Locus 2269

Sequence ID 2L_DroMel_CAF1
Location 6,162,416 – 6,162,519
Length 103
Max. P 0.979850
window3639 window3640

overview

Window 9

Location 6,162,416 – 6,162,519
Length 103
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 75.07
Mean single sequence MFE -19.23
Consensus MFE -9.25
Energy contribution -9.67
Covariance contribution 0.42
Combinations/Pair 1.08
Mean z-score -2.31
Structure conservation index 0.48
SVM decision value 1.85
SVM RNA-class probability 0.979850
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6162416 103 + 22407834
-------ACAAAUAUUUUCAACUUUAGUCGC-UCAACU-UU-------AUGCCAAA-CAUUCAGUUGUUCCUCUUCCUUCAUUGCCAACUGAAAAUAUUGAGUGCGCCAAAAGUUUUCCC
-------............((((((.(((((-((((..-..-------.((.....-))((((((((..................))))))))....))))))).))..))))))..... ( -16.47)
>DroPse_CAF1 10622 110 + 1
AUAUACGAUAUAUAUUUUCAACUUUUGCCGCCUCAAGU-UU-------AUGCAAAAGCAUUCC-UGCCACCCCCUCCUGCCUCCACGA-CGAAAAAAUUGAGCGCGCCAAAAGUUUUUGU
...................((((((((.((((((((((-..-------((((....))))...-.)).....(.((.((....)).))-.)......))))).))).))))))))..... ( -20.10)
>DroSim_CAF1 8225 104 + 1
-------ACAAAUAUUUUCAACUUUUGUCGC-UCAACUUUU-------AUGCCAAA-CAUUCAGUUGUUCCUCUUCCUCCAUUUUCAACUGAAAAUAUUGAGUGCGCCAAAAGUUUUCCC
-------............((((((((.(((-((((..(((-------(((.....-)))(((((((..................))))))))))..)))))))...))))))))..... ( -20.07)
>DroYak_CAF1 8240 94 + 1
-------ACAAAUAUUUUCAACUUUUGUCGC-UCAACU-UU-------AUACCAAA-CAUUCAGU---UCCUCUUCCUC------CAACUGAAAAUAUUGAGUGCGCCAAAAGUUUGCGU
-------............((((((((.(((-((((..-((-------........-..((((((---(..........------.)))))))))..)))))))...))))))))..... ( -16.30)
>DroPer_CAF1 10619 117 + 1
AUAUACGAUAUAUAUUUUCAACUUUUGCCGCCUCAAGU-UUAUGCUUUAUGCAAAAGCAUUCC-UGCCACCCCCUCCUGCCUCCACGA-CGAAAAAAUUGAGCGCGCCAAAAGUUUUUGU
...................((((((((.((((((((((-((.(((.....))).)))).....-........(.((.((....)).))-.)......))))).))).))))))))..... ( -23.20)
>consensus
_______ACAAAUAUUUUCAACUUUUGUCGC_UCAACU_UU_______AUGCCAAA_CAUUCAGUGCCUCCUCUUCCUCCAUCCACAACUGAAAAUAUUGAGUGCGCCAAAAGUUUUCGU
...................((((((((((((.((((.............((......))((((((......................))))))....))))))).).))))))))..... ( -9.25 =  -9.67 +   0.42)

alignment

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secondary structure

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dotplot

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Window 0

Location 6,162,416 – 6,162,519
Length 103
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 75.07
Mean single sequence MFE -26.08
Consensus MFE -12.22
Energy contribution -11.78
Covariance contribution -0.44
Combinations/Pair 1.16
Mean z-score -1.73
Structure conservation index 0.47
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6162416 103 - 22407834
GGGAAAACUUUUGGCGCACUCAAUAUUUUCAGUUGGCAAUGAAGGAAGAGGAACAACUGAAUG-UUUGGCAU-------AA-AGUUGA-GCGACUAAAGUUGAAAAUAUUUGU-------
.....((((((...(((.(((....((((((........))))))..)))...(((((..(((-.....)))-------..-))))).-)))...))))))............------- ( -21.30)
>DroPse_CAF1 10622 110 - 1
ACAAAAACUUUUGGCGCGCUCAAUUUUUUCG-UCGUGGAGGCAGGAGGGGGUGGCA-GGAAUGCUUUUGCAU-------AA-ACUUGAGGCGGCAAAAGUUGAAAAUAUAUAUCGUAUAU
.....((((((((.(((.(((((...(..(.-((.((....)).)).)..)..(((-(((....))))))..-------..-..)))))))).))))))))................... ( -31.60)
>DroSim_CAF1 8225 104 - 1
GGGAAAACUUUUGGCGCACUCAAUAUUUUCAGUUGAAAAUGGAGGAAGAGGAACAACUGAAUG-UUUGGCAU-------AAAAGUUGA-GCGACAAAAGUUGAAAAUAUUUGU-------
.....((((((((.(((.(((..(((((((....)))))))))).........(((((..(((-.....)))-------...))))).-))).))))))))............------- ( -25.70)
>DroYak_CAF1 8240 94 - 1
ACGCAAACUUUUGGCGCACUCAAUAUUUUCAGUUG------GAGGAAGAGGA---ACUGAAUG-UUUGGUAU-------AA-AGUUGA-GCGACAAAAGUUGAAAAUAUUUGU-------
.....((((((((.(((..(((((...(((((((.------..........)---))))))((-(.....))-------).-.)))))-))).))))))))............------- ( -18.50)
>DroPer_CAF1 10619 117 - 1
ACAAAAACUUUUGGCGCGCUCAAUUUUUUCG-UCGUGGAGGCAGGAGGGGGUGGCA-GGAAUGCUUUUGCAUAAAGCAUAA-ACUUGAGGCGGCAAAAGUUGAAAAUAUAUAUCGUAUAU
.....((((((((.(((.(((((...(..(.-((.((....)).)).)..).....-...(((((((.....)))))))..-..)))))))).))))))))................... ( -33.30)
>consensus
ACGAAAACUUUUGGCGCACUCAAUAUUUUCAGUUGUGAAGGCAGGAAGAGGAACAACUGAAUG_UUUGGCAU_______AA_AGUUGA_GCGACAAAAGUUGAAAAUAUUUGU_______
.....((((((((.(((........(((((..............)))))...........(((......))).................))).))))))))................... (-12.22 = -11.78 +  -0.44)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:35 2006