Locus 7568

Sequence ID 2L_DroMel_CAF1
Location 20,945,131 – 20,945,291
Length 160
Max. P 0.983612
window12170 window12171 window12172 window12173

overview

Window 0

Location 20,945,131 – 20,945,251
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 99.44
Mean single sequence MFE -38.43
Consensus MFE -38.65
Energy contribution -38.43
Covariance contribution -0.22
Combinations/Pair 1.02
Mean z-score -1.65
Structure conservation index 1.01
SVM decision value 0.53
SVM RNA-class probability 0.772576
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20945131 120 + 22407834
CUCCUCCUCCAGCGACCUAGAGUUUCCGAAAAGUUCCCACUUCGGUUUCAAAUUCAGAUUGAGAGCCAGAUUCAGAGCCAGUGGAGUUUGCUUUUUCUGGCCUGGUCUCUGGCAUUGAGG
.....((((...(((.((.((((((((((..(((....)))))))....)))))))).)))...((((((.((((.(((((.((((....))))..)))))))))..))))))...)))) ( -39.20)
>DroSec_CAF1 31346 120 + 1
CUCCUCCUCCAGCGACCUAGAGUUUUCGAAAAGUUCCCACUUCGGUUUCAAAUUCAGAUUGAGAGCCAGAUUCAGAGCCAGUGGAGUUUGCUUUUUCUGGCCUGGUCUCUGGCAUUGAGG
.....((((...(((.((.((((((((((..(((....)))))))....)))))))).)))...((((((.((((.(((((.((((....))))..)))))))))..))))))...)))) ( -36.90)
>DroSim_CAF1 28417 120 + 1
CUCCUCCUCCAGCGACCUAGAGUUUCCGAAAAGUUCCCACUUCGGUUUCAAAUUCAGAUUGAGAGCCAGAUUCAGAGCCAGUGGAGUUUGCUUUUUCUGGCCUGGUCUCUGGCAUUGAGG
.....((((...(((.((.((((((((((..(((....)))))))....)))))))).)))...((((((.((((.(((((.((((....))))..)))))))))..))))))...)))) ( -39.20)
>consensus
CUCCUCCUCCAGCGACCUAGAGUUUCCGAAAAGUUCCCACUUCGGUUUCAAAUUCAGAUUGAGAGCCAGAUUCAGAGCCAGUGGAGUUUGCUUUUUCUGGCCUGGUCUCUGGCAUUGAGG
.....((((...(((.((.((((((((((..(((....)))))))....)))))))).)))...((((((.((((.(((((.((((....))))..)))))))))..))))))...)))) (-38.65 = -38.43 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 1

Location 20,945,131 – 20,945,251
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 99.44
Mean single sequence MFE -42.13
Consensus MFE -41.17
Energy contribution -41.50
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -3.04
Structure conservation index 0.98
SVM decision value 1.95
SVM RNA-class probability 0.983564
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20945131 120 - 22407834
CCUCAAUGCCAGAGACCAGGCCAGAAAAAGCAAACUCCACUGGCUCUGAAUCUGGCUCUCAAUCUGAAUUUGAAACCGAAGUGGGAACUUUUCGGAAACUCUAGGUCGCUGGAGGAGGAG
((((...((((((...((((((((....((....))...))))).)))..))))))..((((.......))))..((((((.(....).))))))...((((((....)))))))))).. ( -43.30)
>DroSec_CAF1 31346 120 - 1
CCUCAAUGCCAGAGACCAGGCCAGAAAAAGCAAACUCCACUGGCUCUGAAUCUGGCUCUCAAUCUGAAUUUGAAACCGAAGUGGGAACUUUUCGAAAACUCUAGGUCGCUGGAGGAGGAG
((((...((((((...((((((((....((....))...))))).)))..))))))..((((.......))))...(((((.(....).)))))....((((((....)))))))))).. ( -39.80)
>DroSim_CAF1 28417 120 - 1
CCUCAAUGCCAGAGACCAGGCCAGAAAAAGCAAACUCCACUGGCUCUGAAUCUGGCUCUCAAUCUGAAUUUGAAACCGAAGUGGGAACUUUUCGGAAACUCUAGGUCGCUGGAGGAGGAG
((((...((((((...((((((((....((....))...))))).)))..))))))..((((.......))))..((((((.(....).))))))...((((((....)))))))))).. ( -43.30)
>consensus
CCUCAAUGCCAGAGACCAGGCCAGAAAAAGCAAACUCCACUGGCUCUGAAUCUGGCUCUCAAUCUGAAUUUGAAACCGAAGUGGGAACUUUUCGGAAACUCUAGGUCGCUGGAGGAGGAG
((((...((((((...((((((((....((....))...))))).)))..))))))..((((.......))))..((((((.(....).))))))...((((((....)))))))))).. (-41.17 = -41.50 +   0.33)

alignment

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secondary structure

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dotplot

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Window 2

Location 20,945,171 – 20,945,291
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 98.89
Mean single sequence MFE -48.23
Consensus MFE -46.63
Energy contribution -47.30
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -4.01
Structure conservation index 0.97
SVM decision value 1.95
SVM RNA-class probability 0.983612
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20945171 120 + 22407834
UUCGGUUUCAAAUUCAGAUUGAGAGCCAGAUUCAGAGCCAGUGGAGUUUGCUUUUUCUGGCCUGGUCUCUGGCAUUGAGGCGCCAUUGUUUGGCAUAGUUUUCAAGCCCAGCACUGGCAC
....(((((((.(((.....))).((((((.((((.(((((.((((....))))..)))))))))..)))))).)))))))((((.((((.(((...........))).)))).)))).. ( -47.90)
>DroSec_CAF1 31386 120 + 1
UUCGGUUUCAAAUUCAGAUUGAGAGCCAGAUUCAGAGCCAGUGGAGUUUGCUUUUUCUGGCCUGGUCUCUGGCAUUGAGGCGCCAUUGUUUGGCAUAGUUUUCAUGACCAGCACUGGCAC
....(((((((.(((.....))).((((((.((((.(((((.((((....))))..)))))))))..)))))).)))))))((((.((((.(((((.......))).)))))).)))).. ( -46.20)
>DroSim_CAF1 28457 120 + 1
UUCGGUUUCAAAUUCAGAUUGAGAGCCAGAUUCAGAGCCAGUGGAGUUUGCUUUUUCUGGCCUGGUCUCUGGCAUUGAGGCGCCAUUGUUUGGCAUAGUUUUCAUGCCCAGCACUGGCAC
....(((((((.(((.....))).((((((.((((.(((((.((((....))))..)))))))))..)))))).)))))))((((.((((.(((((.......))))).)))).)))).. ( -50.60)
>consensus
UUCGGUUUCAAAUUCAGAUUGAGAGCCAGAUUCAGAGCCAGUGGAGUUUGCUUUUUCUGGCCUGGUCUCUGGCAUUGAGGCGCCAUUGUUUGGCAUAGUUUUCAUGCCCAGCACUGGCAC
....(((((((.(((.....))).((((((.((((.(((((.((((....))))..)))))))))..)))))).)))))))((((.((((.(((((.......))))).)))).)))).. (-46.63 = -47.30 +   0.67)

alignment

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secondary structure

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dotplot

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Window 3

Location 20,945,171 – 20,945,291
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 98.89
Mean single sequence MFE -38.87
Consensus MFE -37.43
Energy contribution -38.10
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -3.19
Structure conservation index 0.96
SVM decision value 1.94
SVM RNA-class probability 0.983304
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20945171 120 - 22407834
GUGCCAGUGCUGGGCUUGAAAACUAUGCCAAACAAUGGCGCCUCAAUGCCAGAGACCAGGCCAGAAAAAGCAAACUCCACUGGCUCUGAAUCUGGCUCUCAAUCUGAAUUUGAAACCGAA
((((((.((...(((...........)))...)).)))))).((...((((((...((((((((....((....))...))))).)))..))))))..((((.......))))....)). ( -37.70)
>DroSec_CAF1 31386 120 - 1
GUGCCAGUGCUGGUCAUGAAAACUAUGCCAAACAAUGGCGCCUCAAUGCCAGAGACCAGGCCAGAAAAAGCAAACUCCACUGGCUCUGAAUCUGGCUCUCAAUCUGAAUUUGAAACCGAA
((((((.((.(((.((((.....)))))))..)).)))))).((...((((((...((((((((....((....))...))))).)))..))))))..((((.......))))....)). ( -37.50)
>DroSim_CAF1 28457 120 - 1
GUGCCAGUGCUGGGCAUGAAAACUAUGCCAAACAAUGGCGCCUCAAUGCCAGAGACCAGGCCAGAAAAAGCAAACUCCACUGGCUCUGAAUCUGGCUCUCAAUCUGAAUUUGAAACCGAA
((((((.((...((((((.....))))))...)).)))))).((...((((((...((((((((....((....))...))))).)))..))))))..((((.......))))....)). ( -41.40)
>consensus
GUGCCAGUGCUGGGCAUGAAAACUAUGCCAAACAAUGGCGCCUCAAUGCCAGAGACCAGGCCAGAAAAAGCAAACUCCACUGGCUCUGAAUCUGGCUCUCAAUCUGAAUUUGAAACCGAA
((((((.((...((((((.....))))))...)).)))))).((...((((((...((((((((....((....))...))))).)))..))))))..((((.......))))....)). (-37.43 = -38.10 +   0.67)

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 12:40:09 2006