Locus 6137

Sequence ID dm3.chr3L
Location 3,988,054 – 3,988,167
Length 113
Max. P 0.996135
window8440 window8441

overview

Window 0

Location 3,988,054 – 3,988,167
Length 113
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 79.77
Shannon entropy 0.36027
G+C content 0.49871
Mean single sequence MFE -34.28
Consensus MFE -20.98
Energy contribution -23.18
Covariance contribution 2.20
Combinations/Pair 1.14
Mean z-score -1.94
Structure conservation index 0.61
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.81
SVM RNA-class probability 0.823657
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 3988054 113 + 24543557
GUAAGCAUAGAAUACAUUGGGCGCGCUACAGAAAUCUCUAAGGA---CUUGAAGCCAAGUCGCAAUCCGGCUCGGGUGACCAGACUUAGACAUCUCUGUUGCACAACCGAUAAACA
...............(((((..(.((.(((((.((.((((((((---((((....))))))((......))..((....))...)))))).)).))))).)).)..)))))..... ( -35.60, z-score =  -2.93, R)
>droSim1.chr3L 3531670 113 + 22553184
GUAAGCAUAGAAUACAUUGGGCGCGCCACAGAAAUCUCUGAGGA---CUCGAAGCCAAGUCGCAAUUCGGCUCGGGGGACCAGACUUAGAAAUCUCUGUUGCACUACCGAUAAACA
...............(((((..(.((.(((((.((.((((((((---..((((((......))..))))..))((....))...)))))).)).))))).)).)..)))))..... ( -32.90, z-score =  -1.59, R)
>droSec1.super_2 3980688 113 + 7591821
GUAAGCAUAGAAUACAUUGGGCGCGCCACAGAAAUCUCUAAGGA---CUCGAAGCCAAGUCGCAAUCCGGCUCGGGGGACCAGACUUAGACAUCUCUGUGGCACUACCGAUAAACA
...............(((((..(.((((((((.((.((((((..---...((.(((............)))))((....))...)))))).)).)))))))).)..)))))..... ( -38.20, z-score =  -3.11, R)
>droYak2.chr3L 4552172 96 + 24197627
GUAAGCAUCAAACACAUUGGGCGCUACACAAAAAUC--------------------AAGUCGUGAUCCGGCUCGUUGGACCAGACUUGGGGAUUUCUGUUGCAACGCCGAUGAACA
..............(((((((.((.(((.(((..((--------------------(((((.((.(((((....))))).)))))))))...))).))).))..).)))))).... ( -26.10, z-score =  -0.68, R)
>droEre2.scaffold_4784 6689679 116 + 25762168
GUAAGCAUGAAACACAUUGGCCGUGCCACAGAAAUCUCUGAGGAAAUCUUGAGACGGAGUCGUAAUCCGGCUCGGUGGACCAGACUUGGACGUUUCUGUUGCACCACCGGUAAGCA
...............(((((..((((.((((((((.((..((........(((.((((.......)))).)))((....))...))..)).)))))))).))))..)))))..... ( -38.60, z-score =  -1.41, R)
>consensus
GUAAGCAUAGAAUACAUUGGGCGCGCCACAGAAAUCUCUAAGGA___CUCGAAGCCAAGUCGCAAUCCGGCUCGGGGGACCAGACUUAGACAUCUCUGUUGCACCACCGAUAAACA
...............(((((..(.((.(((((.((.((((((...............(((((.....))))).((....))...)))))).)).))))).)).)..)))))..... (-20.98 = -23.18 +   2.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 3,988,054 – 3,988,167
Length 113
Sequences 5
Columns 116
Reading direction reverse
Mean pairwise identity 79.77
Shannon entropy 0.36027
G+C content 0.49871
Mean single sequence MFE -39.30
Consensus MFE -22.96
Energy contribution -24.16
Covariance contribution 1.20
Combinations/Pair 1.15
Mean z-score -3.28
Structure conservation index 0.58
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.89
SVM RNA-class probability 0.996135
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 3988054 113 - 24543557
UGUUUAUCGGUUGUGCAACAGAGAUGUCUAAGUCUGGUCACCCGAGCCGGAUUGCGACUUGGCUUCAAG---UCCUUAGAGAUUUCUGUAGCGCGCCCAAUGUAUUCUAUGCUUAC
........((.(((((.((((((((.((((((((((((.......))))))....((((((....))))---)))))))).)))))))).))))).)).................. ( -41.80, z-score =  -3.97, R)
>droSim1.chr3L 3531670 113 - 22553184
UGUUUAUCGGUAGUGCAACAGAGAUUUCUAAGUCUGGUCCCCCGAGCCGAAUUGCGACUUGGCUUCGAG---UCCUCAGAGAUUUCUGUGGCGCGCCCAAUGUAUUCUAUGCUUAC
........((..((((.((((((((((((.((.((.(....(((((.((.....)).)))))...).))---..)).)))))))))))).))))..)).................. ( -35.10, z-score =  -1.91, R)
>droSec1.super_2 3980688 113 - 7591821
UGUUUAUCGGUAGUGCCACAGAGAUGUCUAAGUCUGGUCCCCCGAGCCGGAUUGCGACUUGGCUUCGAG---UCCUUAGAGAUUUCUGUGGCGCGCCCAAUGUAUUCUAUGCUUAC
........((..(((((((((((((.((((((((((((.......))))))....((((((....))))---)))))))).)))))))))))))..)).................. ( -47.50, z-score =  -5.09, R)
>droYak2.chr3L 4552172 96 - 24197627
UGUUCAUCGGCGUUGCAACAGAAAUCCCCAAGUCUGGUCCAACGAGCCGGAUCACGACUU--------------------GAUUUUUGUGUAGCGCCCAAUGUGUUUGAUGCUUAC
....(((((((((((((.((((((((...(((((((((((........)))))).)))))--------------------)))))))))))))))))(.....)...))))..... ( -35.70, z-score =  -4.06, R)
>droEre2.scaffold_4784 6689679 116 - 25762168
UGCUUACCGGUGGUGCAACAGAAACGUCCAAGUCUGGUCCACCGAGCCGGAUUACGACUCCGUCUCAAGAUUUCCUCAGAGAUUUCUGUGGCACGGCCAAUGUGUUUCAUGCUUAC
.((.....(((.((((.((((((..(((..((((((((.......))))))))..)))...(((((.((.....))..))))))))))).)))).))).(((.....))))).... ( -36.40, z-score =  -1.37, R)
>consensus
UGUUUAUCGGUAGUGCAACAGAGAUGUCUAAGUCUGGUCCCCCGAGCCGGAUUGCGACUUGGCUUCAAG___UCCUCAGAGAUUUCUGUGGCGCGCCCAAUGUAUUCUAUGCUUAC
........((..((((.((((((((.((..((((((((.......))))))))((......))...............)).)))))))).))))..)).................. (-22.96 = -24.16 +   1.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:01:56 2011