Locus 9633

Sequence ID 3R_DroMel_CAF1
Location 25,457,943 – 25,458,033
Length 90
Max. P 0.881665
window15401 window15402

overview

Window 1

Location 25,457,943 – 25,458,033
Length 90
Sequences 6
Columns 90
Reading direction forward
Mean pairwise identity 77.23
Mean single sequence MFE -34.60
Consensus MFE -19.16
Energy contribution -19.58
Covariance contribution 0.42
Combinations/Pair 1.30
Mean z-score -1.59
Structure conservation index 0.55
SVM decision value -0.02
SVM RNA-class probability 0.524052
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25457943 90 + 27905053
UCCGGCCACAGUGCUGAUGAUUCCAUUGGGCGAUCCCAGCGAGGCGUUCGAGCUGCGCAACCGCUUCAUGCCCGUCAUGGGCAUGAAGGA
..(((((.(((((..((....)))))))))).......(((.(((......))).)))...))((((((((((.....)))))))))).. ( -35.90)
>DroPse_CAF1 153972 84 + 1
ACCGCCA--AGAGCUGGGGUC----GUGGGCGAGCUCAGCGAGGAGUUGGAGCUGCGCAGACGCCUCAUGCCCGCCAUGGGCAUGAAGGA
.((....--......((.(((----.((.((.((((((((.....))).))))))).))))).))((((((((.....)))))))).)). ( -38.40)
>DroEre_CAF1 148424 90 + 1
UCCGCCCACAGAGCUGAUGACUCCGUUCGGAGAUCCCAGCGAGGCGUUCGAGCUGCGUAACCGUUUCAUGCCCGUCAUGGGCAUGAAGGA
..(((.......((((..((((((....)))).)).))))..(((......))))))...((...((((((((.....)))))))).)). ( -33.80)
>DroYak_CAF1 151557 90 + 1
UCCGCCCACAGAGCUAAUGAUACCAUUCGCAGAUCCCAGUGAGGCGUUCGAGCUGCGCAACCGUUUCAUGCCCGUCAUGGGCAUGAAGGA
(((((((((...((.((((....)))).)).(....).))).)))(((((.....)).)))...(((((((((.....)))))))))))) ( -29.40)
>DroAna_CAF1 150148 84 + 1
GCCACCCACC------ACGUUUCCAGUGGGUGAGCCCAAUGAUGAGUUGGAGCUGCGAAGACGUUUCAUACCCGUCAUGGGCAUGAAGGA
..(((((((.------.........))))))).(((((.(((((.((((((((.........)))))).)).))))))))))........ ( -31.70)
>DroPer_CAF1 151934 84 + 1
ACCGCCA--AGAGCUGGGGUC----GUGGGCGAGCUCAGCGAGGAGUUGGAGCUGCGCAGACGCCUCAUGCCCGCCAUGGGCAUGAAGGA
.((....--......((.(((----.((.((.((((((((.....))).))))))).))))).))((((((((.....)))))))).)). ( -38.40)
>consensus
UCCGCCCACAGAGCUGAUGACUCCAGUGGGCGAGCCCAGCGAGGAGUUCGAGCUGCGCAAACGCUUCAUGCCCGUCAUGGGCAUGAAGGA
.((............((((.......((((....))))(((.((........)).)))...))))((((((((.....)))))))).)). (-19.16 = -19.58 +   0.42)

alignment

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secondary structure

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dotplot

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Window 2

Location 25,457,943 – 25,458,033
Length 90
Sequences 6
Columns 90
Reading direction reverse
Mean pairwise identity 77.23
Mean single sequence MFE -34.82
Consensus MFE -19.17
Energy contribution -21.56
Covariance contribution 2.39
Combinations/Pair 1.27
Mean z-score -2.06
Structure conservation index 0.55
SVM decision value 0.92
SVM RNA-class probability 0.881665
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25457943 90 - 27905053
UCCUUCAUGCCCAUGACGGGCAUGAAGCGGUUGCGCAGCUCGAACGCCUCGCUGGGAUCGCCCAAUGGAAUCAUCAGCACUGUGGCCGGA
..((((((((((.....))))))))))((((..((..(((.((...((....((((....))))..)).....)))))..))..)))).. ( -38.00)
>DroPse_CAF1 153972 84 - 1
UCCUUCAUGCCCAUGGCGGGCAUGAGGCGUCUGCGCAGCUCCAACUCCUCGCUGAGCUCGCCCAC----GACCCCAGCUCU--UGGCGGU
..((((((((((.....))))))))))(((..(((.(((((............))))))))..))----)(((((((...)--))).))) ( -34.00)
>DroEre_CAF1 148424 90 - 1
UCCUUCAUGCCCAUGACGGGCAUGAAACGGUUACGCAGCUCGAACGCCUCGCUGGGAUCUCCGAACGGAGUCAUCAGCUCUGUGGGCGGA
...(((((((((.....))))))))).(((((....))).))..(((((.(((((((.((((....)))))).))))).....))))).. ( -36.90)
>DroYak_CAF1 151557 90 - 1
UCCUUCAUGCCCAUGACGGGCAUGAAACGGUUGCGCAGCUCGAACGCCUCACUGGGAUCUGCGAAUGGUAUCAUUAGCUCUGUGGGCGGA
((((((((((((.....)))))))))((.(((.(((((.((.....((.....)))).)))))))).)).......(((.....)))))) ( -31.70)
>DroAna_CAF1 150148 84 - 1
UCCUUCAUGCCCAUGACGGGUAUGAAACGUCUUCGCAGCUCCAACUCAUCAUUGGGCUCACCCACUGGAAACGU------GGUGGGUGGC
...(((((((((.....)))))))))........(((((.((((.......)))))))(((((((((....)..------)))))))))) ( -34.30)
>DroPer_CAF1 151934 84 - 1
UCCUUCAUGCCCAUGGCGGGCAUGAGGCGUCUGCGCAGCUCCAACUCCUCGCUGAGCUCGCCCAC----GACCCCAGCUCU--UGGCGGU
..((((((((((.....))))))))))(((..(((.(((((............))))))))..))----)(((((((...)--))).))) ( -34.00)
>consensus
UCCUUCAUGCCCAUGACGGGCAUGAAACGGCUGCGCAGCUCCAACGCCUCGCUGGGAUCGCCCAAUGGAAACAUCAGCUCUGUGGGCGGA
...(((((((((.....))))))))).((((..((.((((........(((.((((....)))).))).......)))).))..)))).. (-19.17 = -21.56 +   2.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:38:47 2006