Locus 4642

Sequence ID 2L_DroMel_CAF1
Location 13,288,280 – 13,288,382
Length 102
Max. P 0.892316
window7330 window7331

overview

Window 0

Location 13,288,280 – 13,288,382
Length 102
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 82.48
Mean single sequence MFE -32.93
Consensus MFE -26.25
Energy contribution -26.78
Covariance contribution 0.54
Combinations/Pair 1.39
Mean z-score -2.37
Structure conservation index 0.80
SVM decision value 0.97
SVM RNA-class probability 0.892316
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13288280 102 + 22407834
AAUAAACCUUUUCACCCUUUUAAGGUGGAGCGCCGAAUGUCCACACUGGUGUUGGAGCUACAGGAGAUCUAUAACAUCCAGAAUGUGGGCGGUCGGCAAUUU
.........(((((((.......))))))).(((((.(((((((((((((((((((.((.....)).))))..))).))))..)))))))).)))))..... ( -37.80)
>DroGri_CAF1 1609 100 + 1
AUCAAAUCGUUUAA--UAUUGCAGGUGAAGCGACGCAGAUUCACGCUGGCGCUGGAGCUGCAGGAGAUCUACAACAUUAAGAGUCUGGGCUCGCAACAGUUU
.(((..(.((....--....)))..))).(((((.(((((((..((.(((......))))).((....))..........))))))).).))))........ ( -23.70)
>DroSec_CAF1 1342 102 + 1
AAUUAAUCUUUUUACGUUUUUAAGGUGGAGCGCAGAAUGUCCACACUGGUGUUGGAGCUUCAGGAGAUCUAUAACAUCCAGAAUGUGGGCGGUCGGCAAUUU
...............(((((......)))))((.((.(((((((((((((((((.((..((....)).)).))))).))))..)))))))).)).))..... ( -28.50)
>DroSim_CAF1 1340 102 + 1
AAUUAACCUCUUUACCUUUUUAAGGUGGAGCGCCGAAUGUCGACACUGGUGUUAGAGCUACAGGAGAUCUAUAACAUCCAGAAUGUGGGCGGUCGGCAAUUU
.........((((((((.....)))))))).(((((.((((.((((((((((((((.((.....)).))))..))).))))..))).)))).)))))..... ( -35.10)
>DroEre_CAF1 1337 102 + 1
AAUUAAGUUUUUCACCUUAAUUAGGUGGAGCGCCGAAUGUCCACACUGGUGUUGGAGCUACAGGAGAUCUAUAACAUCCAGAAUGUGGGCAGUCGGCAAUUU
.........((((((((.....)))))))).(((((.(((((((((((((((((((.((.....)).))))..))).))))..)))))))).)))))..... ( -40.70)
>DroYak_CAF1 1339 102 + 1
AAUGAACAUUUUGACCAUUCCAAGGUGGAACGUCGAAUGUCCACACUGGUGUUGGAGCUACAGGAGAUCUACAACAUCCAGAAUGUGGGCGGUCGUCAAUUU
......(((((((.......)))))))....(.(((.(((((((((((((((((...((.....)).....))))).))))..)))))))).))).)..... ( -31.80)
>consensus
AAUUAACCUUUUCACCUUUUUAAGGUGGAGCGCCGAAUGUCCACACUGGUGUUGGAGCUACAGGAGAUCUAUAACAUCCAGAAUGUGGGCGGUCGGCAAUUU
.........(((((((.......))))))).(((((.(((((((((((((((((...((.....)).....))))).))))..)))))))).)))))..... (-26.25 = -26.78 +   0.54)

alignment

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secondary structure

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dotplot

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Window 1

Location 13,288,280 – 13,288,382
Length 102
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 82.48
Mean single sequence MFE -27.75
Consensus MFE -19.72
Energy contribution -20.33
Covariance contribution 0.62
Combinations/Pair 1.29
Mean z-score -2.14
Structure conservation index 0.71
SVM decision value 0.53
SVM RNA-class probability 0.770008
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13288280 102 - 22407834
AAAUUGCCGACCGCCCACAUUCUGGAUGUUAUAGAUCUCCUGUAGCUCCAACACCAGUGUGGACAUUCGGCGCUCCACCUUAAAAGGGUGAAAAGGUUUAUU
.....(((((..(.(((((((.((((.(((((((.....))))))))))).....))))))).)..)))))....(((((.....)))))............ ( -34.00)
>DroGri_CAF1 1609 100 - 1
AAACUGUUGCGAGCCCAGACUCUUAAUGUUGUAGAUCUCCUGCAGCUCCAGCGCCAGCGUGAAUCUGCGUCGCUUCACCUGCAAUA--UUAAACGAUUUGAU
....(((((((((......))).....(((((((.....)))))))...((((...((((......))))))))......))))))--.............. ( -22.10)
>DroSec_CAF1 1342 102 - 1
AAAUUGCCGACCGCCCACAUUCUGGAUGUUAUAGAUCUCCUGAAGCUCCAACACCAGUGUGGACAUUCUGCGCUCCACCUUAAAAACGUAAAAAGAUUAAUU
.....((.((..(.(((((..((((.((((..((.((....))..))..))))))))))))).)..)).))............................... ( -18.10)
>DroSim_CAF1 1340 102 - 1
AAAUUGCCGACCGCCCACAUUCUGGAUGUUAUAGAUCUCCUGUAGCUCUAACACCAGUGUCGACAUUCGGCGCUCCACCUUAAAAAGGUAAAGAGGUUAAUU
........((((..........((((.(((((((.....))))))))))).....(((((((.....)))))))..((((.....)))).....)))).... ( -24.80)
>DroEre_CAF1 1337 102 - 1
AAAUUGCCGACUGCCCACAUUCUGGAUGUUAUAGAUCUCCUGUAGCUCCAACACCAGUGUGGACAUUCGGCGCUCCACCUAAUUAAGGUGAAAAACUUAAUU
.....(((((.((.(((((((.((((.(((((((.....))))))))))).....))))))).)).)))))....(((((.....)))))............ ( -36.40)
>DroYak_CAF1 1339 102 - 1
AAAUUGACGACCGCCCACAUUCUGGAUGUUGUAGAUCUCCUGUAGCUCCAACACCAGUGUGGACAUUCGACGUUCCACCUUGGAAUGGUCAAAAUGUUCAUU
...(((((((..(.(((((..((((.(((((.((..(....)...)).)))))))))))))).)..))..((((((.....))))))))))).......... ( -31.10)
>consensus
AAAUUGCCGACCGCCCACAUUCUGGAUGUUAUAGAUCUCCUGUAGCUCCAACACCAGUGUGGACAUUCGGCGCUCCACCUUAAAAAGGUAAAAAGGUUAAUU
.....(((((..(.(((((((.((((.(((((((.....))))))))))).....))))))).)..)))))............................... (-19.72 = -20.33 +   0.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:23:21 2006