Locus 3846

Sequence ID 3L_DroMel_CAF1
Location 11,145,588 – 11,145,691
Length 103
Max. P 0.572770
window5990 window5991

overview

Window 0

Location 11,145,588 – 11,145,691
Length 103
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 81.50
Mean single sequence MFE -28.15
Consensus MFE -19.74
Energy contribution -19.38
Covariance contribution -0.35
Combinations/Pair 1.33
Mean z-score -1.28
Structure conservation index 0.70
SVM decision value -0.02
SVM RNA-class probability 0.524288
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11145588 103 + 23771897
AGCCAGGAAUAAUUUCGAGCACAUCAUGGGCACCCUGAAGGAGAUGCCCAGAAGCAUGUUGUUCGUGGUAAGUUUUGUAGCUAUAUGCAUAUACU--UGUUAUCA
.((((.(((((((.....((...((.(((((((((....)).).)))))))).))..))))))).))))((((..((((......))))...)))--)....... ( -30.50)
>DroSec_CAF1 6541 103 + 1
AGCCAGGAACAACUUCGAGCACAUCAUGGGCACCCUGAAGGAGAUGCCCCGAAGCAUGUUGUUCGUGGUAAAUUUUGUAGCUAUAUAUACACACU--UGUUAUCA
.((((.((((((((((((.....))..((((((((....)).).))))).)))....))))))).))))......((((........))))....--........ ( -28.10)
>DroSim_CAF1 6589 103 + 1
AGCCAGGAACAACUUCGAGCACAUCAUGGGCACCCUGAAGGAGAUGCCCCGAAGCAUGUUGUUCGUGGUAAGUUUUGUAGCUAUAUAUACUCACU--UGUUAUCA
.((((.((((((((((((.....))..((((((((....)).).))))).)))....))))))).))))((((...(((........)))..)))--)....... ( -29.10)
>DroEre_CAF1 6612 101 + 1
AGCCAGGAACAACUUCGAGCAUAUCAUGGGCACCCUGAAGGAGAUGCCCAGGAGCAUGCUGUUCGUGGUGAGUGUUGUAGCAUUCCAUA--CACG--UGGUAUUA
.((((.(((((.......((((.((.(((((((((....)).).)))))).))..))))))))).))))((((((....)))))).(((--(...--..)))).. ( -34.31)
>DroYak_CAF1 6888 101 + 1
AGCCAGGAACAACUUCGAGCACAUCAUGGGCACCCUGAAGGAGAUGCCUAGGAGCAUGUUGUUCGUGGUAAGUGUUGUGGCAUUCUAUA--UACG--UGGUAUUA
.((((.(((((((.....((.(....(((((((((....)).).)))))).).))..))))))).))))..((((.((((....)))))--))).--........ ( -30.60)
>DroAna_CAF1 6239 101 + 1
AGCUAGGAAAAAUUUUGAACUUAUCAUGGACACUUUGAAAGAAAUGCCGAGAAGCAUGUUAUUUGUCGUAAGUUAUUUUUCUA---AUAC-CACUUUGGUUUUCC
.....((((((((....(((((((....((((...(((.....((((......)))).)))..))))))))))))))))))).---..((-(.....)))..... ( -16.30)
>consensus
AGCCAGGAACAACUUCGAGCACAUCAUGGGCACCCUGAAGGAGAUGCCCAGAAGCAUGUUGUUCGUGGUAAGUUUUGUAGCUAUAUAUAC_CACU__UGUUAUCA
.((((.((((((((((((.....))..((((((((....)).).))))).))))....)))))).)))).................................... (-19.74 = -19.38 +  -0.35)

alignment

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secondary structure

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dotplot

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Window 1

Location 11,145,588 – 11,145,691
Length 103
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 81.50
Mean single sequence MFE -25.10
Consensus MFE -18.72
Energy contribution -19.33
Covariance contribution 0.61
Combinations/Pair 1.26
Mean z-score -1.29
Structure conservation index 0.75
SVM decision value 0.08
SVM RNA-class probability 0.572770
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11145588 103 - 23771897
UGAUAACA--AGUAUAUGCAUAUAGCUACAAAACUUACCACGAACAACAUGCUUCUGGGCAUCUCCUUCAGGGUGCCCAUGAUGUGCUCGAAAUUAUUCCUGGCU
.......(--(((....((.....))......)))).(((.(((......((.(((((((((((......))))))))).))...)).........))).))).. ( -21.66)
>DroSec_CAF1 6541 103 - 1
UGAUAACA--AGUGUGUAUAUAUAGCUACAAAAUUUACCACGAACAACAUGCUUCGGGGCAUCUCCUUCAGGGUGCCCAUGAUGUGCUCGAAGUUGUUCCUGGCU
........--....((((........)))).......(((.(((((((..((.(((((((((((......)))))))).)))...)).....))))))).))).. ( -29.10)
>DroSim_CAF1 6589 103 - 1
UGAUAACA--AGUGAGUAUAUAUAGCUACAAAACUUACCACGAACAACAUGCUUCGGGGCAUCUCCUUCAGGGUGCCCAUGAUGUGCUCGAAGUUGUUCCUGGCU
.......(--(((..(((........)))...)))).(((.(((((((..((.(((((((((((......)))))))).)))...)).....))))))).))).. ( -30.30)
>DroEre_CAF1 6612 101 - 1
UAAUACCA--CGUG--UAUGGAAUGCUACAACACUCACCACGAACAGCAUGCUCCUGGGCAUCUCCUUCAGGGUGCCCAUGAUAUGCUCGAAGUUGUUCCUGGCU
........--.(((--(.((........))))))...(((.((((((((((.((.(((((((((......))))))))).))))))).......))))).))).. ( -32.21)
>DroYak_CAF1 6888 101 - 1
UAAUACCA--CGUA--UAUAGAAUGCCACAACACUUACCACGAACAACAUGCUCCUAGGCAUCUCCUUCAGGGUGCCCAUGAUGUGCUCGAAGUUGUUCCUGGCU
........--.(((--(.....))))...........(((.((((((((((((....)))))....(((.(((..(.......)..))))))))))))).))).. ( -22.70)
>DroAna_CAF1 6239 101 - 1
GGAAAACCAAAGUG-GUAU---UAGAAAAAUAACUUACGACAAAUAACAUGCUUCUCGGCAUUUCUUUCAAAGUGUCCAUGAUAAGUUCAAAAUUUUUCCUAGCU
((((((.....((.-(((.---.............))).)).........((((.(((((((((......)))))))...)).)))).......))))))..... ( -14.64)
>consensus
UGAUAACA__AGUG_GUAUAUAUAGCUACAAAACUUACCACGAACAACAUGCUUCUGGGCAUCUCCUUCAGGGUGCCCAUGAUGUGCUCGAAGUUGUUCCUGGCU
.....................................(((.(((((((..((((.(((((((((......))))))))).))...)).....))))))).))).. (-18.72 = -19.33 +   0.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:15 2006