Locus 6579

Sequence ID 3R_DroMel_CAF1
Location 17,323,660 – 17,323,758
Length 98
Max. P 0.957889
window10706 window10707

overview

Window 6

Location 17,323,660 – 17,323,758
Length 98
Sequences 5
Columns 105
Reading direction forward
Mean pairwise identity 83.77
Mean single sequence MFE -29.19
Consensus MFE -16.71
Energy contribution -16.15
Covariance contribution -0.56
Combinations/Pair 1.11
Mean z-score -3.24
Structure conservation index 0.57
SVM decision value 1.48
SVM RNA-class probability 0.957889
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17323660 98 + 27905053
CUCUCGUUUUGCAUUAAAAUUGCAUUACAAUUGCC------GUGGAUGG-GGCGCUGUUGUUGCUAUCUUUGUUGCUUUUAUUACGGCAAUUGUUUCUGCGUUGU
.....................(((..(((((((((------((((..((-(((((................).))))))..)))))))))))))...)))..... ( -24.99)
>DroPse_CAF1 7384 86 + 1
CUCUCGUUUUGCAUUAAAAUUGCAUUACAAUUGCC------GUGGAUGGAGGCAAUGU------------UGUUGCUUUUAUUAUGGCAAUUGUU-CGGCGUUGU
....((((.((((.......))))..(((((((((------(((.(((((((((((..------------.))))))))))))))))))))))).-.)))).... ( -29.80)
>DroEre_CAF1 4964 98 + 1
CUCUCGUUUUGCAUUAAAAUUGCAUUACAAUUGCC------GUGGAAGG-GGCGCAGUUGUUGCCGUCUUUGUUGCCUUUAUUGCGGCAAUUGUUCCUGCGUUGU
.....................(((..(((((((((------(..(.(((-(((((((............))).))))))).)..))))))))))...)))..... ( -31.90)
>DroYak_CAF1 3253 104 + 1
CUCUCGUUUUGCAUUAAAAUUGCAUUACAAUUGCCUACAUUGUGGAAGG-GGCGCUGUUGUUGGCGUCUUUGUUGCUUUUAUUACGGCAAUUGUUUCUGCGUUGU
.....................(((..(((((((((......(..(.(((-((((((......))))))))).)..).........)))))))))...)))..... ( -29.06)
>DroPer_CAF1 8233 86 + 1
CUCUCGUUUUGCAUUAAAAUUGCAUUACAAUUGCC------AUGGAUGGAGGCAAUGU------------UGUUGCUUUUAUUAUGGCAAUUGUU-CGGCGUUGU
....((((.((((.......))))..(((((((((------(((.(((((((((((..------------.))))))))))))))))))))))).-.)))).... ( -30.20)
>consensus
CUCUCGUUUUGCAUUAAAAUUGCAUUACAAUUGCC______GUGGAUGG_GGCGCUGUUGUUG___UCUUUGUUGCUUUUAUUACGGCAAUUGUU_CUGCGUUGU
....(((..((((.......))))..(((((((((......(((((.((.((((................)))).)))))))...)))))))))....))).... (-16.71 = -16.15 +  -0.56)

alignment

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secondary structure

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dotplot

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Window 7

Location 17,323,660 – 17,323,758
Length 98
Sequences 5
Columns 105
Reading direction reverse
Mean pairwise identity 83.77
Mean single sequence MFE -20.14
Consensus MFE -12.50
Energy contribution -12.90
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -2.68
Structure conservation index 0.62
SVM decision value 1.12
SVM RNA-class probability 0.917869
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17323660 98 - 27905053
ACAACGCAGAAACAAUUGCCGUAAUAAAAGCAACAAAGAUAGCAACAACAGCGCC-CCAUCCAC------GGCAAUUGUAAUGCAAUUUUAAUGCAAAACGAGAG
.....(((...(((((((((((........(......)...((.......))...-......))------)))))))))..)))..................... ( -19.70)
>DroPse_CAF1 7384 86 - 1
ACAACGCCG-AACAAUUGCCAUAAUAAAAGCAACA------------ACAUUGCCUCCAUCCAC------GGCAAUUGUAAUGCAAUUUUAAUGCAAAACGAGAG
.......((-.(((((((((.........((((..------------...))))..........------)))))))))..((((.......))))...)).... ( -17.11)
>DroEre_CAF1 4964 98 - 1
ACAACGCAGGAACAAUUGCCGCAAUAAAGGCAACAAAGACGGCAACAACUGCGCC-CCUUCCAC------GGCAAUUGUAAUGCAAUUUUAAUGCAAAACGAGAG
.....(((...((((((((((.......(((.....((..(....)..))..)))-.......)------)))))))))..)))..................... ( -24.64)
>DroYak_CAF1 3253 104 - 1
ACAACGCAGAAACAAUUGCCGUAAUAAAAGCAACAAAGACGCCAACAACAGCGCC-CCUUCCACAAUGUAGGCAAUUGUAAUGCAAUUUUAAUGCAAAACGAGAG
.....(((...(((((((((((.......))........(((........)))..-..............)))))))))..)))..................... ( -19.40)
>DroPer_CAF1 8233 86 - 1
ACAACGCCG-AACAAUUGCCAUAAUAAAAGCAACA------------ACAUUGCCUCCAUCCAU------GGCAAUUGUAAUGCAAUUUUAAUGCAAAACGAGAG
.......((-.(((((((((((.......((((..------------...))))........))------)))))))))..((((.......))))...)).... ( -19.86)
>consensus
ACAACGCAG_AACAAUUGCCGUAAUAAAAGCAACAAAGA___CAACAACAGCGCC_CCAUCCAC______GGCAAUUGUAAUGCAAUUUUAAUGCAAAACGAGAG
.....(((...(((((((((..................................................)))))))))..)))..................... (-12.50 = -12.90 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:24:58 2006