Locus 1374

Sequence ID dm3.chr2L
Location 10,694,902 – 10,694,998
Length 96
Max. P 0.841861
window1872 window1873

overview

Window 2

Location 10,694,902 – 10,694,998
Length 96
Sequences 7
Columns 111
Reading direction forward
Mean pairwise identity 71.44
Shannon entropy 0.50282
G+C content 0.35275
Mean single sequence MFE -20.81
Consensus MFE -8.57
Energy contribution -8.71
Covariance contribution 0.14
Combinations/Pair 1.00
Mean z-score -1.79
Structure conservation index 0.41
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.24
SVM RNA-class probability 0.609591
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 10694902 96 + 23011544
GGUUACGACAAUGACCCUUGGGGUCUACGUCACUC-GGUUUGAUGGAGUGAAAAUACAGACGCCAC-ACAGAGUGAUGAAUUAUAUAAAAUUAUUAAA-------------
............(((((...)))))..((((((((-....((.(((.((..........)).))))-)..))))))))....................------------- ( -22.10, z-score =  -1.06, R)
>droSim1.chr2L 10493789 97 + 22036055
GGUUACGACAAUGACCUUUGGGGUCUACGUCACUCUGGUUUGAUGGAGUGAAAAUACAGACGCCAC-ACAGAGUGAUGAAUUAUAUAAAAUUAUUAAA-------------
............((((.....))))..((((((((((...((.(((.((..........)).))))-)))))))))))....................------------- ( -23.80, z-score =  -1.85, R)
>droSec1.super_3 6112579 97 + 7220098
GGUUACGACAAUGACCUUUGGGGUCUACGUCACUCUGGUUUGAUGGAGUGAAAACACAGACGCCAC-ACAGAGUGAUGAAUUAUAUAAAAUUAUUAAA-------------
............((((.....))))..((((((((((...((.(((.(((....))).....))))-)))))))))))....................------------- ( -24.20, z-score =  -1.85, R)
>droEre2.scaffold_4929 11904058 97 - 26641161
GGUUACGACAAUGACCCUUAGGGUCUACGUCACUCUGGUUUGAUGGGGUGGCAAUAUAGACGCAAC-ACAGAGUGAUGAAUUAUAUAAAAUUAUUAAA-------------
............(((((...)))))..((((((((((..(((.((..(((....)))...))))).-.))))))))))....................------------- ( -25.70, z-score =  -2.26, R)
>droAna3.scaffold_12916 14538142 96 + 16180835
GUUUGCGCCAUUGACCCA-AAGGUCUACGUCACUCUAUCACAAUAGAUUAA-AAUACAAUCGAAAUUAAAAGGUAAUGAAUUAUAUAAAAUUACUUAA-------------
....(((.....((((..-..))))..)))...(((((....)))))....-..................(((((((............)))))))..------------- ( -10.10, z-score =   0.06, R)
>dp4.chr4_group4 2900147 107 + 6586962
GGUUACGACAAUGACCCUAAAGGUCUACGUCAUUCAAUCUGUAUAGAUUAA-AAUACAAUCGUAUU---ACAAUCAUCAGUCAUGUAACAAAAAUACAUAUGCCUAAUAAA
.((((((((...((((.....))))...))).......(((.((.((((..-(((((....)))))---..)))))))))....)))))...................... ( -19.90, z-score =  -2.79, R)
>droPer1.super_10 1914005 107 + 3432795
GGUUACGACAAUGACCCUAAAGGUCUACGUCAUUCAAUCUGUAUAGAUUAA-AAUACAAUCGUAUU---ACAAUCAUCAGUCAUGUAACAAAAAUACAUAUGCCUAAUAAA
.((((((((...((((.....))))...))).......(((.((.((((..-(((((....)))))---..)))))))))....)))))...................... ( -19.90, z-score =  -2.79, R)
>consensus
GGUUACGACAAUGACCCUUAGGGUCUACGUCACUCUGGUUUGAUGGAGUGA_AAUACAGACGCAAC_ACAGAGUGAUGAAUUAUAUAAAAUUAUUAAA_____________
......(((...((((.....))))...)))................................................................................ ( -8.57 =  -8.71 +   0.14)

alignment

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secondary structure

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dotplot

Postscript

Window 3

Location 10,694,902 – 10,694,998
Length 96
Sequences 7
Columns 111
Reading direction reverse
Mean pairwise identity 71.44
Shannon entropy 0.50282
G+C content 0.35275
Mean single sequence MFE -21.29
Consensus MFE -9.91
Energy contribution -9.73
Covariance contribution -0.18
Combinations/Pair 1.20
Mean z-score -1.81
Structure conservation index 0.47
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.88
SVM RNA-class probability 0.841861
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 10694902 96 - 23011544
-------------UUUAAUAAUUUUAUAUAAUUCAUCACUCUGU-GUGGCGUCUGUAUUUUCACUCCAUCAAACC-GAGUGACGUAGACCCCAAGGGUCAUUGUCGUAACC
-------------..........(((((((((...((((((.((-((((.((..........)).))))...)).-))))))....(((((...)))))))))).)))).. ( -19.80, z-score =  -1.30, R)
>droSim1.chr2L 10493789 97 - 22036055
-------------UUUAAUAAUUUUAUAUAAUUCAUCACUCUGU-GUGGCGUCUGUAUUUUCACUCCAUCAAACCAGAGUGACGUAGACCCCAAAGGUCAUUGUCGUAACC
-------------..........(((((((((...(((((((((-((((.((..........)).))).))...))))))))....((((.....))))))))).)))).. ( -19.60, z-score =  -1.87, R)
>droSec1.super_3 6112579 97 - 7220098
-------------UUUAAUAAUUUUAUAUAAUUCAUCACUCUGU-GUGGCGUCUGUGUUUUCACUCCAUCAAACCAGAGUGACGUAGACCCCAAAGGUCAUUGUCGUAACC
-------------..........(((((((((...((((((((.-((.......(((....)))........))))))))))....((((.....))))))))).)))).. ( -21.16, z-score =  -2.05, R)
>droEre2.scaffold_4929 11904058 97 + 26641161
-------------UUUAAUAAUUUUAUAUAAUUCAUCACUCUGU-GUUGCGUCUAUAUUGCCACCCCAUCAAACCAGAGUGACGUAGACCCUAAGGGUCAUUGUCGUAACC
-------------..........(((((((((...((((((((.-((((((.......)))..........)))))))))))....(((((...)))))))))).)))).. ( -21.00, z-score =  -2.36, R)
>droAna3.scaffold_12916 14538142 96 - 16180835
-------------UUAAGUAAUUUUAUAUAAUUCAUUACCUUUUAAUUUCGAUUGUAUU-UUAAUCUAUUGUGAUAGAGUGACGUAGACCUU-UGGGUCAAUGGCGCAAAC
-------------............((((((((.((((.....))))...)))))))).-....(((((....)))))(((.(((.((((..-..)))).))).))).... ( -15.30, z-score =  -0.20, R)
>dp4.chr4_group4 2900147 107 - 6586962
UUUAUUAGGCAUAUGUAUUUUUGUUACAUGACUGAUGAUUGU---AAUACGAUUGUAUU-UUAAUCUAUACAGAUUGAAUGACGUAGACCUUUAGGGUCAUUGUCGUAACC
.(((((((...((((((.......)))))).)))))))....---..((((((.((..(-(((((((....))))))))..))...((((.....))))...))))))... ( -26.10, z-score =  -2.43, R)
>droPer1.super_10 1914005 107 - 3432795
UUUAUUAGGCAUAUGUAUUUUUGUUACAUGACUGAUGAUUGU---AAUACGAUUGUAUU-UUAAUCUAUACAGAUUGAAUGACGUAGACCUUUAGGGUCAUUGUCGUAACC
.(((((((...((((((.......)))))).)))))))....---..((((((.((..(-(((((((....))))))))..))...((((.....))))...))))))... ( -26.10, z-score =  -2.43, R)
>consensus
_____________UUUAAUAAUUUUAUAUAAUUCAUCACUCUGU_GUUGCGUCUGUAUU_UCACUCCAUCAAACCAGAGUGACGUAGACCCUAAGGGUCAUUGUCGUAACC
..............................................................................((((((..((((.....))))..)))))).... ( -9.91 =  -9.73 +  -0.18)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:30:43 2011