Locus 8157

Sequence ID 3R_DroMel_CAF1
Location 21,930,738 – 21,930,893
Length 155
Max. P 0.966438
window13114 window13115 window13116 window13117

overview

Window 4

Location 21,930,738 – 21,930,855
Length 117
Sequences 3
Columns 119
Reading direction forward
Mean pairwise identity 91.60
Mean single sequence MFE -34.87
Consensus MFE -29.17
Energy contribution -28.73
Covariance contribution -0.44
Combinations/Pair 1.15
Mean z-score -3.92
Structure conservation index 0.84
SVM decision value 1.38
SVM RNA-class probability 0.947876
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21930738 117 + 27905053
ACACUGAACGUAAAAGUGUUGACAAACAAAUGUGUUCGCCGCACGAUCAUUAACCGCAGAAUUGAAAUACAAUCUGCGGUUUUUGAAGUG--UUUAGCCAGCAAUAUUGUGGUUUAUUU
(((((.........)))))....((((.((((((((.((.((((..(((..(((((((((.(((.....))))))))))))..))).)))--)...)).))).)))))...)))).... ( -34.50)
>DroSec_CAF1 45326 119 + 1
ACACUGAACAUAAAAGUGUUGACAAAUAAAUCUGUUCACACCACGAUCAUUAACCGCAGAAUUAAAUUACAAUCUGCGGUUUUUGAAGUGGGGUUAGUCAGCAAUAUUAUGGUUUAUUU
........(((((...(((((((.........((....))((((..(((..(((((((((............)))))))))..))).)))).....)))))))...)))))........ ( -36.30)
>DroSim_CAF1 54757 119 + 1
ACACUGAACGUAAAAGUGUUGACAAAUAAAUCUAUUCACACCACGAUUAUUAACCGCAGAAUUGAAUUACAAUCUGCGGUUUUUGAAGUGGGGUUAGCCAGCAAUAUUAUGGUUUAUUU
(((((.........)))))....(((((((((........((((..(((..(((((((((.(((.....))))))))))))..))).))))((....))...........))))))))) ( -33.80)
>consensus
ACACUGAACGUAAAAGUGUUGACAAAUAAAUCUGUUCACACCACGAUCAUUAACCGCAGAAUUGAAUUACAAUCUGCGGUUUUUGAAGUGGGGUUAGCCAGCAAUAUUAUGGUUUAUUU
........(((((...(((((.(.((((....))))....((((..(((..(((((((((.(((.....))))))))))))..))).)))).....).)))))...)))))........ (-29.17 = -28.73 +  -0.44)

alignment

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secondary structure

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dotplot

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Window 5

Location 21,930,738 – 21,930,855
Length 117
Sequences 3
Columns 119
Reading direction reverse
Mean pairwise identity 91.60
Mean single sequence MFE -30.10
Consensus MFE -24.28
Energy contribution -24.07
Covariance contribution -0.22
Combinations/Pair 1.09
Mean z-score -3.06
Structure conservation index 0.81
SVM decision value 0.95
SVM RNA-class probability 0.887400
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21930738 117 - 27905053
AAAUAAACCACAAUAUUGCUGGCUAAA--CACUUCAAAAACCGCAGAUUGUAUUUCAAUUCUGCGGUUAAUGAUCGUGCGGCGAACACAUUUGUUUGUCAACACUUUUACGUUCAGUGU
.................((((((((((--(((.(((..((((((((((((.....))).)))))))))..)))..))).((((((((....))))))))......)))).).))))).. ( -32.20)
>DroSec_CAF1 45326 119 - 1
AAAUAAACCAUAAUAUUGCUGACUAACCCCACUUCAAAAACCGCAGAUUGUAAUUUAAUUCUGCGGUUAAUGAUCGUGGUGUGAACAGAUUUAUUUGUCAACACUUUUAUGUUCAGUGU
.................(((((.......(((.(((..((((((((((((.....))).)))))))))..)))..)))((((..(((((....)))))..))))........))))).. ( -31.00)
>DroSim_CAF1 54757 119 - 1
AAAUAAACCAUAAUAUUGCUGGCUAACCCCACUUCAAAAACCGCAGAUUGUAAUUCAAUUCUGCGGUUAAUAAUCGUGGUGUGAAUAGAUUUAUUUGUCAACACUUUUACGUUCAGUGU
.................(((((................((((((((((((.....))).)))))))))......((((((((..(((((....)))))..)))))...))).))))).. ( -27.10)
>consensus
AAAUAAACCAUAAUAUUGCUGGCUAACCCCACUUCAAAAACCGCAGAUUGUAAUUCAAUUCUGCGGUUAAUGAUCGUGGUGUGAACAGAUUUAUUUGUCAACACUUUUACGUUCAGUGU
...................((((.....((((.(((..((((((((((((.....))).)))))))))..)))..)))).(((((....)))))..))))(((((.........))))) (-24.28 = -24.07 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 6

Location 21,930,777 – 21,930,893
Length 116
Sequences 3
Columns 118
Reading direction forward
Mean pairwise identity 90.37
Mean single sequence MFE -33.80
Consensus MFE -25.29
Energy contribution -26.30
Covariance contribution 1.01
Combinations/Pair 1.08
Mean z-score -3.27
Structure conservation index 0.75
SVM decision value 0.79
SVM RNA-class probability 0.850604
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21930777 116 + 27905053
CGCACGAUCAUUAACCGCAGAAUUGAAAUACAAUCUGCGGUUUUUGAAGUG--UUUAGCCAGCAAUAUUGUGGUUUAUUUUUAUCACGACAUAGCUAUUUUUGGAGUAAUUAGGCACA
.((((..(((..(((((((((.(((.....))))))))))))..))).)))--)...((((((.((.(((((((........))))))).)).))).......((....)).)))... ( -37.40)
>DroSec_CAF1 45365 117 + 1
ACCACGAUCAUUAACCGCAGAAUUAAAUUACAAUCUGCGGUUUUUGAAGUGGGGUUAGUCAGCAAUAUUAUGGUUUAUUUUUAACACGAUAAAGCUAUUUUUGGAGUAUGUG-GCACA
.((((..(((..(((((((((............)))))))))..))).)))).....((((((..((..((((((((((........))).)))))))...))..))...))-))... ( -30.50)
>DroSim_CAF1 54796 117 + 1
ACCACGAUUAUUAACCGCAGAAUUGAAUUACAAUCUGCGGUUUUUGAAGUGGGGUUAGCCAGCAAUAUUAUGGUUUAUUUUUAACACGACAAAGCUAUUUUUGGAGUAAGUA-GCACA
.((((..(((..(((((((((.(((.....))))))))))))..))).))))(((.(((((.........))))).)))..............(((((((.......)))))-))... ( -33.50)
>consensus
ACCACGAUCAUUAACCGCAGAAUUGAAUUACAAUCUGCGGUUUUUGAAGUGGGGUUAGCCAGCAAUAUUAUGGUUUAUUUUUAACACGACAAAGCUAUUUUUGGAGUAAGUA_GCACA
.((((..(((..(((((((((.(((.....))))))))))))..))).))))......((((.((((((((.(((((....))).)).))))...)))).)))).............. (-25.29 = -26.30 +   1.01)

alignment

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secondary structure

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dotplot

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Window 7

Location 21,930,777 – 21,930,893
Length 116
Sequences 3
Columns 118
Reading direction reverse
Mean pairwise identity 90.37
Mean single sequence MFE -28.03
Consensus MFE -24.63
Energy contribution -24.63
Covariance contribution 0.01
Combinations/Pair 1.10
Mean z-score -3.06
Structure conservation index 0.88
SVM decision value 1.60
SVM RNA-class probability 0.966438
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21930777 116 - 27905053
UGUGCCUAAUUACUCCAAAAAUAGCUAUGUCGUGAUAAAAAUAAACCACAAUAUUGCUGGCUAAA--CACUUCAAAAACCGCAGAUUGUAUUUCAAUUCUGCGGUUAAUGAUCGUGCG
...(((..(((........)))(((.((((.(((............))).)))).))))))....--(((.(((..((((((((((((.....))).)))))))))..)))..))).. ( -27.60)
>DroSec_CAF1 45365 117 - 1
UGUGC-CACAUACUCCAAAAAUAGCUUUAUCGUGUUAAAAAUAAACCAUAAUAUUGCUGACUAACCCCACUUCAAAAACCGCAGAUUGUAAUUUAAUUCUGCGGUUAAUGAUCGUGGU
...((-(((............((((..(((..((............))..)))..))))............(((..((((((((((((.....))).)))))))))..)))..))))) ( -28.60)
>DroSim_CAF1 54796 117 - 1
UGUGC-UACUUACUCCAAAAAUAGCUUUGUCGUGUUAAAAAUAAACCAUAAUAUUGCUGGCUAACCCCACUUCAAAAACCGCAGAUUGUAAUUCAAUUCUGCGGUUAAUAAUCGUGGU
...((-(((............(((((..((.((((((...........)))))).)).))))).............((((((((((((.....))).))))))))).......))))) ( -27.90)
>consensus
UGUGC_UACUUACUCCAAAAAUAGCUUUGUCGUGUUAAAAAUAAACCAUAAUAUUGCUGGCUAACCCCACUUCAAAAACCGCAGAUUGUAAUUCAAUUCUGCGGUUAAUGAUCGUGGU
.....................((((..(((.(((............))).)))..)))).......((((.(((..((((((((((((.....))).)))))))))..)))..)))). (-24.63 = -24.63 +   0.01)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:03:52 2006