Locus 2609

Sequence ID dm3.chr2L
Location 20,487,432 – 20,487,536
Length 104
Max. P 0.999573
window3584 window3585

overview

Window 4

Location 20,487,432 – 20,487,536
Length 104
Sequences 13
Columns 114
Reading direction forward
Mean pairwise identity 80.76
Shannon entropy 0.40770
G+C content 0.40873
Mean single sequence MFE -36.30
Consensus MFE -29.61
Energy contribution -29.58
Covariance contribution -0.03
Combinations/Pair 1.14
Mean z-score -5.08
Structure conservation index 0.82
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 4.03
SVM RNA-class probability 0.999573
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 20487432 104 + 23011544
AUCCCAUAUUCAGCCUUUGAGAGUUCCAUGCUUCCUUGCAUUCAAUAGU-UAUAUUCAAG--CAUAUGGAAUGUAAAGAAGUAUGGAGCGA-------AAUCUGGCGAGACAUC
........(((.(((...((..((((((((((((.((((((((.(((((-(.......))--).))).)))))))).))))))))))))..-------..)).))))))..... ( -36.50, z-score =  -4.93, R)
>droSim1.chr2L 20052700 104 + 22036055
AUCCCAUCUUCAGCCUUUGAGAGUUCCAUGCUUCCUUGCAUUCAAUAGU-UAUACUCAAG--CAUAUGGAAUGUAAAGAAGUAUGGAGCGA-------AAUCUGGCGAGACAUC
......((((..(((...((..((((((((((((.((((((((.(((((-(.......))--).))).)))))))).))))))))))))..-------..)).))))))).... ( -37.10, z-score =  -4.76, R)
>droSec1.super_18 365657 104 + 1342155
AUCCCAUCUUCAGCCUUUGAGAGUUCCAUGCUUCCUUGCAUUCAAUAGU-UAUACUCAAG--CAUAUGGAAUGUAAAGAAGUAUGGAGCGA-------AAUCUGGCGAGACAUC
......((((..(((...((..((((((((((((.((((((((.(((((-(.......))--).))).)))))))).))))))))))))..-------..)).))))))).... ( -37.10, z-score =  -4.76, R)
>droYak2.chr2R 6842715 105 + 21139217
AUCCCACCAUCAGCCUUUGAGAGUUCCAUGCUUCCUUGCAUUCAAUAGUAUAUACUCAAG--CAUAUGGAAUGUAAAGAAGUAUGGAGCGA-------AAUCUGGCGAGUCAUC
............(((...((..((((((((((((.((((((((.(((((..........)--).))).)))))))).))))))))))))..-------..)).)))........ ( -35.00, z-score =  -4.32, R)
>droEre2.scaffold_4845 18634774 99 - 22589142
-----ACCUCCAGCCUGUGAGAGUUCCAUGCUUCCUUGCAUUCAAUAGU-UAUACUCAAG--CAUAUGGAAUGUAAAGAAGUAUGGAGCGA-------AAUCUGGCGAGACAUC
-----..(((..(((...((..((((((((((((.((((((((.(((((-(.......))--).))).)))))))).))))))))))))..-------..)).))))))..... ( -37.40, z-score =  -5.02, R)
>droAna3.scaffold_12916 6985824 94 + 16180835
-----------AGCCUUUGAGAGUUCCAUGCUUCCUUGCAUUCAAUAGUAUAAUAUCAAG--CAUAUGGAAUGUAAAGAAGUAUGGAGCGA-------AAUCUGGCAAGACUUC
-----------.(((...((..((((((((((((.((((((((.(((((..........)--).))).)))))))).))))))))))))..-------..)).)))........ ( -35.00, z-score =  -5.34, R)
>dp4.chr4_group3 3846590 94 - 11692001
-----------GGCCUUUGAGAGUUCCAUGCUUCCUUGCAUUCAAUAGUAUAACAUAAAG--CAUAUGGAAUGUAAAGAAGUAUGGAGCGA-------AAUCUGGCAAGACAGC
-----------.(((...((..((((((((((((.((((((((.(((((..........)--).))).)))))))).))))))))))))..-------..)).)))........ ( -34.80, z-score =  -5.27, R)
>droPer1.super_1 990758 94 - 10282868
-----------GGCCUUUGAGAGUUCCAUGCUUCCUUGCAUUCAAUAGUAUAACAUAAAG--CAUAUGGAAUGUAAAGAAGUAUGGAGCGA-------AAUCUGGCAAGACAUC
-----------.(((...((..((((((((((((.((((((((.(((((..........)--).))).)))))))).))))))))))))..-------..)).)))........ ( -34.80, z-score =  -5.36, R)
>droVir3.scaffold_12963 6592732 101 - 20206255
----CUUACUUGGCCUUUGAGAGUUCCAUGCUUCCUUACAUUCAAUAGUAUUCAAAUAAG--CAUAUGGAAUGUAAAGAAGUAUGGAGCGA-------AAUCUGGCGAAACAUC
----.....((.(((...((..((((((((((((.((((((((....((((.(......)--.)))).)))))))).))))))))))))..-------..)).))).))..... ( -36.30, z-score =  -5.67, R)
>droMoj3.scaffold_6500 24555181 100 + 32352404
-----UCAUUGCGCCUUUGAGAGUUCCAUGCUUCCUUGCAUUCAAUAGUAUUUAUAUAAG--CAUAUGGAAUGUAAAGAAGUAUGGAGCGA-------AAUCUGGCGAAGCAUC
-----......((((...((..((((((((((((.((((((((.(((.(((....)))..--..))).)))))))).))))))))))))..-------..)).))))....... ( -37.10, z-score =  -5.07, R)
>droGri2.scaffold_15126 6250403 105 + 8399593
AUUGUUUACUUGGCCUUUGAGAGUUCCAUGCUUCCUUGCAUUCAAUAGUAUAUAAAUAAG--CAUAUGGAAUGUAAAGAAGUAUGGAGCGA-------AAUCUGGCGAAACAUC
..(((((.....(((...((..((((((((((((.((((((((.(((((.((....)).)--).))).)))))))).))))))))))))..-------..)).))).))))).. ( -36.20, z-score =  -5.12, R)
>triCas2.ChLG5 7115717 82 - 18847211
------------GCCUUCGCGAGUUCCGUGCUUCCUUACUUCCCAUAGU---GCUUUAAA--CGUAUGGAAUGUAAAGAAGUAUGGAGCGA-------ACGCGGGC--------
------------(((..((((.((((((((((((.((((...(((((((---.......)--).)))))...)))).))))))))))))..-------.)))))))-------- ( -36.80, z-score =  -5.50, R)
>anoGam1.chr3R 42702883 100 - 53272125
--------------CUGCGAAAGUUCCAUGCUUCCUUGCAUUCAAUAGUAUGUUUGUAAAACCCUAUGGAAUGUAAAGAAGUAUGGAGCGAUUGGGCUAGUUCAGCAGGAGAGC
--------------((((....((((((((((((.((((((((.((((...(((.....))).)))).)))))))).))))))))))))...((((....))))))))...... ( -37.80, z-score =  -4.94, R)
>consensus
_________U_AGCCUUUGAGAGUUCCAUGCUUCCUUGCAUUCAAUAGUAUAUAAUCAAG__CAUAUGGAAUGUAAAGAAGUAUGGAGCGA_______AAUCUGGCGAGACAUC
............(((...((..((((((((((((.((((((((.(((.................))).)))))))).))))))))))))...........)).)))........ (-29.61 = -29.58 +  -0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 20,487,432 – 20,487,536
Length 104
Sequences 13
Columns 114
Reading direction reverse
Mean pairwise identity 80.76
Shannon entropy 0.40770
G+C content 0.40873
Mean single sequence MFE -25.46
Consensus MFE -18.09
Energy contribution -18.41
Covariance contribution 0.32
Combinations/Pair 1.08
Mean z-score -2.14
Structure conservation index 0.71
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.14
SVM RNA-class probability 0.983537
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 20487432 104 - 23011544
GAUGUCUCGCCAGAUU-------UCGCUCCAUACUUCUUUACAUUCCAUAUG--CUUGAAUAUA-ACUAUUGAAUGCAAGGAAGCAUGGAACUCUCAAAGGCUGAAUAUGGGAU
......((.(((.(((-------(.(((((((.(((((((.(((((.(((..--..........-..))).))))).))))))).))))).((.....)))).)))).))))). ( -23.84, z-score =  -1.00, R)
>droSim1.chr2L 20052700 104 - 22036055
GAUGUCUCGCCAGAUU-------UCGCUCCAUACUUCUUUACAUUCCAUAUG--CUUGAGUAUA-ACUAUUGAAUGCAAGGAAGCAUGGAACUCUCAAAGGCUGAAGAUGGGAU
......((.(((..((-------(.(((((((.(((((((.(((((..((((--(....)))))-......))))).))))))).))))).((.....)))).)))..))))). ( -26.40, z-score =  -1.12, R)
>droSec1.super_18 365657 104 - 1342155
GAUGUCUCGCCAGAUU-------UCGCUCCAUACUUCUUUACAUUCCAUAUG--CUUGAGUAUA-ACUAUUGAAUGCAAGGAAGCAUGGAACUCUCAAAGGCUGAAGAUGGGAU
......((.(((..((-------(.(((((((.(((((((.(((((..((((--(....)))))-......))))).))))))).))))).((.....)))).)))..))))). ( -26.40, z-score =  -1.12, R)
>droYak2.chr2R 6842715 105 - 21139217
GAUGACUCGCCAGAUU-------UCGCUCCAUACUUCUUUACAUUCCAUAUG--CUUGAGUAUAUACUAUUGAAUGCAAGGAAGCAUGGAACUCUCAAAGGCUGAUGGUGGGAU
.....(((((((....-------....(((((.(((((((.(((((.(((((--(....))))))......))))).))))))).)))))....(((.....)))))))))).. ( -30.40, z-score =  -2.20, R)
>droEre2.scaffold_4845 18634774 99 + 22589142
GAUGUCUCGCCAGAUU-------UCGCUCCAUACUUCUUUACAUUCCAUAUG--CUUGAGUAUA-ACUAUUGAAUGCAAGGAAGCAUGGAACUCUCACAGGCUGGAGGU-----
.((.(((.(((.....-------....(((((.(((((((.(((((..((((--(....)))))-......))))).))))))).))))).........))).))).))----- ( -27.17, z-score =  -1.56, R)
>droAna3.scaffold_12916 6985824 94 - 16180835
GAAGUCUUGCCAGAUU-------UCGCUCCAUACUUCUUUACAUUCCAUAUG--CUUGAUAUUAUACUAUUGAAUGCAAGGAAGCAUGGAACUCUCAAAGGCU-----------
(((((((....)))))-------))..(((((.(((((((.(((((.(((..--.............))).))))).))))))).))))).............----------- ( -23.26, z-score =  -2.19, R)
>dp4.chr4_group3 3846590 94 + 11692001
GCUGUCUUGCCAGAUU-------UCGCUCCAUACUUCUUUACAUUCCAUAUG--CUUUAUGUUAUACUAUUGAAUGCAAGGAAGCAUGGAACUCUCAAAGGCC-----------
...(((((...(((..-------..(.(((((.(((((((.(((((.(((.(--(.....)).....))).))))).))))))).))))).))))..))))).----------- ( -22.20, z-score =  -1.87, R)
>droPer1.super_1 990758 94 + 10282868
GAUGUCUUGCCAGAUU-------UCGCUCCAUACUUCUUUACAUUCCAUAUG--CUUUAUGUUAUACUAUUGAAUGCAAGGAAGCAUGGAACUCUCAAAGGCC-----------
...(((((...(((..-------..(.(((((.(((((((.(((((.(((.(--(.....)).....))).))))).))))))).))))).))))..))))).----------- ( -22.20, z-score =  -1.90, R)
>droVir3.scaffold_12963 6592732 101 + 20206255
GAUGUUUCGCCAGAUU-------UCGCUCCAUACUUCUUUACAUUCCAUAUG--CUUAUUUGAAUACUAUUGAAUGUAAGGAAGCAUGGAACUCUCAAAGGCCAAGUAAG----
........(((.....-------....(((((.(((((((((((((.(((..--.............))).))))))))))))).))))).........)))........---- ( -25.43, z-score =  -2.75, R)
>droMoj3.scaffold_6500 24555181 100 - 32352404
GAUGCUUCGCCAGAUU-------UCGCUCCAUACUUCUUUACAUUCCAUAUG--CUUAUAUAAAUACUAUUGAAUGCAAGGAAGCAUGGAACUCUCAAAGGCGCAAUGA-----
.......((((.....-------....(((((.(((((((.(((((.(((..--.............))).))))).))))))).))))).........))))......----- ( -22.63, z-score =  -1.60, R)
>droGri2.scaffold_15126 6250403 105 - 8399593
GAUGUUUCGCCAGAUU-------UCGCUCCAUACUUCUUUACAUUCCAUAUG--CUUAUUUAUAUACUAUUGAAUGCAAGGAAGCAUGGAACUCUCAAAGGCCAAGUAAACAAU
..(((((((((.....-------....(((((.(((((((.(((((.(((.(--..((....))..)))).))))).))))))).))))).........)))...).))))).. ( -21.97, z-score =  -1.95, R)
>triCas2.ChLG5 7115717 82 + 18847211
--------GCCCGCGU-------UCGCUCCAUACUUCUUUACAUUCCAUACG--UUUAAAGC---ACUAUGGGAAGUAAGGAAGCACGGAACUCGCGAAGGC------------
--------....((.(-------(((((((...(((((((((.(((((((.(--(.......---))))))))).)))))))))...)))....))))).))------------ ( -30.10, z-score =  -4.18, R)
>anoGam1.chr3R 42702883 100 + 53272125
GCUCUCCUGCUGAACUAGCCCAAUCGCUCCAUACUUCUUUACAUUCCAUAGGGUUUUACAAACAUACUAUUGAAUGCAAGGAAGCAUGGAACUUUCGCAG--------------
......((((.(((...((......))(((((.(((((((.(((((.((((.(((.....)))...)))).))))).))))))).)))))...)))))))-------------- ( -29.00, z-score =  -4.39, R)
>consensus
GAUGUCUCGCCAGAUU_______UCGCUCCAUACUUCUUUACAUUCCAUAUG__CUUGAUUAUAUACUAUUGAAUGCAAGGAAGCAUGGAACUCUCAAAGGCU_A_________
........(((.((.........))..(((((.(((((((.(((((.(((.................))).))))).))))))).))))).........)))............ (-18.09 = -18.41 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:54:29 2011