Locus 162

Sequence ID dm3.chr2L
Location 1,154,456 – 1,154,561
Length 105
Max. P 0.999828
window227 window228

overview

Window 7

Location 1,154,456 – 1,154,561
Length 105
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 67.94
Shannon entropy 0.59936
G+C content 0.43934
Mean single sequence MFE -32.99
Consensus MFE -12.65
Energy contribution -13.82
Covariance contribution 1.17
Combinations/Pair 1.32
Mean z-score -2.48
Structure conservation index 0.38
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.15
SVM RNA-class probability 0.983797
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 1154456 105 + 23011544
GGGCUGGGAAUGCAGGGGUCGACCUGUUCUGGUUUCAGCUUAACUAUAUGGAUAUUUUGGGCG---------UGAAACCAAAACAGGAUCUUGGGUAAGCA-UACAUGUCGUUCA
.(((...(.((((...(.((((((((((.((((((((((((((..(((....))).)))))).---------)))))))).))))))...)))).)..)))-).)..)))..... ( -33.00, z-score =  -2.06, R)
>droEre2.scaffold_4929 1198893 113 + 26641161
UGGCAGGGAAUGCAGGGU-CAGCCUGCUCUGGUUUCAACUAAACUGGAUGGAUAUCUUGGGCGCAGUUGCAGUGAAACCAGAACAGGGUCUGGAGUAAGCA-UACAUGUCGUUCA
.((((..(.((((....(-(((((((.((((((((((....((((((..((....))....).)))))....)))))))))).))))..)))).....)))-).).))))..... ( -39.30, z-score =  -1.78, R)
>droYak2.chr2L 1133193 98 + 22324452
UGGCAGGGAAUGCAGGGU-CAGCCUGCUCUGGUUUCAACUAAACU-----------UAGACCAGAACU----UGAAACCAGAACAGGAUCUUGAGUAAGCA-UACAUGUCAUUCA
(((((..(.((((..(.(-((.((((.(((((((((((.......-----------...........)----)))))))))).))))....))).)..)))-).).))))).... ( -32.37, z-score =  -2.63, R)
>droSec1.super_14 1114462 105 + 2068291
UUGCAGGGAAUGCAGGGGACGACCUGUUCUGGUUUCAGCUUAACUAGAUGGAUAUCUUGGGCG---------UGAAACCAGAACAGGAUCUUGGCUAAGCA-UACAUGUCGUUCA
(((((.....))))).((((((((((((((((((((((((((...((((....))))))))).---------)))))))))))))))......((...)).-......)))))). ( -42.40, z-score =  -4.60, R)
>droSim1.chr2L 1126437 105 + 22036055
GGGCUGGGAAUGCAAGGAUCGAUCUGUUCUGGUUUCAGCUUAACUAGAUUGAUAUCUUGGGCG---------UGAAACCAGAACAGGAUCUUGGCUAAGCA-UACAUGUCGUUCA
.(((((.(...((.((((((...(((((((((((((((((((...((((....))))))))).---------)))))))))))))))))))).))....).-..)).)))..... ( -40.00, z-score =  -4.16, R)
>triCas2.ChLG5 10857534 92 + 18847211
--------------GACCUUGAAAUGCCGUUGAAAACAUUGAACUAUAUGUAUUUAUUUGGAG---------UGCAAACACAAUAGUAAUUCUAAUAAACAGUACAUUUUACUAA
--------------.....((((((((((.((((.((((........)))).))))..))).(---------((....))).......................))))))).... ( -10.90, z-score =   0.37, R)
>consensus
UGGCAGGGAAUGCAGGGGUCGACCUGCUCUGGUUUCAACUUAACUAGAUGGAUAUCUUGGGCG_________UGAAACCAGAACAGGAUCUUGAGUAAGCA_UACAUGUCGUUCA
............(((((.....((((.((((((((((...................................)))))))))).)))).)))))...................... (-12.65 = -13.82 +   1.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 1,154,456 – 1,154,561
Length 105
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 67.94
Shannon entropy 0.59936
G+C content 0.43934
Mean single sequence MFE -28.55
Consensus MFE -16.29
Energy contribution -17.02
Covariance contribution 0.73
Combinations/Pair 1.33
Mean z-score -3.25
Structure conservation index 0.57
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 4.50
SVM RNA-class probability 0.999828
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 1154456 105 - 23011544
UGAACGACAUGUA-UGCUUACCCAAGAUCCUGUUUUGGUUUCA---------CGCCCAAAAUAUCCAUAUAGUUAAGCUGAAACCAGAACAGGUCGACCCCUGCAUUCCCAGCCC
.........((.(-(((........((.(((((((((((((((---------.((......(((....))).....))))))))))))))))))).......))))...)).... ( -27.96, z-score =  -4.21, R)
>droEre2.scaffold_4929 1198893 113 - 26641161
UGAACGACAUGUA-UGCUUACUCCAGACCCUGUUCUGGUUUCACUGCAACUGCGCCCAAGAUAUCCAUCCAGUUUAGUUGAAACCAGAGCAGGCUG-ACCCUGCAUUCCCUGCCA
.....(.((...(-(((......(((..((((((((((((((((((.(((((.................)))))))).))))))))))))))))))-.....))))....)).). ( -34.83, z-score =  -3.55, R)
>droYak2.chr2L 1133193 98 - 22324452
UGAAUGACAUGUA-UGCUUACUCAAGAUCCUGUUCUGGUUUCA----AGUUCUGGUCUA-----------AGUUUAGUUGAAACCAGAGCAGGCUG-ACCCUGCAUUCCCUGCCA
.(((((.((.(((-....)))(((....(((((((((((((((----(.(.((......-----------))...).)))))))))))))))).))-)...)))))))....... ( -31.80, z-score =  -2.94, R)
>droSec1.super_14 1114462 105 - 2068291
UGAACGACAUGUA-UGCUUAGCCAAGAUCCUGUUCUGGUUUCA---------CGCCCAAGAUAUCCAUCUAGUUAAGCUGAAACCAGAACAGGUCGUCCCCUGCAUUCCCUGCAA
.....(((.....-.((...))...((.(((((((((((((((---------.((.(.((((....)))).)....))))))))))))))))))))))...((((.....)))). ( -33.60, z-score =  -4.60, R)
>droSim1.chr2L 1126437 105 - 22036055
UGAACGACAUGUA-UGCUUAGCCAAGAUCCUGUUCUGGUUUCA---------CGCCCAAGAUAUCAAUCUAGUUAAGCUGAAACCAGAACAGAUCGAUCCUUGCAUUCCCAGCCC
.........((.(-(((..((....((((.(((((((((((((---------.((.(.((((....)))).)....)))))))))))))))))))....)).))))...)).... ( -31.10, z-score =  -4.44, R)
>triCas2.ChLG5 10857534 92 - 18847211
UUAGUAAAAUGUACUGUUUAUUAGAAUUACUAUUGUGUUUGCA---------CUCCAAAUAAAUACAUAUAGUUCAAUGUUUUCAACGGCAUUUCAAGGUC--------------
......((((((..((..((((.((((((....((((((((..---------.......))))))))..))))))))))....))...)))))).......-------------- ( -12.00, z-score =   0.24, R)
>consensus
UGAACGACAUGUA_UGCUUACCCAAGAUCCUGUUCUGGUUUCA_________CGCCCAAGAUAUCCAUCUAGUUAAGCUGAAACCAGAACAGGUCGAACCCUGCAUUCCCUGCCA
..............(((...........(((((((((((((((...................................))))))))))))))).........))).......... (-16.29 = -17.02 +   0.73)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:07:49 2011