Locus 7498

Sequence ID X_DroMel_CAF1
Location 18,690,457 – 18,690,615
Length 158
Max. P 0.999970
window12299 window12300 window12301

overview

Window 9

Location 18,690,457 – 18,690,575
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.33
Mean single sequence MFE -30.48
Consensus MFE -30.52
Energy contribution -29.92
Covariance contribution -0.60
Combinations/Pair 1.14
Mean z-score -2.51
Structure conservation index 1.00
SVM decision value 5.04
SVM RNA-class probability 0.999970
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18690457 118 + 22224390
UAUGCUAAGUUUAAUGCUGAAGGUCAAUUAGAGU-GGGCUACCAGUUGCCCUUUCUUACAAUCUGAUCAUGAUAAUCGUUAUCAUAGUUUAACGAUU-CGCUGAUCGUGAUCUUUCAAAA
.......(((.....)))((((((((...((((.-((((........)))).))))........(((((.(..((((((((........))))))))-..)))))).))))))))..... ( -31.20)
>DroSec_CAF1 22790 119 + 1
-AUGCUACAUUUAAUGCUGAAGGUCAAUUAGAGUUGGGCUUCCAGUUGCCUUUUCUUAUAAUCUGAUCAUGAUAAUCGUUAUCAUAGUUUAACGAUUCCGGUGAUCGUGAUCUUUUAAAA
-..((..........)).((((((((....(((..((((........))))...))).......((((((...((((((((........))))))))...)))))).))))))))..... ( -29.40)
>DroSim_CAF1 5058 119 + 1
-AUGCUACAUUUAAUGCUGAAGGUCAAUUAGAGUUGGGCUUCCAGUUGCCUUUUCUUAUAAUCUGAUCAUGAUAAUCGUUAUCAUAGUUUAACGAUUCCGGUGAUCGUGAUCUUUCAAAA
-..((..........)).((((((((....(((..((((........))))...))).......((((((...((((((((........))))))))...)))))).))))))))..... ( -29.40)
>DroEre_CAF1 11864 117 + 1
-AUGCUGAAAUGAAUACUGAAGGUCAAUUAGAGU-GGGUUUUCAGUUGCCCUUUCUUAUAAUCUGAUCAUAAUAAUCGUUAUCAUAGUUUAACGAUU-CGGUGAUCGUGAUCUUCCAAAA
-.................((((((((...((((.-((((........)))).))))........((((((...((((((((........))))))))-..)))))).))))))))..... ( -32.80)
>DroYak_CAF1 10069 117 + 1
-AUGCUAAAAUAAAUACUGAAGGUCAAUUAGAGU-GGGUUUUCAGUUGCCCUUUCUUAUAAUUUGAUCAUGAUAGUCGUUAUCACAGUUUAACGAUU-CGGUGAUCGUGAUCUUUCAAAA
-.................((((((((...((((.-((((........)))).))))........((((((...((((((((........))))))))-..)))))).))))))))..... ( -29.60)
>consensus
_AUGCUAAAUUUAAUGCUGAAGGUCAAUUAGAGU_GGGCUUCCAGUUGCCCUUUCUUAUAAUCUGAUCAUGAUAAUCGUUAUCAUAGUUUAACGAUU_CGGUGAUCGUGAUCUUUCAAAA
..................((((((((....(((..((((........))))...))).......((((((...((((((((........))))))))...)))))).))))))))..... (-30.52 = -29.92 +  -0.60)

alignment

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secondary structure

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dotplot

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Window 0

Location 18,690,496 – 18,690,615
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 86.12
Mean single sequence MFE -27.41
Consensus MFE -19.50
Energy contribution -19.98
Covariance contribution 0.48
Combinations/Pair 1.07
Mean z-score -2.21
Structure conservation index 0.71
SVM decision value 0.78
SVM RNA-class probability 0.847842
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18690496 119 + 22224390
ACCAGUUGCCCUUUCUUACAAUCUGAUCAUGAUAAUCGUUAUCAUAGUUUAACGAUU-CGCUGAUCGUGAUCUUUCAAAAAGCAAGCAGAACUUGUUUUUGAUAAGAACGAGAGUUCCGC
....(..((.((((((((......(((((((((((((((((........))))))))-.....)))))))))..(((((((.((((.....))))))))))))))))..))).))..).. ( -30.70)
>DroSec_CAF1 22829 120 + 1
UCCAGUUGCCUUUUCUUAUAAUCUGAUCAUGAUAAUCGUUAUCAUAGUUUAACGAUUCCGGUGAUCGUGAUCUUUUAAAAACCAAACAGAACUUGUUUUUGAUAAGAACGAGAGUUCCGU
....(..((((((((((((.....(((((((((.((((..(((..........)))..)))).)))))))))...(((((((............)))))))))))))).))).))..).. ( -27.80)
>DroSim_CAF1 5097 120 + 1
UCCAGUUGCCUUUUCUUAUAAUCUGAUCAUGAUAAUCGUUAUCAUAGUUUAACGAUUCCGGUGAUCGUGAUCUUUCAAAAACCAAACAGAACUUGUUUUUGAUAAGAACGAGAGUUCCGU
....(..(((((((((((......(((((((((.((((..(((..........)))..)))).)))))))))..((((((((............)))))))))))))).))).))..).. ( -29.80)
>DroEre_CAF1 11902 118 + 1
UUCAGUUGCCCUUUCUUAUAAUCUGAUCAUAAUAAUCGUUAUCAUAGUUUAACGAUU-CGGUGAUCGUGAUCUUCCAAAAAGCAA-CAGAACCAACUUUUGAUAAGAACGACAGUAUCGU
....((((....(((((((.((((((((((...((((((((........))))))))-..))))))).)))..............-(((((.....))))))))))))))))........ ( -25.10)
>DroYak_CAF1 10107 106 + 1
UUCAGUUGCCCUUUCUUAUAAUUUGAUCAUGAUAGUCGUUAUCACAGUUUAACGAUU-CGGUGAUCGUGAUCUUUCAAAAAACAA-GGGACCUAAUUUUUGAUAAGCA------------
...((...(((((...........(((((((((((((((((........))))))))-.....)))))))))...........))-)))..))...............------------ ( -23.65)
>consensus
UCCAGUUGCCCUUUCUUAUAAUCUGAUCAUGAUAAUCGUUAUCAUAGUUUAACGAUU_CGGUGAUCGUGAUCUUUCAAAAACCAA_CAGAACUUGUUUUUGAUAAGAACGAGAGUUCCGU
............(((((((.....(((((((((((((((((........))))))))......)))))))))...((((((..............)))))))))))))............ (-19.50 = -19.98 +   0.48)

alignment

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secondary structure

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dotplot

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Window 1

Location 18,690,496 – 18,690,615
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 86.12
Mean single sequence MFE -26.56
Consensus MFE -20.16
Energy contribution -20.52
Covariance contribution 0.36
Combinations/Pair 1.19
Mean z-score -1.77
Structure conservation index 0.76
SVM decision value 0.41
SVM RNA-class probability 0.724667
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18690496 119 - 22224390
GCGGAACUCUCGUUCUUAUCAAAAACAAGUUCUGCUUGCUUUUUGAAAGAUCACGAUCAGCG-AAUCGUUAAACUAUGAUAACGAUUAUCAUGAUCAGAUUGUAAGAAAGGGCAACUGGU
((((((((...(((.........))).))))))))(((((((((....((((..(((((...-((((((((........))))))))....))))).)))).....)))))))))..... ( -32.10)
>DroSec_CAF1 22829 120 - 1
ACGGAACUCUCGUUCUUAUCAAAAACAAGUUCUGUUUGGUUUUUAAAAGAUCACGAUCACCGGAAUCGUUAAACUAUGAUAACGAUUAUCAUGAUCAGAUUAUAAGAAAAGGCAACUGGA
((((((((...(((.........))).))))))))(((.(((((....((((..(((((....((((((((........))))))))....))))).)))).....))))).)))..... ( -24.60)
>DroSim_CAF1 5097 120 - 1
ACGGAACUCUCGUUCUUAUCAAAAACAAGUUCUGUUUGGUUUUUGAAAGAUCACGAUCACCGGAAUCGUUAAACUAUGAUAACGAUUAUCAUGAUCAGAUUAUAAGAAAAGGCAACUGGA
.(((....((..((((((((((((((.((......)).))))))))..((((..(((((....((((((((........))))))))....))))).)))).))))))..))...))).. ( -27.50)
>DroEre_CAF1 11902 118 - 1
ACGAUACUGUCGUUCUUAUCAAAAGUUGGUUCUG-UUGCUUUUUGGAAGAUCACGAUCACCG-AAUCGUUAAACUAUGAUAACGAUUAUUAUGAUCAGAUUAUAAGAAAGGGCAACUGAA
(((((...)))))................(((.(-(((((((((..(.((((..(((((...-((((((((........))))))))....))))).)))).)...)))))))))).))) ( -27.20)
>DroYak_CAF1 10107 106 - 1
------------UGCUUAUCAAAAAUUAGGUCCC-UUGUUUUUUGAAAGAUCACGAUCACCG-AAUCGUUAAACUGUGAUAACGACUAUCAUGAUCAAAUUAUAAGAAAGGGCAACUGAA
------------(((((.(((((((..((....)-)...)))))))..(((((((((.....-.)))))......((((((.....)))))))))).............)))))...... ( -21.40)
>consensus
ACGGAACUCUCGUUCUUAUCAAAAACAAGUUCUG_UUGCUUUUUGAAAGAUCACGAUCACCG_AAUCGUUAAACUAUGAUAACGAUUAUCAUGAUCAGAUUAUAAGAAAGGGCAACUGGA
............(((((((((((((((((.....)))).)))))))........(((((....((((((((........))))))))....)))))......)))))).((....))... (-20.16 = -20.52 +   0.36)

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 12:40:26 2006