Locus 6399

Sequence ID X_DroMel_CAF1
Location 16,048,151 – 16,048,418
Length 267
Max. P 0.998843
window10446 window10447 window10448 window10449 window10450

overview

Window 6

Location 16,048,151 – 16,048,243
Length 92
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 70.89
Mean single sequence MFE -32.37
Consensus MFE -24.51
Energy contribution -24.73
Covariance contribution 0.23
Combinations/Pair 1.09
Mean z-score -1.80
Structure conservation index 0.76
SVM decision value 3.25
SVM RNA-class probability 0.998843
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16048151 92 - 22224390
AGGCAAUGUGCACUUACACAAGUAAUGCGCCAGUGUUAGUGUACAGUGGGCCUUGGCUACGACAGAAA---UUGGG-------------------UGCAUA------GGAACCAAAAUGA
((((..((((((((.((((..((.....))..)))).))))))))....))))...............---...((-------------------(.....------...)))....... ( -24.80)
>DroSim_CAF1 93891 111 - 1
AGGCAAUGGGCACUUACACAAGUAAUGCGCCAGUGUGAGUGUACAGUGGGCCCUGGCUACGUCAGAAU---UUGGGAGAUCCAAACAAGACUAUUUGCAUA------GGAACCAAAAUGA
......((..(((((((((..((.....))..)))))))))..)).(((..((((((...(((....(---((((.....)))))...))).....)).))------))..)))...... ( -32.00)
>DroYak_CAF1 98210 116 - 1
AGGCAAUGUGCACUUACACGCGCACUGCGCCAGUGUGAGUGUACAGUGGGUCUUGGCUACGCUGCACUUCUUCGGCAGAUCAAAGCAAAAG----UGCAAACAAACUGGAGUCAAAAUGU
.(((..(((((((((((((((((...))))..)))))))))))))....)))((((((....(((((((.....((........))..)))----))))..(.....).))))))..... ( -40.30)
>consensus
AGGCAAUGUGCACUUACACAAGUAAUGCGCCAGUGUGAGUGUACAGUGGGCCUUGGCUACGACAGAAU___UUGGGAGAUC_AA_CAA_A_____UGCAUA______GGAACCAAAAUGA
..(((.(((((((((((((..((.....))..)))))))))))))((((.(....)))))...................................)))...................... (-24.51 = -24.73 +   0.23)

alignment

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secondary structure

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dotplot

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Window 7

Location 16,048,170 – 16,048,283
Length 113
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 86.27
Mean single sequence MFE -37.10
Consensus MFE -31.68
Energy contribution -32.02
Covariance contribution 0.34
Combinations/Pair 1.10
Mean z-score -2.39
Structure conservation index 0.85
SVM decision value 1.11
SVM RNA-class probability 0.917016
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16048170 113 - 22224390
AGAACCGAAAAAGCUGUAAAAGAUUUCGCUCGAGUAAAUGAGGCAAUGUGCACUUACACAAGUAAUGCGCCAGUGUUAGUGUACAGUGGGCCUUGGCUACGACAGAAA---UUGGG----
....((((.....((((........((....))(((..((((((..((((((((.((((..((.....))..)))).))))))))....))))))..))).))))...---)))).---- ( -33.80)
>DroSim_CAF1 93925 117 - 1
AGAACCGAAAAAGCUGUAAAAGAUUUCGCUCAAGUAAAUGAGGCAAUGGGCACUUACACAAGUAAUGCGCCAGUGUGAGUGUACAGUGGGCCCUGGCUACGUCAGAAU---UUGGGAGAU
.....(((((...((.....)).)))))(((((((......(((..((..(((((((((..((.....))..)))))))))..))....)))(((((...))))).))---))))).... ( -34.00)
>DroYak_CAF1 98246 120 - 1
AGAACCGAAAAAGCUGUAAAAGAUUUCGCUCAAGUAAAUGAGGCAAUGUGCACUUACACGCGCACUGCGCCAGUGUGAGUGUACAGUGGGUCUUGGCUACGCUGCACUUCUUCGGCAGAU
....(((((.(((.((((...((......))..(((..((((((..(((((((((((((((((...))))..)))))))))))))....))))))..)))..))))))).)))))..... ( -43.50)
>consensus
AGAACCGAAAAAGCUGUAAAAGAUUUCGCUCAAGUAAAUGAGGCAAUGUGCACUUACACAAGUAAUGCGCCAGUGUGAGUGUACAGUGGGCCUUGGCUACGACAGAAU___UUGGGAGAU
....((((...(((.............)))...(((..((((((..(((((((((((((..((.....))..)))))))))))))....))))))..)))...........))))..... (-31.68 = -32.02 +   0.34)

alignment

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secondary structure

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dotplot

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Window 8

Location 16,048,283 – 16,048,393
Length 110
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 91.43
Mean single sequence MFE -38.73
Consensus MFE -36.97
Energy contribution -36.97
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.98
Structure conservation index 0.95
SVM decision value 1.10
SVM RNA-class probability 0.914613
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16048283 110 + 22224390
UCUGGCCAUUAAAAUCGCCUCUGACAACGUCGACGGCGACGACAACAUGCGGCGAUCAGUGUCGGACUUCGACUUUGGAUC----------CGAUCGGUCGGAGUUAAAGCCAAAACCAA
..((((((((...((((((.(((....(((((....)))))....)).).)))))).))))...(((((((((((((....----------)))..))))))))))...))))....... ( -36.60)
>DroSim_CAF1 94042 106 + 1
UCUGGCCAUUAAAAUCGCCUCUGACAACGUCGACGGCGACGACAACAUGCGGCGAUCAGUGUCGGACUUCGACUUUGGAUC----------GGAUCGGUCGGAGUUAAAGCCAAAA----
..((((((((...((((((.(((....(((((....)))))....)).).)))))).))))...((((((((((...(((.----------..)))))))))))))...))))...---- ( -34.00)
>DroYak_CAF1 98366 120 + 1
UCUGGCCAUUAAAAUCGCCUCUGACAACGUCGACGGCGACGACAACAUGCGGCGAUCAGUGUCGGACUUCGACUUUGGAUCCGAUCCGAUCGGAUCGGUCGGAGUUAAAGCCAAAACCAA
..((((((((...((((((.(((....(((((....)))))....)).).)))))).))))...((((((((((...((((((((...))))))))))))))))))...))))....... ( -45.60)
>consensus
UCUGGCCAUUAAAAUCGCCUCUGACAACGUCGACGGCGACGACAACAUGCGGCGAUCAGUGUCGGACUUCGACUUUGGAUC__________GGAUCGGUCGGAGUUAAAGCCAAAACCAA
..((((((((...((((((.(((....(((((....)))))....)).).)))))).))))...((((((((((...((((...........))))))))))))))...))))....... (-36.97 = -36.97 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 9

Location 16,048,323 – 16,048,418
Length 95
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 78.51
Mean single sequence MFE -27.67
Consensus MFE -21.37
Energy contribution -21.37
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.55
Structure conservation index 0.77
SVM decision value 0.64
SVM RNA-class probability 0.808329
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16048323 95 + 22224390
GACAACAUGCGGCGAUCAGUGUCGGACUUCGACUUUGGAUC----------CGAUCGGUCGGAGUUAAAGCCAAAACCAAAACCAAAAGCAAAGCUAAAGCCAGA---------------
........((((((((....))).(((((((((((((....----------)))..))))))))))...)))...............(((...)))...))....--------------- ( -22.30)
>DroSim_CAF1 94082 89 + 1
GACAACAUGCGGCGAUCAGUGUCGGACUUCGACUUUGGAUC----------GGAUCGGUCGGAGUUAAAGCCAAAA------CCAAAAGCCAAGCUAAAGCCGCA---------------
.......((((((..........((.(((..((((((.(((----------(...))))))))))..)))))....------.....(((...)))...))))))--------------- ( -26.10)
>DroYak_CAF1 98406 120 + 1
GACAACAUGCGGCGAUCAGUGUCGGACUUCGACUUUGGAUCCGAUCCGAUCGGAUCGGUCGGAGUUAAAGCCAAAACCAAAACCAAAACCAAAGCUAAAGCCAGAGCCAGAGUCAAAAGA
(((.......((((((....))).((((((((((...((((((((...))))))))))))))))))...))).....................(((........)))....)))...... ( -34.60)
>consensus
GACAACAUGCGGCGAUCAGUGUCGGACUUCGACUUUGGAUC__________GGAUCGGUCGGAGUUAAAGCCAAAACCAAAACCAAAAGCAAAGCUAAAGCCAGA_______________
..........((((((....))).((((((((((...((((...........))))))))))))))...))).....................((....))................... (-21.37 = -21.37 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 0

Location 16,048,323 – 16,048,418
Length 95
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 78.51
Mean single sequence MFE -31.50
Consensus MFE -18.80
Energy contribution -20.47
Covariance contribution 1.67
Combinations/Pair 1.00
Mean z-score -1.75
Structure conservation index 0.60
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16048323 95 - 22224390
---------------UCUGGCUUUAGCUUUGCUUUUGGUUUUGGUUUUGGCUUUAACUCCGACCGAUCG----------GAUCCAAAGUCGAAGUCCGACACUGAUCGCCGCAUGUUGUC
---------------...(((..((((...((..(..((.((((((((((((((...(((((....)))----------))...)))))))))).)))).))..)..)).)).))..))) ( -28.70)
>DroSim_CAF1 94082 89 - 1
---------------UGCGGCUUUAGCUUGGCUUUUGG------UUUUGGCUUUAACUCCGACCGAUCC----------GAUCCAAAGUCGAAGUCCGACACUGAUCGCCGCAUGUUGUC
---------------((((((........((...((((------((..((......))..)))))).))----------((((....((((.....))))...))))))))))....... ( -26.80)
>DroYak_CAF1 98406 120 - 1
UCUUUUGACUCUGGCUCUGGCUUUAGCUUUGGUUUUGGUUUUGGUUUUGGCUUUAACUCCGACCGAUCCGAUCGGAUCGGAUCCAAAGUCGAAGUCCGACACUGAUCGCCGCAUGUUGUC
......(((....((...(((.((((..(((((((((..(((((..((((........))))(((((((....)))))))..)))))..))))).))))..))))..))))).....))) ( -39.00)
>consensus
_______________UCUGGCUUUAGCUUUGCUUUUGGUUUUGGUUUUGGCUUUAACUCCGACCGAUCC__________GAUCCAAAGUCGAAGUCCGACACUGAUCGCCGCAUGUUGUC
..................(((((..((((((.....((((..((((........))))..))))((((...........))))))))))..)))))(((((.((.......))))))).. (-18.80 = -20.47 +   1.67)

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 12:12:47 2006