Locus 6184

Sequence ID 3R_DroMel_CAF1
Location 16,181,294 – 16,181,447
Length 153
Max. P 0.898631
window10078 window10079

overview

Window 8

Location 16,181,294 – 16,181,407
Length 113
Sequences 5
Columns 113
Reading direction reverse
Mean pairwise identity 94.69
Mean single sequence MFE -34.14
Consensus MFE -30.80
Energy contribution -31.04
Covariance contribution 0.24
Combinations/Pair 1.09
Mean z-score -1.26
Structure conservation index 0.90
SVM decision value 0.46
SVM RNA-class probability 0.744490
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16181294 113 - 27905053
AACGACUUUACGGCAUCAUAUCGCUGGCGGAAGUAACUUUUUUUGUUGAAGUGAUGUCGUAUCCGUUGCAACGGCUGCAAACUUCACAUGCGGCGCGAUGAGAGGUGAGAACU
....(((((((((((((((.(((...(((((((......)))))))))).))))))))))...((((((....((((((.........)))))))))))).)))))....... ( -34.60)
>DroSec_CAF1 10468 113 - 1
AACGAUUUUGCGGCAUCAUAUCGUUGGCGGAAGUAACUUUUUUUGUUGAAGUGAUGUCGUAUCCGUUGCAACGGCUGCAAACUUCACAUGCGGCGCGAUGAGAGGUGAGAACU
........(((((((((((....(..(((((((......)))))))..).)))))))))))((((((((....((((((.........)))))))))))).)).......... ( -35.60)
>DroSim_CAF1 3983 113 - 1
AACGAUUUUGCAGCAUCAUAUCGUUGGCGGAAGUAACUUUUUUUGUUGAAGUGAUGUCGUAUCCGUUGCAACGGCUGCAAACUUCACAUGCGGCGCGAUGAGAGGUGAGAACU
.....(((..(.(((((((....(..(((((((......)))))))..).)))))))....((((((((....((((((.........)))))))))))).)).)..)))... ( -31.30)
>DroEre_CAF1 9325 112 - 1
AAUGAUUUUACGGCAUCGUAUCGUUAGCGGAUGUAACUUUUUUUGUUGAAGUGAUGUCGUAUCCGUUGCAACGGCUGCAAACUUCACAUGCGGCGCGAUG-GAGGUGAGAACU
........((((((((((.....((((((((..........))))))))..))))))))))((((((((....((((((.........))))))))))))-)).......... ( -34.30)
>DroYak_CAF1 11587 113 - 1
AAUGGUUAAACGGCAUCAUAUCGUUGGCGGAAGUAACUUUUUUUGUUGAAGUGAUGUCGUAUCCGUUGCAACGGCAGCAAACUUCACAUGCGGUGCGAUGAGAGGUGAGAACU
...((....((((((((((....(..(((((((......)))))))..).))))))))))..))(((((....)))))..(((((.(((((...)).))).)))))....... ( -34.90)
>consensus
AACGAUUUUACGGCAUCAUAUCGUUGGCGGAAGUAACUUUUUUUGUUGAAGUGAUGUCGUAUCCGUUGCAACGGCUGCAAACUUCACAUGCGGCGCGAUGAGAGGUGAGAACU
........(((((((((((.(((...(((((((......)))))))))).)))))))))))((((((((....((((((.........)))))))))))).)).......... (-30.80 = -31.04 +   0.24)

alignment

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secondary structure

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dotplot

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Window 9

Location 16,181,327 – 16,181,447
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.75
Mean single sequence MFE -34.14
Consensus MFE -26.06
Energy contribution -27.06
Covariance contribution 1.00
Combinations/Pair 1.11
Mean z-score -2.13
Structure conservation index 0.76
SVM decision value 1.00
SVM RNA-class probability 0.898631
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16181327 120 - 27905053
AAUAGUUUUUAAGCGCUUUGCCCGAAAUUAUUUUUGGUUAAACGACUUUACGGCAUCAUAUCGCUGGCGGAAGUAACUUUUUUUGUUGAAGUGAUGUCGUAUCCGUUGCAACGGCUGCAA
............(((((((((((((((....))))))...((((....(((((((((((.(((...(((((((......)))))))))).)))))))))))..)))))))).))).)).. ( -35.80)
>DroSec_CAF1 10501 120 - 1
AAUAGUUUCCAAACGGUUUGCCCGAAAUUAUUUUUGGUUCAACGAUUUUGCGGCAUCAUAUCGUUGGCGGAAGUAACUUUUUUUGUUGAAGUGAUGUCGUAUCCGUUGCAACGGCUGCAA
...............((..((((((((....)))))((((((((....(((((((((((....(..(((((((......)))))))..).)))))))))))..))))).)))))).)).. ( -36.20)
>DroSim_CAF1 4016 120 - 1
AAUAGUCUCCAAACGCUUUGCCCGAAAUUAUUUUUGGUUCAACGAUUUUGCAGCAUCAUAUCGUUGGCGGAAGUAACUUUUUUUGUUGAAGUGAUGUCGUAUCCGUUGCAACGGCUGCAA
..............((...((((((((....)))))((((((((....(((.(((((((....(..(((((((......)))))))..).))))))).)))..))))).)))))).)).. ( -33.10)
>DroEre_CAF1 9357 119 - 1
AAUAGUUUCCAAACGUUUUUCC-GAAUAGAUUUUUGGCUCAAUGAUUUUACGGCAUCGUAUCGUUAGCGGAUGUAACUUUUUUUGUUGAAGUGAUGUCGUAUCCGUUGCAACGGCUGCAA
....((..((..........((-(((......)))))..(((((....((((((((((.....((((((((..........))))))))..))))))))))..)))))....))..)).. ( -26.50)
>DroYak_CAF1 11620 120 - 1
UAUAGUUUUCAAUCGUUUUGCCAGAAUGGAUUUUUGGUUCAAUGGUUAAACGGCAUCAUAUCGUUGGCGGAAGUAACUUUUUUUGUUGAAGUGAUGUCGUAUCCGUUGCAACGGCAGCAA
..........(((((((..(((((((.....)))))))..)))))))..((((((((((....(..(((((((......)))))))..).))))))))))....(((((....))))).. ( -39.10)
>consensus
AAUAGUUUCCAAACGCUUUGCCCGAAAUUAUUUUUGGUUCAACGAUUUUACGGCAUCAUAUCGUUGGCGGAAGUAACUUUUUUUGUUGAAGUGAUGUCGUAUCCGUUGCAACGGCUGCAA
..............((...(((((((......))))((((((((....(((((((((((.(((...(((((((......)))))))))).)))))))))))..))))).)))))).)).. (-26.06 = -27.06 +   1.00)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:14:49 2006