Locus 2360

Sequence ID 3L_DroMel_CAF1
Location 6,621,945 – 6,622,065
Length 120
Max. P 0.698179
window3638 window3639

overview

Window 8

Location 6,621,945 – 6,622,065
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 91.11
Mean single sequence MFE -35.63
Consensus MFE -25.41
Energy contribution -25.20
Covariance contribution -0.21
Combinations/Pair 1.12
Mean z-score -2.57
Structure conservation index 0.71
SVM decision value 0.01
SVM RNA-class probability 0.540630
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6621945 120 + 23771897
GACAAAGGUGGUCUGGAAAACAGGACGGCAACUGGAAUGGCCGUUGAAACUUUUUUCCAAGUGCCAUUUGGCAUACAAAGAGAGAUGAUAAGAGUGAAACACUCAAGUAUGCCCCUCAUA
.....(((((((((((((((.((((((((..........))))))....)).)))))).)).)))))))(((((((.........(....)(((((...)))))..)))))))....... ( -34.10)
>DroSim_CAF1 4309 120 + 1
AACAAAGGUGCUCUGGAAAACAGGACGGCAAAUGGAAUGGCCGUUGAAACUUUUUUCCAAGUGCCAUUUGGCAUACAAAGAGAGAUGAUAAGAGUGAAACACUCAAGUAUGCCCCUUAUA
......((..((.(((((((.((((((((..........))))))....)).)))))))))..))....(((((((.........(....)(((((...)))))..)))))))....... ( -36.50)
>DroYak_CAF1 928 120 + 1
GACAAAGCUAGUCGGGAACACAGGAGAGCAUCUGGGAUGGCCGUUGAAACUUUUUUUCAAGUGCCAUUUGGCAUACAAAGACAGAUGAUAAGAGUGAAACACUCAAGUGUGCCCCUUGUA
(((.......)))(((.((((.......(((((((((((((..((((((.....))))))..)))))))(.....).....))))))....(((((...)))))..))))..)))..... ( -36.30)
>consensus
GACAAAGGUGGUCUGGAAAACAGGACGGCAACUGGAAUGGCCGUUGAAACUUUUUUCCAAGUGCCAUUUGGCAUACAAAGAGAGAUGAUAAGAGUGAAACACUCAAGUAUGCCCCUUAUA
......(.((.((((.....)))).)).).....((((((((...((((....))))...).)))))))(((((((.........(....)(((((...)))))..)))))))....... (-25.41 = -25.20 +  -0.21)

alignment

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secondary structure

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dotplot

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Window 9

Location 6,621,945 – 6,622,065
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 91.11
Mean single sequence MFE -32.24
Consensus MFE -25.96
Energy contribution -25.96
Covariance contribution 0.01
Combinations/Pair 1.10
Mean z-score -2.33
Structure conservation index 0.81
SVM decision value 0.35
SVM RNA-class probability 0.698179
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6621945 120 - 23771897
UAUGAGGGGCAUACUUGAGUGUUUCACUCUUAUCAUCUCUCUUUGUAUGCCAAAUGGCACUUGGAAAAAAGUUUCAACGGCCAUUCCAGUUGCCGUCCUGUUUUCCAGACCACCUUUGUC
...(((((((((((..(((.(...............).)))...)))))))...(((...((((((((.((.....(((((.((....)).))))).)).)))))))).))))))).... ( -32.96)
>DroSim_CAF1 4309 120 - 1
UAUAAGGGGCAUACUUGAGUGUUUCACUCUUAUCAUCUCUCUUUGUAUGCCAAAUGGCACUUGGAAAAAAGUUUCAACGGCCAUUCCAUUUGCCGUCCUGUUUUCCAGAGCACCUUUGUU
...(((((((((((..(((.(...............).)))...)))))))....((((..(((((....((....)).....)))))..))))(..(((.....)))..).)))).... ( -32.26)
>DroYak_CAF1 928 120 - 1
UACAAGGGGCACACUUGAGUGUUUCACUCUUAUCAUCUGUCUUUGUAUGCCAAAUGGCACUUGAAAAAAAGUUUCAACGGCCAUCCCAGAUGCUCUCCUGUGUUCCCGACUAGCUUUGUC
.....((((((((...(((((...)))))....((((((...(((.....)))(((((..((((((.....))))))..)))))..))))))......)))))))).(((.......))) ( -31.50)
>consensus
UAUAAGGGGCAUACUUGAGUGUUUCACUCUUAUCAUCUCUCUUUGUAUGCCAAAUGGCACUUGGAAAAAAGUUUCAACGGCCAUUCCAGUUGCCGUCCUGUUUUCCAGACCACCUUUGUC
.(((((((((((((..(((((...)))))...............))))))).((((((..((((((.....))))))..))))))............................)))))). (-25.96 = -25.96 +   0.01)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:30:22 2006