Locus 6470

Sequence ID dm3.chr3L
Location 6,932,169 – 6,932,304
Length 135
Max. P 0.803755
window8912 window8913

overview

Window 2

Location 6,932,169 – 6,932,288
Length 119
Sequences 12
Columns 120
Reading direction forward
Mean pairwise identity 95.91
Shannon entropy 0.09062
G+C content 0.36470
Mean single sequence MFE -25.87
Consensus MFE -25.38
Energy contribution -25.24
Covariance contribution -0.14
Combinations/Pair 1.03
Mean z-score -0.78
Structure conservation index 0.98
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.01
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>dm3.chr3L 6932169 119 + 24543557
CGUGUGUUUUGCUCACUGGCGCGUUGACAUCGCCAUCAAAAUGCUUUGACGUGGUUUUUGAUUGACAGGAAACUCAUAAAUAAUUCAUGUCAUUAAAUCAUGUUACAUUUUUUCUUCUC-
...((((((((.....(((((.........))))).))))))))..(((((((((((.....(((((.(((............))).)))))..)))))))))))..............- ( -25.40, z-score =  -0.85, R)
>droSim1.chr3L 6405256 119 + 22553184
CGUGUGUUUUGCUCACUGGCGCGUUGACAUCGCCAUCAAAAUGCUUUGACGUGGUUUUUGAUUGACAGGAAACUCAUAAAUAAUUCAUGUCAUUAAAUCAUGUUACAUUUUUUCUUCUC-
...((((((((.....(((((.........))))).))))))))..(((((((((((.....(((((.(((............))).)))))..)))))))))))..............- ( -25.40, z-score =  -0.85, R)
>droSec1.super_2 6858899 119 + 7591821
CGUGUGUUUUGCUCACUGGCGCGUUGACAUCGCCAUCAAAAUGCUUUGACGUGGUUUUUGAUUGACAGGAAACUCAUAAAUAAUUCAUGUCAUUAAAUCAUGUUACAUUUUUUCUUCUC-
...((((((((.....(((((.........))))).))))))))..(((((((((((.....(((((.(((............))).)))))..)))))))))))..............- ( -25.40, z-score =  -0.85, R)
>droYak2.chr3L 7514993 119 + 24197627
CGUGUGUUUUGCUCACUGGCGCGUUGACAUCGCCAUCAAAAUGCUUUGACGUGGUUUUUGAUUGACAGGAAACUCAUAAAUAAUUCAUGUCAUUAAAUCAUGUUACAUUUUUUCUUCUC-
...((((((((.....(((((.........))))).))))))))..(((((((((((.....(((((.(((............))).)))))..)))))))))))..............- ( -25.40, z-score =  -0.85, R)
>droEre2.scaffold_4784 21327995 119 - 25762168
CGUGUGUUUUGCUCACUGGCGCGUUGACAUCGCCAUCAAAAUGCUUUGACGUGGUUUUUGAUUGACAGGAAACUCAUAAAUAAUUCAUGUCAUUAAAUCAUGUUACGUUUUUUCUUCUC-
(((((((((((.....(((((.........))))).))))))))...((((((((((.....(((((.(((............))).)))))..)))))))))))))............- ( -25.60, z-score =  -0.71, R)
>droAna3.scaffold_13337 3320874 119 - 23293914
CGUGUGUUUUGCUCAGUGGCGCGUUGACAUCGCCAUCAAAAUGCUUUGACGUGGUUUUUGAUUGACAGGAAACUCAUAAAUAAUUCAUGUCAUUAAAUCAUGUUACAUUUUUUCUUCUC-
...((((((((....((((((.........))))))))))))))..(((((((((((.....(((((.(((............))).)))))..)))))))))))..............- ( -27.40, z-score =  -1.20, R)
>dp4.chrXR_group8 4229005 120 - 9212921
CGUGUGUUUUGCUCAGUGGCGCGUUGACAUCGCCAUCAAAAUGCUUUGACGUGGUUUUUGAUUGACAGGAAACUCAUAAAUAAUUCAUGUCAUUAAAUCAUGUUACAUUUUUUUCUCUUC
...((((((((....((((((.........))))))))))))))..(((((((((((.....(((((.(((............))).)))))..)))))))))))............... ( -27.40, z-score =  -1.17, R)
>droPer1.super_38 706035 120 + 801819
CGUGUGUUUUGCUCAGUGGCGCGUUGACAUCGCCAUCAAAAUGCUUUGACGUGGUUUUUGAUUGACAGGAAACUCAUAAAUAAUUCAUGUCAUUAAAUCAUGUUACAUUUUUUUCUCUUC
...((((((((....((((((.........))))))))))))))..(((((((((((.....(((((.(((............))).)))))..)))))))))))............... ( -27.40, z-score =  -1.17, R)
>droWil1.scaffold_180916 2546451 120 - 2700594
CGUGUGUUUUGCUCACUGGCGCGUUGACAUUGCCAUCAAAAUGCUUUGACGUGGUUUUUGAUUGACAGGAAACUCAUAAAUAAUUCAUGUCAUUAAAUCAUGUUACAUUUUUUUUUUAUU
...((((((((.....(((((.........))))).))))))))..(((((((((((.....(((((.(((............))).)))))..)))))))))))............... ( -24.10, z-score =  -0.32, R)
>droVir3.scaffold_13049 7291784 117 + 25233164
CGUGUGUUUUGCUCGCUGGCGCGUUGACAUCGCCAUCAAAAUGCUUUGACGUGGUUUUUGAUUGACAGGAAACUCAUAAAUAAUUCAUGUCAUUAAAUCAUGUUACAUUUUUUUUUC---
...((((((((.....(((((.........))))).))))))))..(((((((((((.....(((((.(((............))).)))))..)))))))))))............--- ( -25.40, z-score =  -0.46, R)
>droMoj3.scaffold_6680 5552115 118 + 24764193
CGUGUGUUUUGCUCGCUGGCGCGUUGACAUUGCCAUCAAAAUGCUUUGACGUGGUUUUUGAUUGACAGGAAACUCAUAAAUAAUUCAUGUCAUUAAAUCAUGUUACAUUUUUUUCUCU--
...((((((((.....(((((.........))))).))))))))..(((((((((((.....(((((.(((............))).)))))..))))))))))).............-- ( -24.10, z-score =  -0.10, R)
>droGri2.scaffold_15110 18982858 114 - 24565398
CAUGUGUUUUGUGCAGUGGCGCGUUGACAUCGCCAUCAAAAUGCUUUGACGUGGUUUUUGAUUGACAGGAAACUCAUAAAUAAUUCAUGUCAUUAAAUCAUGUUACAUUUUUUU------
...((((((((....((((((.........))))))))))))))..(((((((((((.....(((((.(((............))).)))))..))))))))))).........------ ( -27.40, z-score =  -0.90, R)
>consensus
CGUGUGUUUUGCUCACUGGCGCGUUGACAUCGCCAUCAAAAUGCUUUGACGUGGUUUUUGAUUGACAGGAAACUCAUAAAUAAUUCAUGUCAUUAAAUCAUGUUACAUUUUUUCUUCUC_
...((((((((.....(((((.........))))).))))))))..(((((((((((.....(((((.(((............))).)))))..)))))))))))............... (-25.38 = -25.24 +  -0.14)

alignment

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secondary structure

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dotplot

Postscript

Window 3

Location 6,932,209 – 6,932,304
Length 95
Sequences 11
Columns 103
Reading direction forward
Mean pairwise identity 84.59
Shannon entropy 0.32326
G+C content 0.33459
Mean single sequence MFE -18.13
Consensus MFE -15.20
Energy contribution -15.20
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.28
Structure conservation index 0.84
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.74
SVM RNA-class probability 0.803755
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 6932209 95 + 24543557
AUGCUUUGACGUGGUUUUUGAUUGACAGGAAACUCAUAAAUAAUUCAUGUCAUUAAAUCAUGUUACAUUUUUUCUUCUCUCUG--------GGACGAGCUCCU
..(((((((((((((((.....(((((.(((............))).)))))..)))))))))))..........(((.....--------))).)))).... ( -19.30, z-score =  -1.21, R)
>droSim1.chr3L 6405296 95 + 22553184
AUGCUUUGACGUGGUUUUUGAUUGACAGGAAACUCAUAAAUAAUUCAUGUCAUUAAAUCAUGUUACAUUUUUUCUUCUCUCUG--------GGACGAGCUCCU
..(((((((((((((((.....(((((.(((............))).)))))..)))))))))))..........(((.....--------))).)))).... ( -19.30, z-score =  -1.21, R)
>droSec1.super_2 6858939 95 + 7591821
AUGCUUUGACGUGGUUUUUGAUUGACAGGAAACUCAUAAAUAAUUCAUGUCAUUAAAUCAUGUUACAUUUUUUCUUCUCUCUG--------GGACGAGCUCCU
..(((((((((((((((.....(((((.(((............))).)))))..)))))))))))..........(((.....--------))).)))).... ( -19.30, z-score =  -1.21, R)
>droYak2.chr3L 7515033 95 + 24197627
AUGCUUUGACGUGGUUUUUGAUUGACAGGAAACUCAUAAAUAAUUCAUGUCAUUAAAUCAUGUUACAUUUUUUCUUCUCUCUG--------GGACGAGCUCCU
..(((((((((((((((.....(((((.(((............))).)))))..)))))))))))..........(((.....--------))).)))).... ( -19.30, z-score =  -1.21, R)
>droEre2.scaffold_4784 21328035 95 - 25762168
AUGCUUUGACGUGGUUUUUGAUUGACAGGAAACUCAUAAAUAAUUCAUGUCAUUAAAUCAUGUUACGUUUUUUCUUCUCUCUG--------GGACGAGCUCCU
..(((.(((((((((((.....(((((.(((............))).)))))..)))))))))))((((((...........)--------)))))))).... ( -20.00, z-score =  -1.31, R)
>droAna3.scaffold_13337 3320914 103 - 23293914
AUGCUUUGACGUGGUUUUUGAUUGACAGGAAACUCAUAAAUAAUUCAUGUCAUUAAAUCAUGUUACAUUUUUUCUUCUCCCAGCUCAGCUCGACCGAGGUCCU
......(((((((((((.....(((((.(((............))).)))))..)))))))))))..........................(((....))).. ( -18.20, z-score =  -0.06, R)
>dp4.chrXR_group8 4229045 103 - 9212921
AUGCUUUGACGUGGUUUUUGAUUGACAGGAAACUCAUAAAUAAUUCAUGUCAUUAAAUCAUGUUACAUUUUUUUCUCUUCUCCUCUCAUCUGGGGCUCCUCCU
......(((((((((((.....(((((.(((............))).)))))..)))))))))))................((((......))))........ ( -19.20, z-score =  -1.33, R)
>droPer1.super_38 706075 103 + 801819
AUGCUUUGACGUGGUUUUUGAUUGACAGGAAACUCAUAAAUAAUUCAUGUCAUUAAAUCAUGUUACAUUUUUUUCUCUUCUCCUCUCAUCUGGGGCUCCUCCU
......(((((((((((.....(((((.(((............))).)))))..)))))))))))................((((......))))........ ( -19.20, z-score =  -1.33, R)
>droVir3.scaffold_13049 7291824 82 + 25233164
AUGCUUUGACGUGGUUUUUGAUUGACAGGAAACUCAUAAAUAAUUCAUGUCAUUAAAUCAUGUUACAUUUUUUUUUCUCCUU---------------------
......(((((((((((.....(((((.(((............))).)))))..))))))))))).................--------------------- ( -15.20, z-score =  -1.77, R)
>droMoj3.scaffold_6680 5552155 83 + 24764193
AUGCUUUGACGUGGUUUUUGAUUGACAGGAAACUCAUAAAUAAUUCAUGUCAUUAAAUCAUGUUACAUUUUUUUCUCUUCUUU--------------------
......(((((((((((.....(((((.(((............))).)))))..)))))))))))..................-------------------- ( -15.20, z-score =  -1.89, R)
>droGri2.scaffold_15110 18982898 79 - 24565398
AUGCUUUGACGUGGUUUUUGAUUGACAGGAAACUCAUAAAUAAUUCAUGUCAUUAAAUCAUGUUACAUUUUUUUUAUGC------------------------
......(((((((((((.....(((((.(((............))).)))))..)))))))))))..............------------------------ ( -15.20, z-score =  -1.52, R)
>consensus
AUGCUUUGACGUGGUUUUUGAUUGACAGGAAACUCAUAAAUAAUUCAUGUCAUUAAAUCAUGUUACAUUUUUUCUUCUCCCUG________GGACGAGCUCCU
......(((((((((((.....(((((.(((............))).)))))..)))))))))))...................................... (-15.20 = -15.20 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:08:27 2011