Locus 5010

Sequence ID X_DroMel_CAF1
Location 13,115,196 – 13,115,305
Length 109
Max. P 0.841633
window8159 window8160

overview

Window 9

Location 13,115,196 – 13,115,305
Length 109
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 79.30
Mean single sequence MFE -25.48
Consensus MFE -14.96
Energy contribution -15.52
Covariance contribution 0.56
Combinations/Pair 1.19
Mean z-score -1.80
Structure conservation index 0.59
SVM decision value 0.19
SVM RNA-class probability 0.625572
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13115196 109 + 22224390
-----UCCCACUGUACAGACCCACCAACC---CACCCAUUAUACCCCCCCACUUUUCGGCCCAAUGAGAGGAGCAACAAACGCACAGUGGUUCAAGCUGUGCAAAUAUUUAACUGAU
-----......(((((((....((((...---...................(((((((......))))))).((.......))....)))).....))))))).............. ( -19.80)
>DroSec_CAF1 16445 107 + 1
-----UCCCACUGUACAGAGCCACCAC-----CUCCCAUUAAACCCCCCCACUUUUCGGCCGAAUGAGAGGAGCAACAAACGCACAGUGGUUCAAGCUGUGCAAAUAUUUAACUGAU
-----......(((((((((((((..(-----(((.((((...((............))...)))).)))).((.......))...)))))))....)))))).............. ( -25.70)
>DroSim_CAF1 26855 107 + 1
-----UCCCACUGUACAGAGCCACCAC-----CCCCCAUUAAACCCCCCCACUUUUCGGCCGAAUGAGAGGAGCAACAAACGCACAGUGGUUCAAGCUGUGCAAAUAUUUAACUGAU
-----......(((((((....(((((-----...................(((((((......))))))).((.......))...))))).....))))))).............. ( -22.50)
>DroYak_CAF1 16615 111 + 1
-----UCCCACUGUACAGAGCCACCACCACGCCCCCCGGUGAAUCC-CCCUCUGUUCGGGCGAACGAGAGGAGCAACAAACGCACAGUGGUUCAAGCUGUGCAAAUAUUUAACUGAU
-----......(((((((....(((((..((((....)))).....-.(((((((((....)))).))))).((.......))...))))).....))))))).............. ( -32.20)
>DroAna_CAF1 22987 103 + 1
UAUUGUCCCACUGUA----GCCCCCCC------UACC----ACCCUACCCACCUCUAGACCAUGAAGCAGAAGCAACAAACGCACAGUGGGACAAGCUGUGUCAAUAUUUGAUUGAU
..((((((((((((.----((......------....----...(((........)))....((..((....))..))...)))))))))))))).....((((((.....)))))) ( -27.20)
>consensus
_____UCCCACUGUACAGAGCCACCAC_____CCCCCAUUAAACCCCCCCACUUUUCGGCCGAAUGAGAGGAGCAACAAACGCACAGUGGUUCAAGCUGUGCAAAUAUUUAACUGAU
.......(((((((.....................................(((((((......))))))).((.......)))))))))........................... (-14.96 = -15.52 +   0.56)

alignment

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secondary structure

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dotplot

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Window 0

Location 13,115,196 – 13,115,305
Length 109
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 79.30
Mean single sequence MFE -38.00
Consensus MFE -23.30
Energy contribution -24.74
Covariance contribution 1.44
Combinations/Pair 1.23
Mean z-score -1.99
Structure conservation index 0.61
SVM decision value 0.75
SVM RNA-class probability 0.841633
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13115196 109 - 22224390
AUCAGUUAAAUAUUUGCACAGCUUGAACCACUGUGCGUUUGUUGCUCCUCUCAUUGGGCCGAAAAGUGGGGGGGUAUAAUGGGUG---GGUUGGUGGGUCUGUACAGUGGGA-----
.((((((............))).))).((((((((((((..(((..((.(((((((.(((............))).))))))).)---)..)))..))..))))))))))..----- ( -31.40)
>DroSec_CAF1 16445 107 - 1
AUCAGUUAAAUAUUUGCACAGCUUGAACCACUGUGCGUUUGUUGCUCCUCUCAUUCGGCCGAAAAGUGGGGGGGUUUAAUGGGAG-----GUGGUGGCUCUGUACAGUGGGA-----
.((((((............))).))).((((((((((...((..(((((((((((..(((............)))..))))))))-----).))..))..))))))))))..----- ( -40.20)
>DroSim_CAF1 26855 107 - 1
AUCAGUUAAAUAUUUGCACAGCUUGAACCACUGUGCGUUUGUUGCUCCUCUCAUUCGGCCGAAAAGUGGGGGGGUUUAAUGGGGG-----GUGGUGGCUCUGUACAGUGGGA-----
.((((((............))).))).((((((((((...((..(((((((((((..(((............)))..))))))))-----).))..))..))))))))))..----- ( -39.30)
>DroYak_CAF1 16615 111 - 1
AUCAGUUAAAUAUUUGCACAGCUUGAACCACUGUGCGUUUGUUGCUCCUCUCGUUCGCCCGAACAGAGGG-GGAUUCACCGGGGGGCGUGGUGGUGGCUCUGUACAGUGGGA-----
.((((((............))).))).((((((((((...((..((((((((((((....)))).)))))-))...(((((.(...).))))))..))..))))))))))..----- ( -41.00)
>DroAna_CAF1 22987 103 - 1
AUCAAUCAAAUAUUGACACAGCUUGUCCCACUGUGCGUUUGUUGCUUCUGCUUCAUGGUCUAGAGGUGGGUAGGGU----GGUA------GGGGGGGC----UACAGUGGGACAAUA
.(((((.....)))))......((((((((((((((.(((.(((((((..((((........))))..))......----))))------).))).))----.)))))))))))).. ( -38.10)
>consensus
AUCAGUUAAAUAUUUGCACAGCUUGAACCACUGUGCGUUUGUUGCUCCUCUCAUUCGGCCGAAAAGUGGGGGGGUUUAAUGGGAG_____GUGGUGGCUCUGUACAGUGGGA_____
...........................((((((((((...((..((.((((((((.((((............)))).)))))))).......))..))..))))))))))....... (-23.30 = -24.74 +   1.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:05 2006