((((.(((((.....))))))))))........))))))---...............................-...---- ( -15.43, z-score =  -1.50, R)
>droEre2.scaffold_4690 15823695 88 + 18748788
---------------UUGCAUUCA--UUUA-AAACCACUUAGCGAGAUGCUAAUGGUUAAACAUUACUGGAG---CAAAGACGUUUACCAAACAGAAGCUACAAAA-CAU----
---------------..((.(((.--....-.(((((.(((((.....)))))))))).........(((((---(......)))..)))....))))).......-...---- ( -14.70, z-score =  -1.49, R)
>droAna3.scaffold_13417 387288 88 + 6960332
---------------UUGCAUUCA---UUUUAAAUCACUUAGCAAGACGUUAAUAGUUAAAGUUAAAUGGAAAAUCGGAAAAAAUUACAAAACCAGAGCACGAAAA--------
---------------.(((.((((---(((......(((((((.....))))..))).......))))))).....((..............))...)))......-------- (  -7.76, z-score =   0.50, R)
>droPer1.super_25 126579 111 + 1448063
UAUGGGAGGAGGAGAUUGCAGUC---UGUGGAAAUCACUUAGCAGGGCGCUAGAAGUAGAGUUUGUUGGAUGGGACAAUCAGACAAAGCCGACAGUAGAGUACAUAUGCCGCAG
..((.((........)).))..(---(((((.....((((.((..(((.(((....)))..((((((.(((......))).)))))))))....)).)))).......)))))) ( -21.70, z-score =   1.11, R)
>consensus
_______________UUGCAUCCA__UUUUGAAACCACUUAGCAAGACGCUAAUGGUUAAACAUAACUGGAG___CAAAGACGUUUACCAAACAGAAGCUAAAAAA_CAU____
....................((((........(((((.(((((.....)))))))))).........))))........................................... ( -7.49 =  -7.63 +   0.14)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:22:32 2011