Locus 7981

Sequence ID X_DroMel_CAF1
Location 19,875,921 – 19,876,036
Length 115
Max. P 0.976803
window13092 window13093

overview

Window 2

Location 19,875,921 – 19,876,036
Length 115
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.10
Mean single sequence MFE -22.54
Consensus MFE -18.98
Energy contribution -18.82
Covariance contribution -0.16
Combinations/Pair 1.05
Mean z-score -2.04
Structure conservation index 0.84
SVM decision value 1.78
SVM RNA-class probability 0.976803
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19875921 115 + 22224390
UUCACUGGCCAUGCCAAAUUAAAAAGAAAAAUCGGCCACGCCGCUAAAGCUAACAAAAGUUGAAUCGUUAAAAGGCAAAAAACGAACGAAAAAUUUUGUGGCAAACUUUCACAAA-----
.....((((...)))).........((((.....(((((...((....)).....((((((...(((((....(........).)))))..)))))))))))....)))).....----- ( -21.70)
>DroSec_CAF1 30063 114 + 1
UUCACUGGCCAUGCCAAAUUAAAAAGAAAAAUCGGCCACGCCGCUAAAGCUAACAAAAGUUGAAUCGUUAAAAGGCAAAAAACGAACGAGAAAU-UUGUGGCAAACUUUCACAAA-----
.....((((...)))).........((((.....(((((...((....))......(((((...(((((....(........).)))))..)))-)))))))....)))).....----- ( -21.90)
>DroSim_CAF1 22356 114 + 1
UUCACUGGCCAUGCCAAAUUAAAAAGAAAAAUCGGCCACGCCGCUAAAGCUAACAAAAGUUGAAUCGUUAAAAGGCAAAAAACGAACGAGAAAU-UUGUGGCAAACUUUCACAAA-----
.....((((...)))).........((((.....(((((...((....))......(((((...(((((....(........).)))))..)))-)))))))....)))).....----- ( -21.90)
>DroEre_CAF1 7419 113 + 1
UUCACUGGCCAUGCCAAAUUAAAAAGAAAAAUCGGCCAUGCCGCUAAAGCUAACAAAAGUUGAAUCGUUAAAAGGCAAAAA-CGAAUGAGAAAU-UUGUGGCAAACUUUCACAAA-----
.....((((...)))).........((((.....(((.((((((....))((((....))))...........))))...(-(((((.....))-)))))))....)))).....----- ( -22.20)
>DroYak_CAF1 5512 119 + 1
UUCACUGGCCAUGCCAAAUUAAAAAGAAAAAUCGGCCAUGCCGCUAAAGCUAACAAAAGUUGAAUCGUUAAAAGGCAAAAAGCGAACGAGAAAU-UUGUGGCAAACUUUGGCAGACUUUU
.....((((...)))).....(((((.......(((...)))(((((((....((.(((((...(((((.....((.....)).)))))..)))-)).)).....)))))))...))))) ( -25.00)
>consensus
UUCACUGGCCAUGCCAAAUUAAAAAGAAAAAUCGGCCACGCCGCUAAAGCUAACAAAAGUUGAAUCGUUAAAAGGCAAAAAACGAACGAGAAAU_UUGUGGCAAACUUUCACAAA_____
.....(((((.......................))))).(((((...((((......))))...(((((....(........).)))))........))))).................. (-18.98 = -18.82 +  -0.16)

alignment

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secondary structure

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dotplot

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Window 3

Location 19,875,921 – 19,876,036
Length 115
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.10
Mean single sequence MFE -24.98
Consensus MFE -21.62
Energy contribution -21.38
Covariance contribution -0.24
Combinations/Pair 1.04
Mean z-score -1.32
Structure conservation index 0.87
SVM decision value 0.28
SVM RNA-class probability 0.665791
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19875921 115 - 22224390
-----UUUGUGAAAGUUUGCCACAAAAUUUUUCGUUCGUUUUUUGCCUUUUAACGAUUCAACUUUUGUUAGCUUUAGCGGCGUGGCCGAUUUUUCUUUUUAAUUUGGCAUGGCCAGUGAA
-----.....(((((((.((((((((((.........)))))..(((...((((((........))))))((....)))))))))).))))))).........(((((...))))).... ( -25.00)
>DroSec_CAF1 30063 114 - 1
-----UUUGUGAAAGUUUGCCACAA-AUUUCUCGUUCGUUUUUUGCCUUUUAACGAUUCAACUUUUGUUAGCUUUAGCGGCGUGGCCGAUUUUUCUUUUUAAUUUGGCAUGGCCAGUGAA
-----.....(((((((.(((((..-......(....)......(((...((((((........))))))((....)))))))))).))))))).........(((((...))))).... ( -24.40)
>DroSim_CAF1 22356 114 - 1
-----UUUGUGAAAGUUUGCCACAA-AUUUCUCGUUCGUUUUUUGCCUUUUAACGAUUCAACUUUUGUUAGCUUUAGCGGCGUGGCCGAUUUUUCUUUUUAAUUUGGCAUGGCCAGUGAA
-----.....(((((((.(((((..-......(....)......(((...((((((........))))))((....)))))))))).))))))).........(((((...))))).... ( -24.40)
>DroEre_CAF1 7419 113 - 1
-----UUUGUGAAAGUUUGCCACAA-AUUUCUCAUUCG-UUUUUGCCUUUUAACGAUUCAACUUUUGUUAGCUUUAGCGGCAUGGCCGAUUUUUCUUUUUAAUUUGGCAUGGCCAGUGAA
-----((((((.........)))))-)....(((((.(-((...((....((((((........))))))))...)))(((...(((((.((........)).)))))...)))))))). ( -24.50)
>DroYak_CAF1 5512 119 - 1
AAAAGUCUGCCAAAGUUUGCCACAA-AUUUCUCGUUCGCUUUUUGCCUUUUAACGAUUCAACUUUUGUUAGCUUUAGCGGCAUGGCCGAUUUUUCUUUUUAAUUUGGCAUGGCCAGUGAA
(((((((.(((((((((((...)))-)))).............((((...((((((........))))))((....)))))))))).))))))).........(((((...))))).... ( -26.60)
>consensus
_____UUUGUGAAAGUUUGCCACAA_AUUUCUCGUUCGUUUUUUGCCUUUUAACGAUUCAACUUUUGUUAGCUUUAGCGGCGUGGCCGAUUUUUCUUUUUAAUUUGGCAUGGCCAGUGAA
..................((((.....................((((...((((((........))))))((....))))))..(((((.((........)).))))).))))....... (-21.62 = -21.38 +  -0.24)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:52:18 2006