Locus 3076

Sequence ID 2R_DroMel_CAF1
Location 10,544,650 – 10,544,806
Length 156
Max. P 0.996081
window5077 window5078

overview

Window 7

Location 10,544,650 – 10,544,766
Length 116
Sequences 4
Columns 116
Reading direction reverse
Mean pairwise identity 85.49
Mean single sequence MFE -41.72
Consensus MFE -34.66
Energy contribution -35.91
Covariance contribution 1.25
Combinations/Pair 1.00
Mean z-score -3.19
Structure conservation index 0.83
SVM decision value 2.65
SVM RNA-class probability 0.996081
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10544650 116 - 20766785
CAACGACGUCGAUCGACGACGGCUGCACUUGUCGCUUGGCUCAAAUGCCAAGAAGUCGGUUGCACCGCAGUCGAUUGCACCUCUUGCCCCACUCCGAGCAACUUGCUCCUUGAUUC
(((.((.((((((((((..(((.((((.(((...((((((......))))))....))).)))))))..)))))))).)).))))).........((((.....))))........ ( -42.00)
>DroSec_CAF1 37772 116 - 1
CAACGACGGCGAUCGACGACGGCUGCACUUGUCGCUUGGCUCAAAUGCCAAGAAGUCGCUUGCACCGCUGUCGAUUGCACCUCUUGCCCCACUCCGAGCAACUUGCUCCUCCAUUC
(((.((.(((((((((((.(((.((((..((...((((((......))))))....))..))))))).)))))))))).).))))).........((((.....))))........ ( -43.00)
>DroSim_CAF1 34329 116 - 1
CAACGACGGCGAUCGACGACGGCUGCACUUGUCGCUUGGCUCAAAUGCCAAGAAGUCGCUUGCACCGCUGUCGAUUGCACCUCUUGCCCCACUCCGAGCAACUUGCUCCUCGAAUC
...(((..((((((((((.(((.((((..((...((((((......))))))....))..))))))).)))))))))).................((((.....)))).))).... ( -44.10)
>DroEre_CAF1 39160 94 - 1
CAACGUCGGCGAUCGACGACGGCUGCACUUGUCGCUUGGCUCAAAUGCCAAGU----------ACCGGAGUCGAUUGC------------ACUCCGAGCAACAUGCCCCUCGACUC
....(((((((((((((..(((..((....)).(((((((......)))))))----------.)))..)))))))))------------.......((.....))....)))).. ( -37.80)
>consensus
CAACGACGGCGAUCGACGACGGCUGCACUUGUCGCUUGGCUCAAAUGCCAAGAAGUCGCUUGCACCGCAGUCGAUUGCACCUCUUGCCCCACUCCGAGCAACUUGCUCCUCGAUUC
........(((((((((..(((.((((.......((((((......))))))........)))))))..))))))))).................((((.....))))........ (-34.66 = -35.91 +   1.25)

alignment

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secondary structure

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dotplot

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Window 8

Location 10,544,686 – 10,544,806
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 87.79
Mean single sequence MFE -43.86
Consensus MFE -33.16
Energy contribution -36.16
Covariance contribution 3.00
Combinations/Pair 1.00
Mean z-score -1.94
Structure conservation index 0.76
SVM decision value 0.67
SVM RNA-class probability 0.818149
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10544686 120 - 20766785
GGCUUGGAAACGGCUUAGUUUAAUGCCGCACUGAAUUGGCCAACGACGUCGAUCGACGACGGCUGCACUUGUCGCUUGGCUCAAAUGCCAAGAAGUCGGUUGCACCGCAGUCGAUUGCAC
((((.(....)(((..........)))..........))))......(.((((((((..(((.((((.(((...((((((......))))))....))).)))))))..))))))))).. ( -46.00)
>DroSec_CAF1 37808 120 - 1
GGCUUGGAAACGGCUUAGUUUAAUGCCGCACUGAAUUGGCCAACGACGGCGAUCGACGACGGCUGCACUUGUCGCUUGGCUCAAAUGCCAAGAAGUCGCUUGCACCGCUGUCGAUUGCAC
((((.(....)(((..........)))..........)))).......((((((((((.(((.((((..((...((((((......))))))....))..))))))).)))))))))).. ( -48.40)
>DroSim_CAF1 34365 120 - 1
GGCUUGGAGACGGCUUAGUUUAAUGCCGCACUGAAUUGGCCAACGACGGCGAUCGACGACGGCUGCACUUGUCGCUUGGCUCAAAUGCCAAGAAGUCGCUUGCACCGCUGUCGAUUGCAC
((((.((.(.((((..........))))).)).....)))).......((((((((((.(((.((((..((...((((((......))))))....))..))))))).)))))))))).. ( -48.70)
>DroEre_CAF1 39186 108 - 1
GGCUUGGAAACGGCUUAGUUUAAUGCCGCACUGAAUUGGCCAACGUCGGCGAUCGACGACGGCUGCACUUGUCGCUUGGCUCAAAUGCCAAGU----------ACCGGAGUCGAUUGC--
(((..(....)((((.((((((.((...)).))))))))))...))).(((((((((..(((..((....)).(((((((......)))))))----------.)))..)))))))))-- ( -42.20)
>DroYak_CAF1 39077 102 - 1
GGCUUGCAGACGGCUUAGUUUAAUGCCGCACUGAAUUGGCCAACGACGGCGAUCGACGACGGCUGCACUUGUCGCUUGGCUCAAAUGCCAAGU----------CCC------CACUCC--
((((..(((.((((..........))))..)))....))))...(((.(((..((....))..)))....)))(((((((......)))))))----------...------......-- ( -34.00)
>consensus
GGCUUGGAAACGGCUUAGUUUAAUGCCGCACUGAAUUGGCCAACGACGGCGAUCGACGACGGCUGCACUUGUCGCUUGGCUCAAAUGCCAAGAAGUCG_UUGCACCGCAGUCGAUUGCAC
((((......((((..........)))).........)))).......(((((((((..(((.((((.......((((((......))))))........)))))))..))))))))).. (-33.16 = -36.16 +   3.00)

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 10:46:55 2006