Locus 314

Sequence ID 3R_DroMel_CAF1
Location 1,215,965 – 1,216,116
Length 151
Max. P 0.997074
window529 window530 window531

overview

Window 9

Location 1,215,965 – 1,216,076
Length 111
Sequences 3
Columns 118
Reading direction reverse
Mean pairwise identity 81.68
Mean single sequence MFE -38.00
Consensus MFE -35.39
Energy contribution -35.17
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -0.25
Structure conservation index 0.93
SVM decision value 0.17
SVM RNA-class probability 0.616361
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1215965 111 - 27905053
UCCGGCCAUCGGCAAUCAGCAAUCAGCAACUAGCAACCAGCGAUCGGCGAUCGGCAAUAGCA-------GUAGGCAGCUGGUUGGCGUGGCCGCUUCGGUUGCCGCGUUCCCGUUUUG
..((((((.((.((((((((.....((.....))..((..(((((...)))))((....)).-------...))..)))))))).))))))))...(((..((...))..)))..... ( -39.90)
>DroSec_CAF1 6873 97 - 1
UCCGGCAAUC---------------------AGCAACCAGUGAUCGGCGAUCGGCAAUAGCAGUAGGCAGUAGGCAGCUGGUUGGCGUGGCCGCUUCGGUUGCCGCGUUCCCGUUUUG
..((((((((---------------------(((..((.((((((...)))).))....((.....))....))..))))))))(((((((.((....)).)))))))..)))..... ( -36.60)
>DroSim_CAF1 6994 97 - 1
UCCGGCAAUC---------------------AGCAACCAGUGAUCGGCGAUCGGCAAUAGCAGCAGGCAGUAGGCAGCUGGUUGGCGUGGCCGCUUCGGUUGCCGCGUUCCCGUUUUG
..((((((((---------------------(((..(((.((.((.((.....((....)).)).)))).).))..))))))))(((((((.((....)).)))))))..)))..... ( -37.50)
>consensus
UCCGGCAAUC_____________________AGCAACCAGUGAUCGGCGAUCGGCAAUAGCAG_AGGCAGUAGGCAGCUGGUUGGCGUGGCCGCUUCGGUUGCCGCGUUCCCGUUUUG
..(((............................((((((((((((...)))).((....))...............))))))))(((((((.((....)).)))))))..)))..... (-35.39 = -35.17 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 0

Location 1,216,003 – 1,216,116
Length 113
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 81.42
Mean single sequence MFE -40.15
Consensus MFE -31.71
Energy contribution -31.49
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -1.94
Structure conservation index 0.79
SVM decision value 0.91
SVM RNA-class probability 0.879125
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1216003 113 + 27905053
CAGCUGCCUAC-------UGCUAUUGCCGAUCGCCGAUCGCUGGUUGCUAGUUGCUGAUUGCUGAUUGCCGAUGGCCGGACAACCAGUUUUCGGCGGACAACAGGAAAGCCAGCGAACUG
..((((.((.(-------.((....)).).(((((((..(((((((((..(((..((...((.....))))..)))..).))))))))..)))))))..........)).))))...... ( -38.60)
>DroSec_CAF1 6911 99 + 1
CAGCUGCCUACUGCCUACUGCUAUUGCCGAUCGCCGAUCACUGGUUGCU---------------------GAUUGCCGGACAACCAGUUUUCGGCGGACAACAGGAAAGCCAGCGAGCUG
(((((((......(((.(.((....)).).(((((((..((((((((((---------------------(.....))).))))))))..))))))).....))).......)).))))) ( -39.72)
>DroSim_CAF1 7032 99 + 1
CAGCUGCCUACUGCCUGCUGCUAUUGCCGAUCGCCGAUCACUGGUUGCU---------------------GAUUGCCGGACAACCAGUUUUCGGCGGACAACAGGAAAGCCAGCGAGCUG
(((((((......((((..((....)).(.(((((((..((((((((((---------------------(.....))).))))))))..))))))).)..)))).......)).))))) ( -42.12)
>consensus
CAGCUGCCUACUGCCU_CUGCUAUUGCCGAUCGCCGAUCACUGGUUGCU_____________________GAUUGCCGGACAACCAGUUUUCGGCGGACAACAGGAAAGCCAGCGAGCUG
..((((.((..........((....)).(.(((((((..((((((((((............................)).))))))))..))))))).)........)).))))...... (-31.71 = -31.49 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 1

Location 1,216,003 – 1,216,116
Length 113
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 81.42
Mean single sequence MFE -45.70
Consensus MFE -38.40
Energy contribution -39.85
Covariance contribution 1.45
Combinations/Pair 1.03
Mean z-score -3.36
Structure conservation index 0.84
SVM decision value 2.79
SVM RNA-class probability 0.997074
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1216003 113 - 27905053
CAGUUCGCUGGCUUUCCUGUUGUCCGCCGAAAACUGGUUGUCCGGCCAUCGGCAAUCAGCAAUCAGCAACUAGCAACCAGCGAUCGGCGAUCGGCAAUAGCA-------GUAGGCAGCUG
......((((.((...((((((((((((((...((((((((..((((...))).....((.....))..)..))))))))...))))))...))))))))..-------..)).)))).. ( -44.80)
>DroSec_CAF1 6911 99 - 1
CAGCUCGCUGGCUUUCCUGUUGUCCGCCGAAAACUGGUUGUCCGGCAAUC---------------------AGCAACCAGUGAUCGGCGAUCGGCAAUAGCAGUAGGCAGUAGGCAGCUG
(((((.(((.((((..((((((((((((((..(((((((((.........---------------------.)))))))))..))))))...))))))))....))))....)))))))) ( -46.40)
>DroSim_CAF1 7032 99 - 1
CAGCUCGCUGGCUUUCCUGUUGUCCGCCGAAAACUGGUUGUCCGGCAAUC---------------------AGCAACCAGUGAUCGGCGAUCGGCAAUAGCAGCAGGCAGUAGGCAGCUG
..(((..(((.((((.((((((((((((((..(((((((((.........---------------------.)))))))))..))))))...)))))))).)).)).)))..)))..... ( -45.90)
>consensus
CAGCUCGCUGGCUUUCCUGUUGUCCGCCGAAAACUGGUUGUCCGGCAAUC_____________________AGCAACCAGUGAUCGGCGAUCGGCAAUAGCAG_AGGCAGUAGGCAGCUG
(((((.(((.((((..((((((((((((((..(((((((((...............................)))))))))..))))))...))))))))....))))....)))))))) (-38.40 = -39.85 +   1.45)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:12 2006