Locus 7917

Sequence ID dm3.chr3L
Location 18,495,872 – 18,495,970
Length 98
Max. P 0.947538
window10898 window10899

overview

Window 8

Location 18,495,872 – 18,495,970
Length 98
Sequences 5
Columns 99
Reading direction forward
Mean pairwise identity 84.15
Shannon entropy 0.28397
G+C content 0.47538
Mean single sequence MFE -33.56
Consensus MFE -26.34
Energy contribution -27.22
Covariance contribution 0.88
Combinations/Pair 1.15
Mean z-score -2.11
Structure conservation index 0.78
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.53
SVM RNA-class probability 0.947538
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 18495872 98 + 24543557
GGCCAAGUGGGUGGUCUUUU-GGCCAACAGUUUACCUGUUUGCUGGGCACUGUUAAGAAACAGUGCCUUAAAUAUGUUCGUUUCCCUAUCAUAAUAGCA
(((((((.((....)).)))-))))(((((.....)))))((((((((((((((....))))))))).....((((.............)))).))))) ( -31.52, z-score =  -2.13, R)
>droAna3.scaffold_13337 4394708 93 - 23293914
------GUGGGUGGUCGUUUAGGCCAAGAGCUUACCUGUUUGCUUGGCUCUGUUAGCGAACAGUGCCUGCGAAAUGUACAAUGCCCUGCCAUAAUAUCA
------((((.(((((.....)))))((.((.(((...(((((..(((.(((((....))))).))).)))))..)))....)).)).))))....... ( -29.50, z-score =  -1.06, R)
>droEre2.scaffold_4784 10361848 98 - 25762168
GGCCAAGUGGGUGGUCUUUU-GGCCAACAGCUUACCUGUUUGCUGGGCACUGUUAACAAACAGUGCCUUAAAUAAGUGCGUUCCGCCAUCAUUAGGGCA
.(((.....((((((.....-(((.(((((.....))))).)))((((((((((....))))))))))................)))))).....))). ( -36.50, z-score =  -1.82, R)
>droYak2.chr3L 8650520 98 - 24197627
GGCCAAGUGGGUGGUCUCUU-GGCCAACAGCUUACCUGUUUGCCGGGCACUGUUAAGAAACAGUGCCUUAAAUAUGUUCGUUUCGCUAUCAUAAUGGCA
.((((....((((((.....-(((.(((((.....))))).)))((((((((((....))))))))))................))))))....)))). ( -37.30, z-score =  -3.35, R)
>droSec1.super_19 496775 97 + 1257711
GGCCAAGUGGGUGGUCUUUU-GGCCAACAGCUUACCUGUUUGCUGGCCACUGUUAAGAAACAGUGCCUUAAAUAUGUUCGUUUC-CCAUCAUAAUGGCA
.((((.((((((((((....-)))))..(((..((.((((((..(((.((((((....))))))))).)))))).))..))).)-)))).....)))). ( -33.00, z-score =  -2.21, R)
>consensus
GGCCAAGUGGGUGGUCUUUU_GGCCAACAGCUUACCUGUUUGCUGGGCACUGUUAAGAAACAGUGCCUUAAAUAUGUUCGUUUCCCUAUCAUAAUGGCA
.(((.....(((((.......(((.(((((.....))))).)))((((((((((....)))))))))).................))))).....))). (-26.34 = -27.22 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 18,495,872 – 18,495,970
Length 98
Sequences 5
Columns 99
Reading direction reverse
Mean pairwise identity 84.15
Shannon entropy 0.28397
G+C content 0.47538
Mean single sequence MFE -29.66
Consensus MFE -18.96
Energy contribution -20.44
Covariance contribution 1.48
Combinations/Pair 1.05
Mean z-score -1.98
Structure conservation index 0.64
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.37
SVM RNA-class probability 0.664560
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 18495872 98 - 24543557
UGCUAUUAUGAUAGGGAAACGAACAUAUUUAAGGCACUGUUUCUUAACAGUGCCCAGCAAACAGGUAAACUGUUGGCC-AAAAGACCACCCACUUGGCC
((((..((((.(..(....).).)))).....(((((((((....))))))))).))))(((((.....)))))((((-((..(......)..)))))) ( -32.00, z-score =  -3.41, R)
>droAna3.scaffold_13337 4394708 93 + 23293914
UGAUAUUAUGGCAGGGCAUUGUACAUUUCGCAGGCACUGUUCGCUAACAGAGCCAAGCAAACAGGUAAGCUCUUGGCCUAAACGACCACCCAC------
.........((((((((....(((.....((.(((.(((((....))))).)))..))......))).)))))..)))...............------ ( -21.30, z-score =   0.36, R)
>droEre2.scaffold_4784 10361848 98 + 25762168
UGCCCUAAUGAUGGCGGAACGCACUUAUUUAAGGCACUGUUUGUUAACAGUGCCCAGCAAACAGGUAAGCUGUUGGCC-AAAAGACCACCCACUUGGCC
(((...(((((..(((...)))..)))))...(((((((((....)))))))))..)))(((((.....)))))((((-((..(......)..)))))) ( -30.00, z-score =  -0.90, R)
>droYak2.chr3L 8650520 98 + 24197627
UGCCAUUAUGAUAGCGAAACGAACAUAUUUAAGGCACUGUUUCUUAACAGUGCCCGGCAAACAGGUAAGCUGUUGGCC-AAGAGACCACCCACUUGGCC
((((..((((....((...))..)))).....(((((((((....))))))))).))))(((((.....)))))((((-(((.(......).))))))) ( -35.00, z-score =  -4.05, R)
>droSec1.super_19 496775 97 - 1257711
UGCCAUUAUGAUGG-GAAACGAACAUAUUUAAGGCACUGUUUCUUAACAGUGGCCAGCAAACAGGUAAGCUGUUGGCC-AAAAGACCACCCACUUGGCC
.((((.((((.(.(-....).).)))).....(((((((((....))))))((((((((...........))))))))-....).)).......)))). ( -30.00, z-score =  -1.89, R)
>consensus
UGCCAUUAUGAUAGCGAAACGAACAUAUUUAAGGCACUGUUUCUUAACAGUGCCCAGCAAACAGGUAAGCUGUUGGCC_AAAAGACCACCCACUUGGCC
.((((...((......................(((((((((....)))))))))..((.(((((.....))))).)).............))..)))). (-18.96 = -20.44 +   1.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:35:58 2011