Locus 6444

Sequence ID 2R_DroMel_CAF1
Location 20,116,584 – 20,116,681
Length 97
Max. P 0.969109
window10280 window10281

overview

Window 0

Location 20,116,584 – 20,116,681
Length 97
Sequences 4
Columns 97
Reading direction forward
Mean pairwise identity 86.08
Mean single sequence MFE -27.81
Consensus MFE -19.23
Energy contribution -21.10
Covariance contribution 1.87
Combinations/Pair 1.17
Mean z-score -3.17
Structure conservation index 0.69
SVM decision value 1.64
SVM RNA-class probability 0.969109
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20116584 97 + 20766785
ACAAGCCGUUAAGCACAAGGGCUUCAAGAAGAUCCGAGGCCCUAAGCCAAAGGUAAGCAAUCGAAAUAUAAAUAUAUUUGUAUUAUAGUAUGCGAUA
....(((.....((...((((((((..........))))))))..))....)))..(((..(..((((((((....))))))))...)..))).... ( -22.70)
>DroSec_CAF1 1329 97 + 1
GCAAGCCGUAAGGCGCAAGGGCUUCAAAAAGGUUCGAGGCCCUAAGCCAAAGGUAAGCAAUCGAAAUAUAAAUAUCUUUGGAUUACGGCAUGCGAUA
(((.(((((((......((((((((..........))))))))...(((((((((.................))))))))).))))))).))).... ( -36.33)
>DroSim_CAF1 1906 97 + 1
GCAAGCCGUAAGGCGCAAGGGCUUCAAAAAGGUUCGAGGCCCUAAGCCAAAGGUAAGCAACCGAAAUAUAAAUAUAUUUGUAUUACGGCAUGCGAUA
(((.((((((((((...((((((((..........))))))))..)))...(((.....))).((((((....))))))...))))))).))).... ( -37.20)
>DroYak_CAF1 1297 97 + 1
ACCAGCGGUUAAGCCCAAUGGCUUCAAGAAGAUUCGAGACCAUAAGCAAAAGGUAACAAAUCGAAAUAUAUAGAUAUUUGUUUUAAGGCAUGCGAUA
....(((((((((((....)))))...((....))..))))....((.......((((((((..........)))..))))).....))..)).... ( -15.00)
>consensus
ACAAGCCGUAAAGCGCAAGGGCUUCAAAAAGAUUCGAGGCCCUAAGCCAAAGGUAAGCAAUCGAAAUAUAAAUAUAUUUGUAUUACGGCAUGCGAUA
(((.((((((((((...((((((((..........))))))))..)))...(((.....)))....................))))))).))).... (-19.23 = -21.10 +   1.87)

alignment

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secondary structure

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dotplot

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Window 1

Location 20,116,584 – 20,116,681
Length 97
Sequences 4
Columns 97
Reading direction reverse
Mean pairwise identity 86.08
Mean single sequence MFE -24.85
Consensus MFE -19.38
Energy contribution -20.38
Covariance contribution 1.00
Combinations/Pair 1.21
Mean z-score -2.43
Structure conservation index 0.78
SVM decision value 1.50
SVM RNA-class probability 0.959408
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20116584 97 - 20766785
UAUCGCAUACUAUAAUACAAAUAUAUUUAUAUUUCGAUUGCUUACCUUUGGCUUAGGGCCUCGGAUCUUCUUGAAGCCCUUGUGCUUAACGGCUUGU
....(((......((((.(((....))).)))).....)))...((((.(((..(((((.((((......)))).)))))...))).)).))..... ( -18.00)
>DroSec_CAF1 1329 97 - 1
UAUCGCAUGCCGUAAUCCAAAGAUAUUUAUAUUUCGAUUGCUUACCUUUGGCUUAGGGCCUCGAACCUUUUUGAAGCCCUUGCGCCUUACGGCUUGC
....(((.(((((((((...(((((....))))).))))))........(((..(((((.(((((....))))).)))))...)))....))).))) ( -31.00)
>DroSim_CAF1 1906 97 - 1
UAUCGCAUGCCGUAAUACAAAUAUAUUUAUAUUUCGGUUGCUUACCUUUGGCUUAGGGCCUCGAACCUUUUUGAAGCCCUUGCGCCUUACGGCUUGC
....(((.(((((((....................(((.....)))...(((..(((((.(((((....))))).)))))...)))))))))).))) ( -33.20)
>DroYak_CAF1 1297 97 - 1
UAUCGCAUGCCUUAAAACAAAUAUCUAUAUAUUUCGAUUUGUUACCUUUUGCUUAUGGUCUCGAAUCUUCUUGAAGCCAUUGGGCUUAACCGCUGGU
....((.............................((((((..(((..........)))..))))))......(((((....)))))....)).... ( -17.20)
>consensus
UAUCGCAUGCCGUAAUACAAAUAUAUUUAUAUUUCGAUUGCUUACCUUUGGCUUAGGGCCUCGAACCUUCUUGAAGCCCUUGCGCCUAACGGCUUGC
....(((.(((((((...((((((....))))))...............(((..(((((.((((......)))).)))))...)))))))))).))) (-19.38 = -20.38 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:11:11 2006