Locus 4685

Sequence ID 3L_DroMel_CAF1
Location 13,224,028 – 13,224,121
Length 93
Max. P 0.923127
window7382 window7383

overview

Window 2

Location 13,224,028 – 13,224,121
Length 93
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 93.71
Mean single sequence MFE -25.50
Consensus MFE -20.92
Energy contribution -21.78
Covariance contribution 0.86
Combinations/Pair 1.04
Mean z-score -2.67
Structure conservation index 0.82
SVM decision value 1.07
SVM RNA-class probability 0.909993
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13224028 93 + 23771897
CUGGUUUGGCAUUCUCCAAAUGCCUU-----UUUUGUGGGUUAACGCCCACGGCCAGAAAUUUGAAUAAUCUGCUGCCGUAAUAUCGCCAAUUUAUCA
.((((..((((((.....))))))..-----....((((((....))))))(((((((...........))))..)))........))))........ ( -25.60)
>DroSec_CAF1 17429 92 + 1
CUGGUUUGGCAUUCUCCAAAUGCCUU------UUUGUGGGUUAACGCCCACGGCCAGAAAUUUGAAUAAUCUGCUGCCGUAAUAUCGCCAAUUUAUCA
.((((..((((((.....))))))..------...((((((....))))))(((((((...........))))..)))........))))........ ( -25.60)
>DroSim_CAF1 22440 90 + 1
CUGGUUUGGCAUUCUCCAAAUGCCUU-------UUGUGGGUUAACGCCCACGGCCAGA-AUUUGAAUAAUCUGCUGCCGUAAUAUCGCCAAUUUAUCA
.((((..((((((.....))))))..-------..((((((....))))))(((((((-..........))))..)))........))))........ ( -25.70)
>DroEre_CAF1 7126 92 + 1
CUGGUUUGGCAUUCUUCAAAUGCCUU------UUUGUGGGUUAACGCCCACGGCCAGAUAUUUGAAUAAUCUGCUGCCGUAAUAUCGCCAAUUUAUCA
.((((..((((((.....))))))..------...((((((....))))))((((((((.........)))))..)))........))))........ ( -27.10)
>DroYak_CAF1 17408 92 + 1
CUGGUUUGGCAUUCUCCAAAUGCCUU------UUUGUGGGUUAACGCCCACGGCCAGAUAUUUGAAUAAUCUGCUGCCGUAAUAUCGCCAAUUUAUCA
.((((..((((((.....))))))..------...((((((....))))))((((((((.........)))))..)))........))))........ ( -27.10)
>DroAna_CAF1 104913 98 + 1
CUGGUUUGGCAUUCUCCAAACGCUUUUUUUUUUUUGUGGGUUAACGCCCACACGAAAAAAUUUGAAUAAUCUGCUGCCGUAAUAUCGCCAAUUUAUCA
.((((.(((((...........(...(((((((.(((((((....))))))).)))))))...)..........))))).......))))........ ( -21.90)
>consensus
CUGGUUUGGCAUUCUCCAAAUGCCUU______UUUGUGGGUUAACGCCCACGGCCAGAAAUUUGAAUAAUCUGCUGCCGUAAUAUCGCCAAUUUAUCA
.((((..((((((.....))))))...........((((((....))))))(((((((...........))))..)))........))))........ (-20.92 = -21.78 +   0.86)

alignment

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secondary structure

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dotplot

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Window 3

Location 13,224,028 – 13,224,121
Length 93
Sequences 6
Columns 98
Reading direction reverse
Mean pairwise identity 93.71
Mean single sequence MFE -25.48
Consensus MFE -21.66
Energy contribution -21.88
Covariance contribution 0.22
Combinations/Pair 1.08
Mean z-score -2.21
Structure conservation index 0.85
SVM decision value 1.15
SVM RNA-class probability 0.923127
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13224028 93 - 23771897
UGAUAAAUUGGCGAUAUUACGGCAGCAGAUUAUUCAAAUUUCUGGCCGUGGGCGUUAACCCACAAAA-----AAGGCAUUUGGAGAAUGCCAAACCAG
.......((((((...(((((((..((((...........))))))))))).)))))).........-----..(((((((...)))))))....... ( -25.30)
>DroSec_CAF1 17429 92 - 1
UGAUAAAUUGGCGAUAUUACGGCAGCAGAUUAUUCAAAUUUCUGGCCGUGGGCGUUAACCCACAAA------AAGGCAUUUGGAGAAUGCCAAACCAG
.......((((((...(((((((..((((...........))))))))))).))))))........------..(((((((...)))))))....... ( -25.30)
>DroSim_CAF1 22440 90 - 1
UGAUAAAUUGGCGAUAUUACGGCAGCAGAUUAUUCAAAU-UCUGGCCGUGGGCGUUAACCCACAA-------AAGGCAUUUGGAGAAUGCCAAACCAG
.......((((((...(((((((..((((..........-))))))))))).)))))).......-------..(((((((...)))))))....... ( -25.40)
>DroEre_CAF1 7126 92 - 1
UGAUAAAUUGGCGAUAUUACGGCAGCAGAUUAUUCAAAUAUCUGGCCGUGGGCGUUAACCCACAAA------AAGGCAUUUGAAGAAUGCCAAACCAG
.......((((((...(((((((..(((((.........)))))))))))).))))))........------..(((((((...)))))))....... ( -26.30)
>DroYak_CAF1 17408 92 - 1
UGAUAAAUUGGCGAUAUUACGGCAGCAGAUUAUUCAAAUAUCUGGCCGUGGGCGUUAACCCACAAA------AAGGCAUUUGGAGAAUGCCAAACCAG
.......((((((...(((((((..(((((.........)))))))))))).))))))........------..(((((((...)))))))....... ( -26.30)
>DroAna_CAF1 104913 98 - 1
UGAUAAAUUGGCGAUAUUACGGCAGCAGAUUAUUCAAAUUUUUUCGUGUGGGCGUUAACCCACAAAAAAAAAAAAGCGUUUGGAGAAUGCCAAACCAG
........((.((......)).))((.((....))...((((((..((((((......))))))..))))))...))((((((......))))))... ( -24.30)
>consensus
UGAUAAAUUGGCGAUAUUACGGCAGCAGAUUAUUCAAAUUUCUGGCCGUGGGCGUUAACCCACAAA______AAGGCAUUUGGAGAAUGCCAAACCAG
((((...(((.((......)).)))...)))).........((((..(((((......)))))...........(((((((...)))))))...)))) (-21.66 = -21.88 +   0.22)

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 11:30:44 2006