Locus 2283

Sequence ID 3L_DroMel_CAF1
Location 6,419,495 – 6,419,587
Length 92
Max. P 0.940885
window3528 window3529

overview

Window 8

Location 6,419,495 – 6,419,587
Length 92
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 79.41
Mean single sequence MFE -18.15
Consensus MFE -11.84
Energy contribution -13.53
Covariance contribution 1.70
Combinations/Pair 1.14
Mean z-score -1.33
Structure conservation index 0.65
SVM decision value 0.07
SVM RNA-class probability 0.569831
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6419495 92 + 23771897
GUUGCCUGUUCUUUGGCAAU-------UUU------UUUUUCGUAUACCUUUUUGCAACGAACAUUUGCAACAAUUUGUUAUUGGCCAUUUAAGCCGUUUGUUGU
((((((........))))))-------...------..................(((((((((....((((....))))....(((.......)))))))))))) ( -21.10)
>DroSec_CAF1 157504 93 + 1
GUUGCCUGUUCUUUGGCAAU-------UUUU-----UUUUUCGUACACCUUUUUGCAACGAACAUUUGCAACAAUUUGUUAUUGGCCAUUUAAGCCGCUUGUUGU
((((((........))))))-------....-----..................(((((((.(....((((....))))....(((.......)))).))))))) ( -16.90)
>DroSim_CAF1 163066 92 + 1
GUUGCCUGUUCUUUGGCAAU-------UUU------UUUUUCGUAUACCUUUUUGCAACGAACAUUUGCAACAAUUUGUUAUUGGCCAUUUAAGCCGCUUGUUGU
((((((........))))))-------...------..................(((((((.(....((((....))))....(((.......)))).))))))) ( -16.90)
>DroEre_CAF1 161796 92 + 1
GUUGCCUGUUCUCUGGUAAU-------UUUUUUUCAUUUUUCGUAUACCUCUUUGCAACGAACAUUUGCAACAAUUUGUUAUUGGCCAUUCAAGCCGUU------
(((((.(((((..(((.((.-------...)).)))......(((........)))...)))))...)))))...........(((.......)))...------ ( -14.40)
>DroYak_CAF1 170707 105 + 1
GUUGCCUGUUCUUUGGUACUUGGUUUUUUUUUUAUAUUUUUCGUAUAACUCUUUGCAACGAACAUUUGCAACAAUUUGUUAUUGGCCAUUUAAGCCGUUUGUUGU
..((((........)))).............((((((.....))))))......(((((((((....((((....))))....(((.......)))))))))))) ( -18.10)
>DroPer_CAF1 208940 92 + 1
GCUGUGUGUA----GACGUU-GUU---GUUGUUCUUUUUGGCGGGGAAC-----GAAACGAACAUUUGCAACAAUUUGUUAUUGGCCAUUUAAACCGUUUGCUGU
.......(((----((((((-(((---(((((((.(((((........)-----)))).)))))...))))))))........((.........))))))))... ( -21.50)
>consensus
GUUGCCUGUUCUUUGGCAAU_______UUUU_____UUUUUCGUAUACCUUUUUGCAACGAACAUUUGCAACAAUUUGUUAUUGGCCAUUUAAGCCGUUUGUUGU
((((((........))))))..................................(((((((((....((((....))))....(((.......)))))))))))) (-11.84 = -13.53 +   1.70)

alignment

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secondary structure

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dotplot

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Window 9

Location 6,419,495 – 6,419,587
Length 92
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 79.41
Mean single sequence MFE -17.12
Consensus MFE -12.37
Energy contribution -12.59
Covariance contribution 0.22
Combinations/Pair 1.14
Mean z-score -2.21
Structure conservation index 0.72
SVM decision value 1.31
SVM RNA-class probability 0.940885
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6419495 92 - 23771897
ACAACAAACGGCUUAAAUGGCCAAUAACAAAUUGUUGCAAAUGUUCGUUGCAAAAAGGUAUACGAAAAA------AAA-------AUUGCCAAAGAACAGGCAAC
.........((((.....))))...........(((((...(((((...((((................------...-------.))))....))))).))))) ( -18.85)
>DroSec_CAF1 157504 93 - 1
ACAACAAGCGGCUUAAAUGGCCAAUAACAAAUUGUUGCAAAUGUUCGUUGCAAAAAGGUGUACGAAAAA-----AAAA-------AUUGCCAAAGAACAGGCAAC
.........((((.....))))....(((..((.((((((.......)))))).))..)))........-----....-------.(((((........))))). ( -19.40)
>DroSim_CAF1 163066 92 - 1
ACAACAAGCGGCUUAAAUGGCCAAUAACAAAUUGUUGCAAAUGUUCGUUGCAAAAAGGUAUACGAAAAA------AAA-------AUUGCCAAAGAACAGGCAAC
.......((((((.....))))...(((.....))))).....((((((((......))).)))))...------...-------.(((((........))))). ( -19.00)
>DroEre_CAF1 161796 92 - 1
------AACGGCUUGAAUGGCCAAUAACAAAUUGUUGCAAAUGUUCGUUGCAAAGAGGUAUACGAAAAAUGAAAAAAA-------AUUACCAGAGAACAGGCAAC
------...((((.....))))...........(((((...(((((.((.....))((((..................-------..))))...))))).))))) ( -17.85)
>DroYak_CAF1 170707 105 - 1
ACAACAAACGGCUUAAAUGGCCAAUAACAAAUUGUUGCAAAUGUUCGUUGCAAAGAGUUAUACGAAAAAUAUAAAAAAAAAACCAAGUACCAAAGAACAGGCAAC
.........((((.....))))...........(((((...(((((.(((......(((.....................))).......))).))))).))))) ( -15.92)
>DroPer_CAF1 208940 92 - 1
ACAGCAAACGGUUUAAAUGGCCAAUAACAAAUUGUUGCAAAUGUUCGUUUC-----GUUCCCCGCCAAAAAGAACAAC---AAC-AACGUC----UACACACAGC
...((....((((.....)))).........((((((....(((((.(((.-----((.....)).)))..))))).)---)))-))....----........)) ( -11.70)
>consensus
ACAACAAACGGCUUAAAUGGCCAAUAACAAAUUGUUGCAAAUGUUCGUUGCAAAAAGGUAUACGAAAAA_____AAAA_______AUUGCCAAAGAACAGGCAAC
.........((((.....))))...........(((((...(((((................................................))))).))))) (-12.37 = -12.59 +   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 10:28:37 2006