Locus 1380

Sequence ID 3R_DroMel_CAF1
Location 4,021,744 – 4,021,838
Length 94
Max. P 0.912089
window2275

overview

Window 5

Location 4,021,744 – 4,021,838
Length 94
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 76.27
Mean single sequence MFE -26.05
Consensus MFE -13.31
Energy contribution -13.48
Covariance contribution 0.17
Combinations/Pair 1.24
Mean z-score -2.17
Structure conservation index 0.51
SVM decision value 1.08
SVM RNA-class probability 0.912089
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4021744 94 - 27905053
GGAAG--AAAGCCAAGG--CU--------UUCCUACGC-CUGCCGAGAUAAAACGUUGGCAUAGAAAUCAGUGGCAUGUAUCUUAUGGAUACAGC-AGCCAUUUUUAU
.((.(--(((((....)--))--------)))(((.((-(...((........))..))).)))...))((((((.((((((.....))))))..-.))))))..... ( -28.50)
>DroVir_CAF1 3774 85 - 1
GUGUG--CUAGGCGCAG--CU--------U----UAGCUGU---GAGAUA-AGCGCUGCCA---AAAUCAGUAGCAUGUAUCUUAUGGAUACAGCCAGCCAUUUUUAU
(((.(--((.(((((((--(.--------.----..)))))---......-...(((((..---......))))).((((((.....)))))))))))))))...... ( -29.00)
>DroPse_CAF1 8245 98 - 1
GAAAAGAAAAGCCAAAGCGCU--------UCCCUAUGC-CUGCUGAGAUAAAACGUUGGCAUAGAAAUCAGUGGCAUGUAUCUUAUGGAUACAGC-AGCCAUUUUUAU
((...(((..((....))..)--------)).((((((-(.((...........)).)))))))...))((((((.((((((.....))))))..-.))))))..... ( -26.90)
>DroWil_CAF1 25319 89 - 1
GAAUG------CUC-UC--UU--------UUUCUAGCU-AGGCUCAGAUAAAACGUUGGCAUAGAAAUCAGUGGCAUGUAUCUUAUGGAUACAGC-AGCCGUUUUUAU
..(((------((.-.(--((--------((((((((.-..))).))).)))).)..)))))..........(((.((((((.....))))))..-.)))........ ( -19.70)
>DroAna_CAF1 8439 102 - 1
GGAAG--AAAGCCAAAU--CCAAAGCGAAAGCCAAAGC-CUGCUGAGAUAAAACGUUGGCAUAGAUAUCAGUGGCAUGUAUCUUAUGGAUACAGC-AGCCAUUUUUAU
.....--...(((((..--.....((....))...((.-...))...........)))))....(((..((((((.((((((.....))))))..-.))))))..))) ( -25.30)
>DroPer_CAF1 8550 98 - 1
GAAAAGAAAAGCCAAAGCGCU--------UCCCUAUGC-CUGCUGAGAUAAAACGUUGGCAUAGAAAUCAGUGGCAUGUAUCUUAUGGAUACAGC-AGCCAUUUUUAU
((...(((..((....))..)--------)).((((((-(.((...........)).)))))))...))((((((.((((((.....))))))..-.))))))..... ( -26.90)
>consensus
GAAAG__AAAGCCAAAG__CU________UCCCUAAGC_CUGCUGAGAUAAAACGUUGGCAUAGAAAUCAGUGGCAUGUAUCUUAUGGAUACAGC_AGCCAUUUUUAU
..........(((((........................................))))).........((((((.((((((.....))))))....))))))..... (-13.31 = -13.48 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:08:37 2006