Locus 4572

Sequence ID 2R_DroMel_CAF1
Location 14,938,093 – 14,938,309
Length 216
Max. P 0.955108
window7324 window7325 window7326

overview

Window 4

Location 14,938,093 – 14,938,208
Length 115
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 73.60
Mean single sequence MFE -23.43
Consensus MFE -14.15
Energy contribution -13.93
Covariance contribution -0.22
Combinations/Pair 1.20
Mean z-score -1.90
Structure conservation index 0.60
SVM decision value 1.40
SVM RNA-class probability 0.950146
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14938093 115 - 20766785
ACAGAUUAUUAUUCAGGGGUCAUAAAUGU-----CAUUUAAGAUCAAGAACAUAUUAUAUUUAAAUUUAUCCGGAAAUAUGAGCAAAUGUUUAAGGUGUAGCACCACAUUGACCCCCAUU
...............(((((((...((((-----.............((((((.((((((((............))))))))....))))))..((((...))))))))))))))).... ( -23.90)
>DroSim_CAF1 24128 116 - 1
ACAGAUUAUUAUUCAGGGGUCAUGUAUGCA----CAUUUUAGAUAAAGAACAUAUGAUAUUUAAAUUAAUCCGAAAAUAUGAGCAAAUGUUUAAGGUGUAACACCACAUUGACCCCCAUU
...............((((((((((.((.(----(((((((((((..(..(((((.....................)))))..)...))))))))))))..))..))).))))))).... ( -24.90)
>DroYak_CAF1 24304 116 - 1
UCAG-UUCUUAUUCAGGGGUUAUGUACAUAUAUGCUUUUUAGAUAAUACAAAAAUUAUAUUCCAAUUUUCUAUGAAAUUUCAGUA---GUUUUUGGGGUCACACCCUAUAGACCCCCCUU
....-..........((((((.((((......................((((((((((.....((((((....))))))...)))---)))))))(((.....))))))))))))).... ( -21.50)
>consensus
ACAGAUUAUUAUUCAGGGGUCAUGUAUGUA____CAUUUUAGAUAAAGAACAUAUUAUAUUUAAAUUUAUCCGGAAAUAUGAGCAAAUGUUUAAGGUGUAACACCACAUUGACCCCCAUU
...............((((((.....................................................((((((......))))))...(((......)))...)))))).... (-14.15 = -13.93 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 5

Location 14,938,208 – 14,938,309
Length 101
Sequences 3
Columns 101
Reading direction forward
Mean pairwise identity 92.41
Mean single sequence MFE -15.82
Consensus MFE -14.21
Energy contribution -13.99
Covariance contribution -0.22
Combinations/Pair 1.06
Mean z-score -2.34
Structure conservation index 0.90
SVM decision value 0.99
SVM RNA-class probability 0.896446
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14938208 101 + 20766785
AGUUUCGCCACUGUCUAUGAAGCAUAACAACAAAAUAGACACACUACUCACUCACACACGCCGUGUUGCGUGAGCUUGACCAAACCCAAAAAACAAAAACA
.((((.(.((.(((((((................))))))).....(((((.(((((.....))).)).)))))..)).).))))................ ( -17.29)
>DroSim_CAF1 24244 94 + 1
AGUUCCGCCACUGUCUAUAAAGCAUAACAACAAAAUAGACACA-------CUCUCACACGCCGUGUUGCGUGAGCUUGACCAAACCCAAAAAACAAAAACA
((((((((...(((((((................)))))))..-------....(((.....)))..))).)))))......................... ( -14.39)
>DroYak_CAF1 24420 101 + 1
AGUUCCGCCACUGUCUAUAAAGCAUAACAACAAAAUAGACACACUACACACUCACACACACCGUGUUGCGUGAGCUUGACCAAACCCAAAAAACAAAAACA
((((((((...(((((((................)))))))............((((.....)))).))).)))))......................... ( -15.79)
>consensus
AGUUCCGCCACUGUCUAUAAAGCAUAACAACAAAAUAGACACACUAC_CACUCACACACGCCGUGUUGCGUGAGCUUGACCAAACCCAAAAAACAAAAACA
((((((((...(((((((................))))))).............(((.....)))..))).)))))......................... (-14.21 = -13.99 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 6

Location 14,938,208 – 14,938,309
Length 101
Sequences 3
Columns 101
Reading direction reverse
Mean pairwise identity 92.41
Mean single sequence MFE -29.13
Consensus MFE -26.79
Energy contribution -27.23
Covariance contribution 0.45
Combinations/Pair 1.04
Mean z-score -2.56
Structure conservation index 0.92
SVM decision value 1.45
SVM RNA-class probability 0.955108
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14938208 101 - 20766785
UGUUUUUGUUUUUUGGGUUUGGUCAAGCUCACGCAACACGGCGUGUGUGAGUGAGUAGUGUGUCUAUUUUGUUGUUAUGCUUCAUAGACAGUGGCGAAACU
...............(((((.((((.((((((...((((.....))))..))))))....(((((((...((......))...))))))).)))).))))) ( -29.60)
>DroSim_CAF1 24244 94 - 1
UGUUUUUGUUUUUUGGGUUUGGUCAAGCUCACGCAACACGGCGUGUGAGAG-------UGUGUCUAUUUUGUUGUUAUGCUUUAUAGACAGUGGCGGAACU
...............(((((.((((..(((((((........)))))))..-------..(((((((...((......))...))))))).)))).))))) ( -27.60)
>DroYak_CAF1 24420 101 - 1
UGUUUUUGUUUUUUGGGUUUGGUCAAGCUCACGCAACACGGUGUGUGUGAGUGUGUAGUGUGUCUAUUUUGUUGUUAUGCUUUAUAGACAGUGGCGGAACU
...............(((((.((((.(((((((((........)))))))))........(((((((...((......))...))))))).)))).))))) ( -30.20)
>consensus
UGUUUUUGUUUUUUGGGUUUGGUCAAGCUCACGCAACACGGCGUGUGUGAGUG_GUAGUGUGUCUAUUUUGUUGUUAUGCUUUAUAGACAGUGGCGGAACU
...............(((((.((((.(((((((((........)))))))))........(((((((...((......))...))))))).)))).))))) (-26.79 = -27.23 +   0.45)

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 11:23:21 2006