Locus 265

Sequence ID dm3.chr2L
Location 1,938,086 – 1,938,165
Length 79
Max. P 0.994438
window362 window363

overview

Window 2

Location 1,938,086 – 1,938,165
Length 79
Sequences 15
Columns 81
Reading direction forward
Mean pairwise identity 77.35
Shannon entropy 0.54456
G+C content 0.60506
Mean single sequence MFE -29.56
Consensus MFE -24.93
Energy contribution -23.66
Covariance contribution -1.27
Combinations/Pair 1.82
Mean z-score -1.75
Structure conservation index 0.84
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.68
SVM RNA-class probability 0.994229
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 1938086 79 + 23011544
UAUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUA-CCACUGAACCACCGAUGCUUCGUG-
...((((((((((((.......)))))((((((.((...)).)))).))......-...........)))))))......- ( -32.20, z-score =  -1.75, R)
>droSim1.chr2L 1905551 79 + 22036055
UAUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUA-CCACUGAACCACCGAUGCUUCGUG-
...((((((((((((.......)))))((((((.((...)).)))).))......-...........)))))))......- ( -32.20, z-score =  -1.75, R)
>droSec1.super_14 1881386 79 + 2068291
UAUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUA-CCACUGAACCACCGAUGCUUCGUG-
...((((((((((((.......)))))((((((.((...)).)))).))......-...........)))))))......- ( -32.20, z-score =  -1.75, R)
>droYak2.chr2L 1918421 79 + 22324452
UAUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUA-CCACUGAACCACCGAUGCUUCGUG-
...((((((((((((.......)))))((((((.((...)).)))).))......-...........)))))))......- ( -32.20, z-score =  -1.75, R)
>droEre2.scaffold_4929 1983640 77 + 26641161
--UGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUA-CCACUGAACCACCGAUGCUUCGUG-
--.((((((((((((.......)))))((((((.((...)).)))).))......-...........)))))))......- ( -32.20, z-score =  -1.73, R)
>droAna3.scaffold_12916 532401 79 - 16180835
UUUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUA-CCACUGAACCACCGAGGCUUCUUG-
...((.(((((((((.......)))))((((((.((...)).)))).))......-...........)))).))......- ( -27.90, z-score =  -0.33, R)
>dp4.chr4_group3 8696895 79 + 11692001
UUUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUA-CCACUGAACCACCGAUGCUUGUUG-
...((((((((((((.......)))))((((((.((...)).)))).))......-...........)))))))......- ( -32.20, z-score =  -1.91, R)
>droPer1.super_1 10149415 79 + 10282868
UUUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUA-CCACUGAACCACCGAUGCUUGUUG-
...((((((((((((.......)))))((((((.((...)).)))).))......-...........)))))))......- ( -32.20, z-score =  -1.91, R)
>droWil1.scaffold_180708 868112 79 - 12563649
UAUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUA-CCACUGAACCACCGAUGCUUGUUG-
...((((((((((((.......)))))((((((.((...)).)))).))......-...........)))))))......- ( -32.20, z-score =  -1.93, R)
>droVir3.scaffold_12963 5878357 75 + 20206255
GUUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUA-CCACUGAACCACCGAUGCUU-----
...((((((((((((.......)))))((((((.((...)).)))).))......-...........)))))))..----- ( -32.20, z-score =  -2.00, R)
>droMoj3.scaffold_6500 7541766 75 - 32352404
UCCUCCCCGACGGGGAAUUGAACCCCGGUCUCCCGCGUGACAGGCGGGGAUACUAACCACUAUACUAUCGAGGAU------
(((((.....(((((.......)))))(((.(((((.......))))))))..................))))).------ ( -28.10, z-score =  -1.43, R)
>droGri2.scaffold_15252 85780 76 + 17193109
-----UCCACUAAAAAAUAGAAUGAAACUAAUAUCUUAAACAGAUUUAAUGUCCAGCUAGCUUAGCAGCUUCGAUUAGCGU
-----....((((....(((...((.......((((.....))))......))...)))..))))..(((......))).. (  -6.82, z-score =   1.09, R)
>anoGam1.chr2R 5387131 79 - 62725911
AAUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUA-CCACUGAACCACCGAUGCUUCGUG-
...((((((((((((.......)))))((((((.((...)).)))).))......-...........)))))))......- ( -32.20, z-score =  -1.67, R)
>apiMel3.Group14 6137507 77 - 8318479
--UGCACUGCCCGGGAAUCGAACCCGGGUCGCAAGAAUGGGAAUCUUGCAUGAUA-CCACUACACCAGCAGUGCUACUUG-
--.((((((((((((.......)))))...((((((.......))))))......-...........)))))))......- ( -29.30, z-score =  -3.54, R)
>triCas2.ChLG8 3490830 74 - 15773733
UAUGCACUGCCCGGGAAUCGAACCCGGGUCGCAAGAAUGGGAAUCUUGCAUGAUA-CCACUACACUAGCAGUGCU------
...((((((((((((.......)))))...((((((.......))))))......-...........))))))).------ ( -29.30, z-score =  -3.84, R)
>consensus
UAUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUA_CCACUGAACCACCGAUGCUUCGUG_
...((((((((((((.......)))))...((.(((.......))).))..................)))))))....... (-24.93 = -23.66 +  -1.27)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 1,938,086 – 1,938,165
Length 79
Sequences 15
Columns 81
Reading direction reverse
Mean pairwise identity 77.35
Shannon entropy 0.54456
G+C content 0.60506
Mean single sequence MFE -33.37
Consensus MFE -29.87
Energy contribution -28.04
Covariance contribution -1.83
Combinations/Pair 1.95
Mean z-score -1.83
Structure conservation index 0.90
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.70
SVM RNA-class probability 0.994438
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 1938086 79 - 23011544
-CACGAAGCAUCGGUGGUUCAGUGG-UAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAUA
-......(((((((..((((.....-..))))((.(((((((...)))))))))(((((.......))))))))))))... ( -35.90, z-score =  -1.63, R)
>droSim1.chr2L 1905551 79 - 22036055
-CACGAAGCAUCGGUGGUUCAGUGG-UAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAUA
-......(((((((..((((.....-..))))((.(((((((...)))))))))(((((.......))))))))))))... ( -35.90, z-score =  -1.63, R)
>droSec1.super_14 1881386 79 - 2068291
-CACGAAGCAUCGGUGGUUCAGUGG-UAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAUA
-......(((((((..((((.....-..))))((.(((((((...)))))))))(((((.......))))))))))))... ( -35.90, z-score =  -1.63, R)
>droYak2.chr2L 1918421 79 - 22324452
-CACGAAGCAUCGGUGGUUCAGUGG-UAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAUA
-......(((((((..((((.....-..))))((.(((((((...)))))))))(((((.......))))))))))))... ( -35.90, z-score =  -1.63, R)
>droEre2.scaffold_4929 1983640 77 - 26641161
-CACGAAGCAUCGGUGGUUCAGUGG-UAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCA--
-......(((((((..((((.....-..))))((.(((((((...)))))))))(((((.......)))))))))))).-- ( -35.90, z-score =  -1.58, R)
>droAna3.scaffold_12916 532401 79 + 16180835
-CAAGAAGCCUCGGUGGUUCAGUGG-UAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAAA
-...(((.((.....))))).((((-(((.........)))))))(((..(((((.(((.......)))))))).)))... ( -32.30, z-score =  -0.59, R)
>dp4.chr4_group3 8696895 79 - 11692001
-CAACAAGCAUCGGUGGUUCAGUGG-UAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAAA
-......(((((((..((((.....-..))))((.(((((((...)))))))))(((((.......))))))))))))... ( -35.90, z-score =  -1.98, R)
>droPer1.super_1 10149415 79 - 10282868
-CAACAAGCAUCGGUGGUUCAGUGG-UAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAAA
-......(((((((..((((.....-..))))((.(((((((...)))))))))(((((.......))))))))))))... ( -35.90, z-score =  -1.98, R)
>droWil1.scaffold_180708 868112 79 + 12563649
-CAACAAGCAUCGGUGGUUCAGUGG-UAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAUA
-......(((((((..((((.....-..))))((.(((((((...)))))))))(((((.......))))))))))))... ( -35.90, z-score =  -1.96, R)
>droVir3.scaffold_12963 5878357 75 - 20206255
-----AAGCAUCGGUGGUUCAGUGG-UAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAAC
-----..(((((((..((((.....-..))))((.(((((((...)))))))))(((((.......))))))))))))... ( -35.90, z-score =  -2.13, R)
>droMoj3.scaffold_6500 7541766 75 + 32352404
------AUCCUCGAUAGUAUAGUGGUUAGUAUCCCCGCCUGUCACGCGGGAGACCGGGGUUCAAUUCCCCGUCGGGGAGGA
------.(((((((((.((.......)).))))(((.((((.....)))).(((.((((.......))))))))))))))) ( -30.80, z-score =  -1.38, R)
>droGri2.scaffold_15252 85780 76 - 17193109
ACGCUAAUCGAAGCUGCUAAGCUAGCUGGACAUUAAAUCUGUUUAAGAUAUUAGUUUCAUUCUAUUUUUUAGUGGA-----
.((((((....((((((...)).)))).((.(((((((((.....)))).))))).))..........))))))..----- ( -14.90, z-score =  -0.50, R)
>anoGam1.chr2R 5387131 79 + 62725911
-CACGAAGCAUCGGUGGUUCAGUGG-UAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAUU
-......(((((((..((((.....-..))))((.(((((((...)))))))))(((((.......))))))))))))... ( -35.90, z-score =  -1.67, R)
>apiMel3.Group14 6137507 77 + 8318479
-CAAGUAGCACUGCUGGUGUAGUGG-UAUCAUGCAAGAUUCCCAUUCUUGCGACCCGGGUUCGAUUCCCGGGCAGUGCA--
-......((((((((((((......-)))))(((((((.......)))))))..(((((.......)))))))))))).-- ( -32.20, z-score =  -3.25, R)
>triCas2.ChLG8 3490830 74 + 15773733
------AGCACUGCUAGUGUAGUGG-UAUCAUGCAAGAUUCCCAUUCUUGCGACCCGGGUUCGAUUCCCGGGCAGUGCAUA
------.(((((((...........-.....(((((((.......)))))))..(((((.......))))))))))))... ( -31.40, z-score =  -3.83, R)
>consensus
_CACGAAGCAUCGGUGGUUCAGUGG_UAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAUA
.......(((((((.................(((((((.......)))))))..(((((.......))))))))))))... (-29.87 = -28.04 +  -1.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:09:41 2011