Locus 293

Sequence ID 3R_DroMel_CAF1
Location 1,124,328 – 1,124,418
Length 90
Max. P 0.761383
window500 window501

overview

Window 0

Location 1,124,328 – 1,124,418
Length 90
Sequences 6
Columns 90
Reading direction forward
Mean pairwise identity 81.56
Mean single sequence MFE -32.08
Consensus MFE -20.75
Energy contribution -20.58
Covariance contribution -0.16
Combinations/Pair 1.35
Mean z-score -1.61
Structure conservation index 0.65
SVM decision value 0.08
SVM RNA-class probability 0.574609
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1124328 90 + 27905053
AAGAGUCGCCAUCGGGUCGCAAGUGCGAGCAGAUCACACCUGUGGGCGGAACCUGCUGCCGGCAGUGGUAGAUAACCGAGAACUCGUUGG
..((((.....((((.((((....))))....(((((..((((.(((((......))))).))))..)).)))..))))..))))..... ( -33.00)
>DroSec_CAF1 57975 90 + 1
AAGCGUCGCCAUCGGGUCGCAGGUGCGAAUAGAUCACACCUGUUGGCGGAACCUGCCGCCGGCAGAGGUAUAUAACCGAGAACUGUUUGG
..(((..(((....)))))).....(((((((.((....((((((((((......)))))))))).(((.....)))..)).))))))). ( -34.80)
>DroSim_CAF1 58517 90 + 1
AAGCGUCGCCAUCGGGUCGCAGGUGCGAAUAGAUCACACCUGUUGGCGGAACCUGCCGCCGGCAGAGGUAUAUAACCGAGAACUGUUUGG
..(((..(((....)))))).....(((((((.((....((((((((((......)))))))))).(((.....)))..)).))))))). ( -34.80)
>DroEre_CAF1 58682 90 + 1
AAAGGGCGUCAUCGGGCCGCAGGUGCGAGUAGAUCACACCUGUGGGCGAUACGUGCUGCCGGUAGAGGUAGAUAACCGAAAACUCCUUGG
.(((((.((..((((.(((((((((.((.....)).)))))))))..........(((((......)))))....))))..))))))).. ( -37.60)
>DroYak_CAF1 79053 90 + 1
AAUAGUUGCCAUCGGGUCGCAGUUGGGAGUAAAUCACACUUGUGGGCGAAACUUGUUGCCGGCAGAGAUAGAUAACAGAAAACUCGUUGG
.((..(((((.......(((((.((.((.....)).)).)))))(((((......))))))))))..))...((((((....)).)))). ( -20.40)
>DroAna_CAF1 55262 90 + 1
ACAAAUCGUUAUCGGGACGCAGGUGUGAAUAGAUCACACCUGACGGCGGCGCCUCAUGCCGGCAUAGGUAGAUAACAGAGAAUUCGUUUG
.......((((((...((((((((((((.....))))))))).)(.(((((.....))))).)....)).)))))).............. ( -31.90)
>consensus
AAGAGUCGCCAUCGGGUCGCAGGUGCGAAUAGAUCACACCUGUGGGCGGAACCUGCUGCCGGCAGAGGUAGAUAACCGAGAACUCGUUGG
.......(((........(((((((.((.....)).))))))).(((((......))))))))........................... (-20.75 = -20.58 +  -0.16)

alignment

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secondary structure

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dotplot

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Window 1

Location 1,124,328 – 1,124,418
Length 90
Sequences 6
Columns 90
Reading direction reverse
Mean pairwise identity 81.56
Mean single sequence MFE -29.43
Consensus MFE -19.76
Energy contribution -20.18
Covariance contribution 0.42
Combinations/Pair 1.21
Mean z-score -1.97
Structure conservation index 0.67
SVM decision value 0.50
SVM RNA-class probability 0.761383
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1124328 90 - 27905053
CCAACGAGUUCUCGGUUAUCUACCACUGCCGGCAGCAGGUUCCGCCCACAGGUGUGAUCUGCUCGCACUUGCGACCCGAUGGCGACUCUU
.....(((((...(((.....)))...((((.(.((((((..((((....))))..))))))((((....))))...).))))))))).. ( -33.50)
>DroSec_CAF1 57975 90 - 1
CCAAACAGUUCUCGGUUAUAUACCUCUGCCGGCGGCAGGUUCCGCCAACAGGUGUGAUCUAUUCGCACCUGCGACCCGAUGGCGACGCUU
......(((..(((((.....)))...((((((((......)))))..(((((((((.....))))))))).........))))).))). ( -32.60)
>DroSim_CAF1 58517 90 - 1
CCAAACAGUUCUCGGUUAUAUACCUCUGCCGGCGGCAGGUUCCGCCAACAGGUGUGAUCUAUUCGCACCUGCGACCCGAUGGCGACGCUU
......(((..(((((.....)))...((((((((......)))))..(((((((((.....))))))))).........))))).))). ( -32.60)
>DroEre_CAF1 58682 90 - 1
CCAAGGAGUUUUCGGUUAUCUACCUCUACCGGCAGCACGUAUCGCCCACAGGUGUGAUCUACUCGCACCUGCGGCCCGAUGACGCCCUUU
..((((.(((.(((((...........))))).))).(((((((.((.(((((((((.....))))))))).))..)))).))).)))). ( -32.80)
>DroYak_CAF1 79053 90 - 1
CCAACGAGUUUUCUGUUAUCUAUCUCUGCCGGCAACAAGUUUCGCCCACAAGUGUGAUUUACUCCCAACUGCGACCCGAUGGCAACUAUU
.............(((((((..........(....)..(..((((.....((((.....)))).......))))..))))))))...... ( -14.10)
>DroAna_CAF1 55262 90 - 1
CAAACGAAUUCUCUGUUAUCUACCUAUGCCGGCAUGAGGCGCCGCCGUCAGGUGUGAUCUAUUCACACCUGCGUCCCGAUAACGAUUUGU
...(((((((....((((((.........((((.......)))).((.(((((((((.....)))))))))))....))))))))))))) ( -31.00)
>consensus
CCAACGAGUUCUCGGUUAUCUACCUCUGCCGGCAGCAGGUUCCGCCCACAGGUGUGAUCUACUCGCACCUGCGACCCGAUGGCGACUCUU
.......(((.((((...............(((..........)))..(((((((((.....)))))))))....)))).)))....... (-19.76 = -20.18 +   0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:39:42 2006