Locus 6998

Sequence ID 3R_DroMel_CAF1
Location 18,465,764 – 18,465,924
Length 160
Max. P 0.787268
window11345 window11346

overview

Window 5

Location 18,465,764 – 18,465,884
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.33
Mean single sequence MFE -29.84
Consensus MFE -27.86
Energy contribution -27.66
Covariance contribution -0.20
Combinations/Pair 1.14
Mean z-score -1.13
Structure conservation index 0.93
SVM decision value 0.23
SVM RNA-class probability 0.643414
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18465764 120 - 27905053
AUCCGGAUGAGCCGUAAACGAAGACGGGCAAAUCGCUCGCCUGGCUUAAAUGGCAUUUCAAUUUGGCACUUCCGUUUCCGCAACAUCCCACCCCCAUUGCUUUCUAUUGGCUUUCUAUUC
....(((.((((((.((((((((..((((.....))))(((..(((.....)))..........))).))).))))).)((((.............))))........)))))))).... ( -26.52)
>DroSec_CAF1 21073 114 - 1
AUCCGGAUGAGCCGUAAACGAAGUCGGGCAAAUCGCCCGCCUGGCUUAAAUGGCAUUUCAAUUUGGCACUUCCGUUUCCGCAACAUCCC--CC--AUUGCUUUCUAUUGGCGA--AAUUC
....(((((...((.(((((((((.((((.....))))(((..(((.....)))..........))))))).))))).))...))))).--..--.(((((.......)))))--..... ( -31.90)
>DroSim_CAF1 20781 116 - 1
AUCCGGAUGAGCCGUAAACGAAGUCGGGCAAAUCGCCCGCCUGGCUUAAAUGGCAUUUCAAUUUGGCACUUCCGUUUCCGCAACAUCCC--CCCAUUUGUUUUCUAUUGGCGA--AAUUC
....(((((...((.(((((((((.((((.....))))(((..(((.....)))..........))))))).))))).))...))))).--....((((((.......)))))--).... ( -30.30)
>DroEre_CAF1 21454 114 - 1
AUCCGGAUGAGCCGUAAACGAAGUCGGGCAAAUCGCUCGCCCGACUUAAAUGGCAUUUCAAUUUGGCACUUCCGUUUCCGCAACAUCCC--CC--AUUGCAUUCUAUUGGCGA--AAUUC
....(((((...((.((((((((((((((.........)))))))))...((.((........)).))....))))).))...))))).--..--.((((.........))))--..... ( -32.00)
>DroYak_CAF1 21778 114 - 1
AUCCGGAUGAGCUGUAAACGAAGUCGGGCAAAUCGCUCGCCUGGCUUAAAUGGCAUUUCAAUUUGGCACUUCCGUUUCCGCAACAUCCC--CC--AUUGCUUUCUAUUGGCCA--AAUUC
....(((((.((.(.((((((((((((((.........)))))))))...((.((........)).))....)))))).))..))))).--..--...(((.......)))..--..... ( -28.50)
>consensus
AUCCGGAUGAGCCGUAAACGAAGUCGGGCAAAUCGCUCGCCUGGCUUAAAUGGCAUUUCAAUUUGGCACUUCCGUUUCCGCAACAUCCC__CC__AUUGCUUUCUAUUGGCGA__AAUUC
....(((((...((.((((((((((((((.........)))))))))...((.((........)).))....))))).))...)))))..........(((.......)))......... (-27.86 = -27.66 +  -0.20)

alignment

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secondary structure

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dotplot

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Window 6

Location 18,465,804 – 18,465,924
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 97.33
Mean single sequence MFE -37.92
Consensus MFE -36.38
Energy contribution -36.14
Covariance contribution -0.24
Combinations/Pair 1.10
Mean z-score -1.25
Structure conservation index 0.96
SVM decision value 0.58
SVM RNA-class probability 0.787268
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18465804 120 - 27905053
CCCCGCAAGAAAUCUGAGUGCCCUGACCAGACGCAGACGAAUCCGGAUGAGCCGUAAACGAAGACGGGCAAAUCGCUCGCCUGGCUUAAAUGGCAUUUCAAUUUGGCACUUCCGUUUCCG
........(((((..((((((((((........)))..(((.(((..(((((((....)..((.(((((.....))))).))))))))..)))...))).....)))))))..))))).. ( -35.80)
>DroSec_CAF1 21107 120 - 1
CCCCGCAAGAAAUCUGAGUGCCCUGACCAGACGCAGACGAAUCCGGAUGAGCCGUAAACGAAGUCGGGCAAAUCGCCCGCCUGGCUUAAAUGGCAUUUCAAUUUGGCACUUCCGUUUCCG
........(((((..((((((((((........)))..(((.(((..(((((((....)..((.(((((.....))))).))))))))..)))...))).....)))))))..))))).. ( -38.80)
>DroSim_CAF1 20817 120 - 1
CCCCGCAAGAAAUCUGAGUGCCCUGACCAGACGCAGACGAAUCCGGAUGAGCCGUAAACGAAGUCGGGCAAAUCGCCCGCCUGGCUUAAAUGGCAUUUCAAUUUGGCACUUCCGUUUCCG
........(((((..((((((((((........)))..(((.(((..(((((((....)..((.(((((.....))))).))))))))..)))...))).....)))))))..))))).. ( -38.80)
>DroEre_CAF1 21488 120 - 1
CCCCCCAAGAAAUCUGAGUGCCCUGACCAGACGCAGACGAAUCCGGAUGAGCCGUAAACGAAGUCGGGCAAAUCGCUCGCCCGACUUAAAUGGCAUUUCAAUUUGGCACUUCCGUUUCCG
........(((((..(((((((...........((..((....))..)).(((((.....(((((((((.........)))))))))..)))))..........)))))))..))))).. ( -40.00)
>DroYak_CAF1 21812 120 - 1
CCCCCCAAGAAAUCUGAGUGCCCUGACCAGACGCAAACGAAUCCGGAUGAGCUGUAAACGAAGUCGGGCAAAUCGCUCGCCUGGCUUAAAUGGCAUUUCAAUUUGGCACUUCCGUUUCCG
........(((((..(((((((....((.((..(....)..)).)).((((.(((.....(((((((((.........))))))))).....))).))))....)))))))..))))).. ( -36.20)
>consensus
CCCCGCAAGAAAUCUGAGUGCCCUGACCAGACGCAGACGAAUCCGGAUGAGCCGUAAACGAAGUCGGGCAAAUCGCUCGCCUGGCUUAAAUGGCAUUUCAAUUUGGCACUUCCGUUUCCG
........(((((..(((((((...........((..((....))..)).(((((.....(((((((((.........)))))))))..)))))..........)))))))..))))).. (-36.38 = -36.14 +  -0.24)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:35:10 2006