Locus 792

Sequence ID	dm3.chr2L
Location	5,642,114 – 5,642,206
Length	92
Max. P	0.999984

overview

Window 1

Location	5,642,114 – 5,642,206
Length	92
Sequences	12
Columns	95
Reading direction	forward
Mean pairwise identity	67.94
Shannon entropy	0.70857
G+C content	0.36502
Mean single sequence MFE	-29.19
Consensus MFE	-14.97
Energy contribution	-13.51
Covariance contribution	-1.46
Combinations/Pair	1.71
Mean z-score	-4.45
Structure conservation index	0.51
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	5.73
SVM RNA-class probability	0.999984
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 5642114 92 + 23011544
GUCCAACUUGCCUUAGAAUAGGGGAGCUUAACUUAUGU--UUUUGAUGUUUAAGUUAAAAGCCUCUGUUCUAAGACAAUUUGAUGAUCAAAACA-
...(((.(((.(((((((((((((...((((((((...--..........))))))))...))))))))))))).))).)))............- ( -28.72, z-score =  -4.32, R)
>droSim1.chr2L 5435197 92 + 22036055
GUCCAACUUGCCUUAGAAUAGGGGAGCUUAACUUGUGU--UUUUAAUGUUUAAGUUAAAAGCCACUGUUCUAAGACAAUUUGAUGAUCAAAACU-
...(((.(((.((((((((((.((...((((((((...--..........))))))))...)).)))))))))).))).)))............- ( -24.42, z-score =  -2.84, R)
>droSec1.super_5 3719851 92 + 5866729
GUCCAACUUGCCUUAGAAUAGGGGAGCUUAACUUGUGU--UUUUAAUGUUUAAGUUAAAAGCCACUGUUCUAAGACAAUUUGAUGAUCAAAACC-
...(((.(((.((((((((((.((...((((((((...--..........))))))))...)).)))))))))).))).)))............- ( -24.42, z-score =  -2.89, R)
>droYak2.chr2L 8773297 92 - 22324452
GUCCCACUUGUCUUAGAAUAGGGGAGCUUAACUUAUGU--AUAUCAUGUAUAAGUUAAGAACCUUUAUUCUAAGACAAUUCGACUACAAAAUCA-
(((....(((((((((((((((((..((((((((((((--((...))))))))))))))..)))))))))))))))))...)))..........- ( -36.90, z-score =  -8.13, R)
>droEre2.scaffold_4929 5730529 85 + 26641161
GUCCCACUUGUCUUAGAAUAGGGGAGCUUAACUUGUGU--GUGUUAUGCUUAAGUUAAGAGCCUUUAUUCUAAGUCAAUUCGACUGC--------
(((....(((.(((((((((((((..(((((((((.((--((...)))).)))))))))..))))))))))))).)))...)))...-------- ( -33.70, z-score =  -5.84, R)
>droAna3.scaffold_12916 11085583 94 + 16180835
GUCAAACUUGUUUUAGAAUAGGGGAGCUUAACUUAUUGGAGAGUUGAUAUUAAGUUAAGAUCCCUAAUUCUAAGAUAAUGUGACCAUUAAUGCA-
((((...((((((((((((.(((((.(((((((((.((.........)).))))))))).))))).))))))))))))..))))..........- ( -33.10, z-score =  -5.78, R)
>dp4.chr4_group4 3405362 93 - 6586962
GCCAAAACUAUCUUAGAUCGAAGGUUCCUGGCUUACAGGGAUUUGAUG--UAAGUUAAGAACCUCCGCUCUAAGCUAGUAUGGCUAUCAUCAACG
((((..((((.((((((.((.((((((.(((((((((.........))--))))))).)))))).)).)))))).)))).))))........... ( -36.70, z-score =  -5.83, R)
>droPer1.super_10 1232269 93 - 3432795
GCCAAAAUUAUCUUAGAUCGAAGGUUCCUGGCUUACAGGGAUUUGAUG--UAAGUUAAGAACCUCCGCUCUAAGCUAGUAUGGCUAUCAUCAACG
((((..((((.((((((.((.((((((.(((((((((.........))--))))))).)))))).)).)))))).)))).))))........... ( -34.40, z-score =  -5.16, R)
>droWil1.scaffold_180708 3938619 92 - 12563649
GUCAAACUUGUCUUAGAAUAGGGGAGCUUAACUUAUAU--UGUUUUGCUUAAAGUUAAGAGCCUCAAUUCUAAGAUAAUGCGACUAUCACCGCA-
.......((((((((((((.((((..((((((((....--...........))))))))..)))).))))))))))))((((........))))- ( -31.36, z-score =  -5.14, R)
>droVir3.scaffold_12963 3616487 86 + 20206255
GUUUAACUUAUCUUAGAAUAGGGGAGCUUAACUUU----GUAUGAACAUUUAAGCUAAGAGCCUCAAUUCUUAGAUAAUGCGACUAACAA-----
(((....((((((.(((((.((((..((((.((((----((....)))...))).))))..)))).))))).))))))...)))......----- ( -21.40, z-score =  -2.85, R)
>droMoj3.scaffold_6500 14019523 85 + 32352404
GUUCAACUUAUCUUAGAAUAGGGGAGCUUAACUUA----AUCUGAACACUCAAGCUAAGAGCCUCGAUUCUUCGAUAAUGCGACUAACA------
(((((..(((((..(((((.((((..((((.(((.----............))).))))..)))).)))))..))))))).))).....------ ( -18.52, z-score =  -1.65, R)
>droGri2.scaffold_15252 3148325 92 + 17193109
GUCAAACUUAUCUUAGAAUAGGGGAGCUUAACUUUUAUCAUAUUAGCGCUCGAGCUAAGAUCCUCAAUUCUUGGAUAAGGCGACUAGCAACU---
(((...(((((((.(((((.(((((.................(((((......)))))..))))).))))).)))))))..)))........--- ( -26.61, z-score =  -2.98, R)
>consensus
GUCCAACUUGUCUUAGAAUAGGGGAGCUUAACUUAUGU__UUUUAAUGUUUAAGUUAAGAGCCUCUAUUCUAAGAUAAUGCGACUAUCAAAAC__
(((....(((.((.(((((.((((...(((((((.................)))))))...)))).))))).)).)))...)))........... (-14.97 = -13.51 +  -1.46)

alignment

secondary structure

dotplot

Window 2

Location	5,642,114 – 5,642,206
Length	92
Sequences	12
Columns	95
Reading direction	reverse
Mean pairwise identity	67.94
Shannon entropy	0.70857
G+C content	0.36502
Mean single sequence MFE	-25.52
Consensus MFE	-13.07
Energy contribution	-13.53
Covariance contribution	0.46
Combinations/Pair	1.36
Mean z-score	-3.59
Structure conservation index	0.51
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	5.26
SVM RNA-class probability	0.999960
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 5642114 92 - 23011544
-UGUUUUGAUCAUCAAAUUGUCUUAGAACAGAGGCUUUUAACUUAAACAUCAAAA--ACAUAAGUUAAGCUCCCCUAUUCUAAGGCAAGUUGGAC
-...........((((.(((((((((((.((.((..(((((((((..........--...)))))))))..)).)).))))))))))).)))).. ( -25.62, z-score =  -4.08, R)
>droSim1.chr2L 5435197 92 - 22036055
-AGUUUUGAUCAUCAAAUUGUCUUAGAACAGUGGCUUUUAACUUAAACAUUAAAA--ACACAAGUUAAGCUCCCCUAUUCUAAGGCAAGUUGGAC
-...........((((.(((((((((((.((.((..((((((((...........--....))))))))..)).)).))))))))))).)))).. ( -23.96, z-score =  -3.38, R)
>droSec1.super_5 3719851 92 - 5866729
-GGUUUUGAUCAUCAAAUUGUCUUAGAACAGUGGCUUUUAACUUAAACAUUAAAA--ACACAAGUUAAGCUCCCCUAUUCUAAGGCAAGUUGGAC
-...........((((.(((((((((((.((.((..((((((((...........--....))))))))..)).)).))))))))))).)))).. ( -23.96, z-score =  -3.19, R)
>droYak2.chr2L 8773297 92 + 22324452
-UGAUUUUGUAGUCGAAUUGUCUUAGAAUAAAGGUUCUUAACUUAUACAUGAUAU--ACAUAAGUUAAGCUCCCCUAUUCUAAGACAAGUGGGAC
-..........(((...(((((((((((((..((..((((((((((.........--..))))))))))..))..)))))))))))))....))) ( -29.90, z-score =  -4.93, R)
>droEre2.scaffold_4929 5730529 85 - 26641161
--------GCAGUCGAAUUGACUUAGAAUAAAGGCUCUUAACUUAAGCAUAACAC--ACACAAGUUAAGCUCCCCUAUUCUAAGACAAGUGGGAC
--------...(((...(((.(((((((((..((..((((((((...........--....))))))))..))..))))))))).)))....))) ( -20.96, z-score =  -2.78, R)
>droAna3.scaffold_12916 11085583 94 - 16180835
-UGCAUUAAUGGUCACAUUAUCUUAGAAUUAGGGAUCUUAACUUAAUAUCAACUCUCCAAUAAGUUAAGCUCCCCUAUUCUAAAACAAGUUUGAC
-.....(((((....)))))..(((((((..((((.(((((((((...............))))))))).))))..)))))))............ ( -23.46, z-score =  -4.47, R)
>dp4.chr4_group4 3405362 93 + 6586962
CGUUGAUGAUAGCCAUACUAGCUUAGAGCGGAGGUUCUUAACUUA--CAUCAAAUCCCUGUAAGCCAGGAACCUUCGAUCUAAGAUAGUUUUGGC
...........((((.((((.((((((.(((((((((((..((((--((.........))))))..))))))))))).)))))).))))..)))) ( -37.90, z-score =  -6.04, R)
>droPer1.super_10 1232269 93 + 3432795
CGUUGAUGAUAGCCAUACUAGCUUAGAGCGGAGGUUCUUAACUUA--CAUCAAAUCCCUGUAAGCCAGGAACCUUCGAUCUAAGAUAAUUUUGGC
...........((((......((((((.(((((((((((..((((--((.........))))))..))))))))))).)))))).......)))) ( -33.92, z-score =  -5.09, R)
>droWil1.scaffold_180708 3938619 92 + 12563649
-UGCGGUGAUAGUCGCAUUAUCUUAGAAUUGAGGCUCUUAACUUUAAGCAAAACA--AUAUAAGUUAAGCUCCCCUAUUCUAAGACAAGUUUGAC
-(((((......)))))...(((((((((.(.((..((((((((...........--....))))))))..)).).))))))))).......... ( -23.06, z-score =  -2.64, R)
>droVir3.scaffold_12963 3616487 86 - 20206255
-----UUGUUAGUCGCAUUAUCUAAGAAUUGAGGCUCUUAGCUUAAAUGUUCAUAC----AAAGUUAAGCUCCCCUAUUCUAAGAUAAGUUAAAC
-----.........((.((((((.(((((.(.((..((((((((...(((....))----)))))))))..)).).))))).))))))))..... ( -19.80, z-score =  -2.84, R)
>droMoj3.scaffold_6500 14019523 85 - 32352404
------UGUUAGUCGCAUUAUCGAAGAAUCGAGGCUCUUAGCUUGAGUGUUCAGAU----UAAGUUAAGCUCCCCUAUUCUAAGAUAAGUUGAAC
------......(((..(((((..(((((.(.((..((((((((((.........)----)))))))))..)).).)))))..)))))..))).. ( -21.50, z-score =  -1.93, R)
>droGri2.scaffold_15252 3148325 92 - 17193109
---AGUUGCUAGUCGCCUUAUCCAAGAAUUGAGGAUCUUAGCUCGAGCGCUAAUAUGAUAAAAGUUAAGCUCCCCUAUUCUAAGAUAAGUUUGAC
---........((((.((((((..(((((.(.(((.(((((((......(......).....))))))).))).).)))))..))))))..)))) ( -22.20, z-score =  -1.70, R)
>consensus
__GUGUUGAUAGUCAAAUUAUCUUAGAAUAGAGGCUCUUAACUUAAACAUUAAAA__ACAUAAGUUAAGCUCCCCUAUUCUAAGACAAGUUGGAC
.................((((((.(((((.(.((..((((((((.................))))))))..)).).))))).))))))....... (-13.07 = -13.53 +   0.46)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:19:35 2011