Locus 15566

Sequence ID dm3.chrX
Location 19,631,684 – 19,631,839
Length 155
Max. P 0.758399
window21465 window21466

overview

Window 5

Location 19,631,684 – 19,631,799
Length 115
Sequences 4
Columns 118
Reading direction reverse
Mean pairwise identity 57.10
Shannon entropy 0.69986
G+C content 0.54877
Mean single sequence MFE -35.88
Consensus MFE -16.50
Energy contribution -15.88
Covariance contribution -0.62
Combinations/Pair 1.54
Mean z-score -0.63
Structure conservation index 0.46
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.18
SVM RNA-class probability 0.579363
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19631684 115 - 22422827
CAGGCGGCGAUCAGGAGGCCACCGUAGCAAGGUGGCGGCGAGGGAUGCGGCCGCAUGCCGAUUAUCU-GCAGAGAGUUAUAUAAUUCCAUCAAUGCUUUCUCCACCCUCCGUAUCA--
........(((..((((((((((.......))))))((.((((.((((....)))).))........-(((..(((((....)))))......)))..)).))...))))..))).-- ( -36.70, z-score =   0.31, R)
>droEre2.scaffold_4690 9853856 107 - 18748788
CAGGCGGCGAUCAGGAGGCCACCGUAGCAAGGUGGCGGCGAGGGAUGCGGCCGCAUGCCGAUUAUCU-GUAGAGAAUAUUUUAUUUCCAUCAAAAUUCAAUCCUGCCA----------
..(((((.(((...(((((((((.......))))))((.((((.((((....)))).)).....(((-....)))........)).)).......))).)))))))).---------- ( -35.00, z-score =  -0.62, R)
>droWil1.scaffold_181150 1759772 116 - 4952429
CAAGCAGCUAUUAAUACGCCGCCAUAGCAGGGAGGCGGCAUAGGAUGCGGCCUCAUGUUUAAAAUCU-GUAACAAAGCAGGCAGAGAU-UAGGUACACAGUUCACCCACUCCGUCUUA
......(((.....((((.......((((..(((((.((((...)))).))))).)))).......)-)))....)))((((.(((..-..(((.........)))..))).)))).. ( -27.94, z-score =   0.37, R)
>anoGam1.chr3L 30803571 104 - 41284009
CAGCAGCAGAGGAUCACGCCGCCCCAGCACGGCGGUGGCGUUGGGUCCGGCUGCAUGUUGAAGAUCUGGAAGCGGAAGAGACAUUU---UAGACGCGGAAACCUCUG-----------
..(((((...(((((((((((((((.....)).))))))))..))))).)))))(((((.....((((....))))...)))))..---((((.(.(....))))))----------- ( -43.90, z-score =  -2.56, R)
>consensus
CAGGCGGCGAUCAGGACGCCACCGUAGCAAGGUGGCGGCGAGGGAUGCGGCCGCAUGCCGAAUAUCU_GUAGAGAAUAAGACAUUUCC_UAAAUACUCAAUCCACCCA__________
..((((...........((((((.......))))))(((..........)))...))))........................................................... (-16.50 = -15.88 +  -0.62)

alignment

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secondary structure

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dotplot

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Window 6

Location 19,631,720 – 19,631,839
Length 119
Sequences 10
Columns 120
Reading direction reverse
Mean pairwise identity 73.88
Shannon entropy 0.56236
G+C content 0.58782
Mean single sequence MFE -42.42
Consensus MFE -21.77
Energy contribution -21.90
Covariance contribution 0.13
Combinations/Pair 1.38
Mean z-score -1.20
Structure conservation index 0.51
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.60
SVM RNA-class probability 0.758399
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19631720 119 - 22422827
GAAGCACUGCACCAUGAUGCUGAGCACAAUGGUGACGGGCCAGGCGGCGAUCAGGAGGCCACCGUAGCAAGGUGGCGGCGAGGGAUGCGGCCGCAUGCCGAUUAUCUGCAGAGAGUUAU-
...((.(((((((((..(((...)))..)))))).)))))...((((.((((..(..((((((.......))))))..)..((.((((....)))).))))))..))))..........- ( -45.60, z-score =  -0.80, R)
>droEre2.scaffold_4690 9853884 119 - 18748788
GAAGCACUGCACCAUGAUGCUGAGGACGAUGGUGACGGGCCAGGCGGCGAUCAGGAGGCCACCGUAGCAAGGUGGCGGCGAGGGAUGCGGCCGCAUGCCGAUUAUCUGUAGAGAAUAUU-
......(((((((.((((((((.((....((....))..))...)))).))))))..((((((.......)))))).....((.((((....)))).)).......)))))........- ( -41.30, z-score =  -0.22, R)
>droAna3.scaffold_13417 4752221 114 + 6960332
GAAGCACUGGACCAUGAUGCUCAACACAAUGGUGACGGGCCAGGCGGCGAUCAGGAGUCCGCCGUAACAGGGCGGUGGCGACGGAUGCGGUCGCAUGCUGAGGAUCUGGGGGGC------
...((.((...(((.(((.((((.(((..((....)).(((..((((((..(....)..)))))).....))).)))(((((.......)))))....)))).)))))).))))------ ( -42.20, z-score =  -0.20, R)
>dp4.chrXL_group1e 6521827 114 - 12523060
GAAGCACUGCACCAUGAUGCUGAGCACAAUGGUCACGGGCCAGGCGGCUAUCAGGAGGCCCCCAUAGCACGGAGGCGGUAACGGAUGCGGCCUCAUGUUGAGUAUCUACAACGC------
...............((((((.((((...((((.....))))..(((((((..((....))..))))).))(((((.(((.....))).))))).)))).))))))........------ ( -36.90, z-score =   0.58, R)
>droPer1.super_21 1530305 114 - 1645244
GAAGCACUGCACCAUGAUGCUGAGCACAAUGGUCACGGGCCAGGCGGCUAUCAGGAGGCCCCCAUAGCACGGAGGCGGUAAUGGAUGCGGCCUCAUGUUGAGUAUCUGCAACGC------
...((..((((....((((((.((((...((((.....))))..(((((((..((....))..))))).))(((((.(((.....))).))))).)))).))))))))))..))------ ( -40.60, z-score =   0.11, R)
>droWil1.scaffold_181150 1759809 119 - 4952429
GAAGCAUUGCACCAUAAUGCUAAUGACAAUCAUUACGGGCCAAGCAGCUAUUAAUACGCCGCCAUAGCAGGGAGGCGGCAUAGGAUGCGGCCUCAUGUUUAAAAUCUGUAACAAAGCAG-
..(((((((.....)))))))((((.....))))..(((((..(((.((((......((((((..........))))))))))..))))))))............((((......))))- ( -32.00, z-score =  -0.41, R)
>droVir3.scaffold_13042 4325554 106 + 5191987
GAAGCACUGCACCAUUAUGCUGAUCACAAUGGUCACGGGCCAGGCGGUGAUCAGCAGGCCGCCGUAGCAGGGCGGCGGCAUGGGAUGCGGCUUCAUAUUGAGUAUC--------------
(((((...(((((....((((((((((..((((.....))))....)))))))))).((((((((......))))))))...)).))).)))))............-------------- ( -53.80, z-score =  -5.10, R)
>droMoj3.scaffold_6328 1594521 106 + 4453435
GAAGCACUGCACCAUGAUGCUGAUCACAAUGGUCAAGGGCCACGCGGUUAUCAAGAGACCGCCAUAGCAAGGCGGUGGCAGCGGAUGCGGCUUCAUGCUCAGUAUC--------------
.....((((...(((((.(((((((....((((.....))))(((((((.......))))(((((.((...)).))))).)))))).)))).)))))..))))...-------------- ( -38.70, z-score =  -1.37, R)
>droGri2.scaffold_15081 3026130 106 + 4274704
GAAACACUGCACCAUAAUGCUAAUCACAAUGGUCACCGGCCAGGCAGUGAUUAGCAGUCCGCCAUAGCAGGGCGGUGGCGAUGGAUGCGGCUUCAUAUUGAGUAUC--------------
(((...(((((((((..((((((((((..((((.....))))....))))))))))...((((((.((...)).)))))))))).))))).)))............-------------- ( -41.70, z-score =  -2.97, R)
>anoGam1.chr3L 30803595 120 - 41284009
GAAGCACUGCACCAGCACGCCGAGCACGGACGAGAUGGGCCAGCAGCAGAGGAUCACGCCGCCCCAGCACGGCGGUGGCGUUGGGUCCGGCUGCAUGUUGAAGAUCUGGAAGCGGAAGAG
......((((.(((.(.(((((....))).)).).)))..(((((((((.(((((((((((((((.....)).))))))))..)))))..)))).)))))...........))))..... ( -51.40, z-score =  -1.66, R)
>consensus
GAAGCACUGCACCAUGAUGCUGAGCACAAUGGUCACGGGCCAGGCGGCGAUCAGGAGGCCGCCAUAGCAGGGCGGCGGCAACGGAUGCGGCCUCAUGUUGAGUAUCUG_AA_G_______
......(((((((....((((........((((.....))))...............((((((.......))))))))))..)).))))).............................. (-21.77 = -21.90 +   0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:01:54 2011