Locus 851

Sequence ID 3R_DroMel_CAF1
Location 2,887,882 – 2,888,039
Length 157
Max. P 0.914487
window1354 window1355 window1356 window1357

overview

Window 4

Location 2,887,882 – 2,888,002
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 85.83
Mean single sequence MFE -29.06
Consensus MFE -21.50
Energy contribution -22.17
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -2.84
Structure conservation index 0.74
SVM decision value 1.10
SVM RNA-class probability 0.914487
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2887882 120 + 27905053
ACACUUACUGUGAUAAUUACGUCAAAUACAGGCCCAUUUACUUCCCAGUUUUCGGAACAUAAUGGCGCAGAUCGGGUCGAAAUCCUCUUAGUUUUUGCAUUUUAACCCGAUUUGUUCUUA
.......(((((((......)))....))))(((.(((...((((........))))...))))))(((((((((((..((((.(...........).))))..)))))))))))..... ( -29.50)
>DroEre_CAF1 1398 120 + 1
ACACUUACUGUGAUAUUUACGUCAAAUGCUGGCCCAUUUAUUUUCCAGUUUUUGGAAUAUCAUGGCGCAGAUCGGGUCAAAAUCCUCUUAGUUUUCGCCUUUUAACCCGAUUUGUUUUUA
.......(((((((((((....((((.(((((............))))).))))))))))))))).(((((((((((.((((.................)))).)))))))))))..... ( -31.53)
>DroYak_CAF1 21906 115 + 1
ACA----CUGUGAUAAUUACGUCA-UUGCAUGCCCAUUUAUUUUCCAGUUUUAGGAAUAUCAUGGCGCAGAUCGGGUCAAAAUCAUCCUAAUUUUUGCAUUUCAACCCGAUUUGUUUCUU
...----..(((((......))))-).....(((........((((.......))))......)))(((((((((((..((((((..........)).))))..)))))))))))..... ( -26.14)
>consensus
ACACUUACUGUGAUAAUUACGUCAAAUGCAGGCCCAUUUAUUUUCCAGUUUUAGGAAUAUCAUGGCGCAGAUCGGGUCAAAAUCCUCUUAGUUUUUGCAUUUUAACCCGAUUUGUUUUUA
..........((((......)))).......(((........((((.......))))......)))(((((((((((..((((...............))))..)))))))))))..... (-21.50 = -22.17 +   0.67)

alignment

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secondary structure

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dotplot

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Window 5

Location 2,887,882 – 2,888,002
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 85.83
Mean single sequence MFE -27.40
Consensus MFE -22.33
Energy contribution -23.00
Covariance contribution 0.67
Combinations/Pair 1.08
Mean z-score -1.80
Structure conservation index 0.81
SVM decision value 0.19
SVM RNA-class probability 0.626810
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2887882 120 - 27905053
UAAGAACAAAUCGGGUUAAAAUGCAAAAACUAAGAGGAUUUCGACCCGAUCUGCGCCAUUAUGUUCCGAAAACUGGGAAGUAAAUGGGCCUGUAUUUGACGUAAUUAUCACAGUAAGUGU
((((.(((.(((((((..((((.(...........).))))..)))))))..((.(((((((.(((((.....))))).)).))))))).))).))))..........(((.....))). ( -26.70)
>DroEre_CAF1 1398 120 - 1
UAAAAACAAAUCGGGUUAAAAGGCGAAAACUAAGAGGAUUUUGACCCGAUCUGCGCCAUGAUAUUCCAAAAACUGGAAAAUAAAUGGGCCAGCAUUUGACGUAAAUAUCACAGUAAGUGU
.........((((((((((((..(...........)..))))))))))))(((.(((...((.(((((.....))))).)).....))))))((((((..((.......))..)))))). ( -29.10)
>DroYak_CAF1 21906 115 - 1
AAGAAACAAAUCGGGUUGAAAUGCAAAAAUUAGGAUGAUUUUGACCCGAUCUGCGCCAUGAUAUUCCUAAAACUGGAAAAUAAAUGGGCAUGCAA-UGACGUAAUUAUCACAG----UGU
..((.....(((((((..((((.((..........))))))..))))))).(((.((((....((((.......)))).....))))))).....-...........))....----... ( -26.40)
>consensus
UAAAAACAAAUCGGGUUAAAAUGCAAAAACUAAGAGGAUUUUGACCCGAUCUGCGCCAUGAUAUUCCAAAAACUGGAAAAUAAAUGGGCCUGCAUUUGACGUAAUUAUCACAGUAAGUGU
.....((..(((((((((((((.(...........).)))))))))))))..((.((((....((((.......)))).....))))))...........)).................. (-22.33 = -23.00 +   0.67)

alignment

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secondary structure

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dotplot

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Window 6

Location 2,887,922 – 2,888,039
Length 117
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 86.63
Mean single sequence MFE -26.30
Consensus MFE -21.96
Energy contribution -22.19
Covariance contribution 0.23
Combinations/Pair 1.14
Mean z-score -2.51
Structure conservation index 0.83
SVM decision value 1.09
SVM RNA-class probability 0.913699
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2887922 117 + 27905053
CUUCCCAGUUUUCGGAACAUAAUGGCGCAGAUCGGGUCGAAAUCCUCUUAGUUUUUGCAUUUUAACCCGAUUUGUUCUUAAAAUUAUCUGUUAAAUUUUGGAACCAA-AGCAUA--AAAA
.((((.(((((.((((.......((.(((((((((((..((((.(...........).))))..))))))))))).))........))))..)))))..))))....-......--.... ( -27.16)
>DroEre_CAF1 1438 119 + 1
UUUUCCAGUUUUUGGAAUAUCAUGGCGCAGAUCGGGUCAAAAUCCUCUUAGUUUUCGCCUUUUAACCCGAUUUGUUUUUAAAAUUAUCCGUUAAAUUUUGGAACCAA-ACCAUAAACAAA
.......((((.(((...........(((((((((((.((((.................)))).)))))))))))((((((((((........))))))))))....-.))).))))... ( -25.63)
>DroYak_CAF1 21941 120 + 1
UUUUCCAGUUUUAGGAAUAUCAUGGCGCAGAUCGGGUCAAAAUCAUCCUAAUUUUUGCAUUUCAACCCGAUUUGUUUCUUAAAUUAUCUGUAAAAUUUUGGAACCAAUACCUUACAAAAA
..(((((((((((.(.(((....((.(((((((((((..((((((..........)).))))..))))))))))).))......))).).))))))..)))))................. ( -26.10)
>consensus
UUUUCCAGUUUUAGGAAUAUCAUGGCGCAGAUCGGGUCAAAAUCCUCUUAGUUUUUGCAUUUUAACCCGAUUUGUUUUUAAAAUUAUCUGUUAAAUUUUGGAACCAA_ACCAUA_AAAAA
..((((((..((((((.......((.(((((((((((..((((...............))))..))))))))))).))........))))...))..))))))................. (-21.96 = -22.19 +   0.23)

alignment

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secondary structure

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dotplot

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Window 7

Location 2,887,922 – 2,888,039
Length 117
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 86.63
Mean single sequence MFE -26.77
Consensus MFE -19.83
Energy contribution -20.83
Covariance contribution 1.00
Combinations/Pair 1.07
Mean z-score -1.88
Structure conservation index 0.74
SVM decision value -0.04
SVM RNA-class probability 0.514332
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2887922 117 - 27905053
UUUU--UAUGCU-UUGGUUCCAAAAUUUAACAGAUAAUUUUAAGAACAAAUCGGGUUAAAAUGCAAAAACUAAGAGGAUUUCGACCCGAUCUGCGCCAUUAUGUUCCGAAAACUGGGAAG
....--...((.-...((((.((((((........))))))..))))..(((((((..((((.(...........).))))..)))))))..)).........((((........)))). ( -22.70)
>DroEre_CAF1 1438 119 - 1
UUUGUUUAUGGU-UUGGUUCCAAAAUUUAACGGAUAAUUUUAAAAACAAAUCGGGUUAAAAGGCGAAAACUAAGAGGAUUUUGACCCGAUCUGCGCCAUGAUAUUCCAAAAACUGGAAAA
.....(((((((-.....(((..........)))............((.((((((((((((..(...........)..)))))))))))).)).)))))))..(((((.....))))).. ( -28.20)
>DroYak_CAF1 21941 120 - 1
UUUUUGUAAGGUAUUGGUUCCAAAAUUUUACAGAUAAUUUAAGAAACAAAUCGGGUUGAAAUGCAAAAAUUAGGAUGAUUUUGACCCGAUCUGCGCCAUGAUAUUCCUAAAACUGGAAAA
..((((((((((.(((....))).))))))))))............((.(((((((..((((.((..........))))))..))))))).))..........((((.......)))).. ( -29.40)
>consensus
UUUUU_UAUGGU_UUGGUUCCAAAAUUUAACAGAUAAUUUUAAAAACAAAUCGGGUUAAAAUGCAAAAACUAAGAGGAUUUUGACCCGAUCUGCGCCAUGAUAUUCCAAAAACUGGAAAA
..............((((...((((((........)))))).....((.(((((((((((((.(...........).))))))))))))).)).)))).....((((.......)))).. (-19.83 = -20.83 +   1.00)

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 09:53:47 2006