Locus 7919

Sequence ID 3R_DroMel_CAF1
Location 21,244,273 – 21,244,365
Length 92
Max. P 0.711708
window12752 window12753

overview

Window 2

Location 21,244,273 – 21,244,365
Length 92
Sequences 4
Columns 100
Reading direction forward
Mean pairwise identity 83.25
Mean single sequence MFE -19.56
Consensus MFE -12.82
Energy contribution -14.88
Covariance contribution 2.06
Combinations/Pair 1.05
Mean z-score -1.87
Structure conservation index 0.66
SVM decision value 0.38
SVM RNA-class probability 0.711708
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21244273 92 + 27905053
AAAUUUCAAAA-----ACAAACUUUUGAAGAACGCACGGUUUUGUGCAGCCU---CAGAAGUAUCAGCAGUUUCAACUAUUUCGUUCAUUGAAGCUGAAU
...........-----....((((((((.(...(((((....)))))..).)---))))))).....(((((((((..(......)..)))))))))... ( -21.70)
>DroSec_CAF1 69033 95 + 1
AAAUUUCAAAA-----AUGAACUUUUGAAGAACGCACGGUUUUGUUCAGCCUCUUCAGAAGUUUCAGCAGUUUCAACUAUUUCUUUUAUUCAAGCUGAAA
...........-----...((((((((((((......((((......))))))))))))))))(((((.........................))))).. ( -18.61)
>DroSim_CAF1 71340 95 + 1
AAAUUUCAAAA-----ACGAACUUUUGAAGAACGCACGGUUUUGUGCAGCCUCUUCAGAAGUUUCAGCAGUUUCAACUAUUUCUUUCAUUCAAGCUGAAA
...........-----...((((((((((((..(((((....)))))....))))))))))))(((((.........................))))).. ( -22.21)
>DroEre_CAF1 73087 96 + 1
----UGCAAAAUAUUUGCCAACUUUUGAAGAGCGAACAAAUUUAUGCAACCUCUUCUGAAGCUUCAGCAGUUUCAACUAUUUCUUUAAUUCAAGCUGAAU
----.((((.....))))...((((.((((((....((......))....)))))).)))).((((((.........................)))))). ( -15.71)
>consensus
AAAUUUCAAAA_____ACGAACUUUUGAAGAACGCACGGUUUUGUGCAGCCUCUUCAGAAGUUUCAGCAGUUUCAACUAUUUCUUUCAUUCAAGCUGAAA
...................((((((((((((..(((((....)))))....))))))))))))(((((.........................))))).. (-12.82 = -14.88 +   2.06)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 3

Location 21,244,273 – 21,244,365
Length 92
Sequences 4
Columns 100
Reading direction reverse
Mean pairwise identity 83.25
Mean single sequence MFE -21.39
Consensus MFE -14.75
Energy contribution -15.94
Covariance contribution 1.19
Combinations/Pair 1.12
Mean z-score -1.73
Structure conservation index 0.69
SVM decision value 0.31
SVM RNA-class probability 0.681372
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21244273 92 - 27905053
AUUCAGCUUCAAUGAACGAAAUAGUUGAAACUGCUGAUACUUCUG---AGGCUGCACAAAACCGUGCGUUCUUCAAAAGUUUGU-----UUUUGAAAUUU
..(((((((((((..........))))))...))))).((((.((---(((.(((((......)))))..))))).))))....-----........... ( -21.30)
>DroSec_CAF1 69033 95 - 1
UUUCAGCUUGAAUAAAAGAAAUAGUUGAAACUGCUGAAACUUCUGAAGAGGCUGAACAAAACCGUGCGUUCUUCAAAAGUUCAU-----UUUUGAAAUUU
((((((((..............))))))))....((((.(((.(((((((((((........)).)).))))))).))))))).-----........... ( -18.54)
>DroSim_CAF1 71340 95 - 1
UUUCAGCUUGAAUGAAAGAAAUAGUUGAAACUGCUGAAACUUCUGAAGAGGCUGCACAAAACCGUGCGUUCUUCAAAAGUUCGU-----UUUUGAAAUUU
((((((...((((((......((((.......))))..((((.(((((((..(((((......)))))))))))).))))))))-----))))))))... ( -22.50)
>DroEre_CAF1 73087 96 - 1
AUUCAGCUUGAAUUAAAGAAAUAGUUGAAACUGCUGAAGCUUCAGAAGAGGUUGCAUAAAUUUGUUCGCUCUUCAAAAGUUGGCAAAUAUUUUGCA----
..(((((((.(((((......))))).))...)))))(((((..((((((...(((......)))...))))))..))))).((((.....)))).---- ( -23.20)
>consensus
AUUCAGCUUGAAUGAAAGAAAUAGUUGAAACUGCUGAAACUUCUGAAGAGGCUGCACAAAACCGUGCGUUCUUCAAAAGUUCGU_____UUUUGAAAUUU
.(((((((..............)))))))........(((((.(((((((..(((((......)))))))))))).)))))................... (-14.75 = -15.94 +   1.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:58:02 2006