Locus 1735

Sequence ID 2R_DroMel_CAF1
Location 6,524,363 – 6,524,477
Length 114
Max. P 0.661163
window2899

overview

Window 9

Location 6,524,363 – 6,524,477
Length 114
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 78.75
Mean single sequence MFE -30.53
Consensus MFE -14.31
Energy contribution -14.90
Covariance contribution 0.59
Combinations/Pair 1.19
Mean z-score -2.22
Structure conservation index 0.47
SVM decision value 0.27
SVM RNA-class probability 0.661163
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6524363 114 - 20766785
GAAUGGCCCUGGCCAAAUGGCAAUGGCUGGCUGUUAAGGGCGCAAUGGAAGCAU-----UUUCCAG-CACGCCGUUACUUUUAAUUAACUUUGAUUUUCAUUAAAGAAGCCAUAAACACG
....((((...(((....)))...))))((((..(((.((((...((((((...-----)))))).-..)))).)))...........(((((((....))))))).))))......... ( -35.00)
>DroPse_CAF1 89124 94 - 1
GAAUGGCCCUGGCUG-------------GGCCGUUAAGAGUGCAAUGGAAGC------------AG-AAUGCCGUUACUUUUAAUUAACUUUGAUUUUCAUUAAAGAAGCCAUAAACAGC
....(((((.....)-------------))))((((((((((..((((....------------..-....))))))))))))))...(((((((....))))))).............. ( -23.50)
>DroWil_CAF1 114750 101 - 1
GAAUGGCCCUG--CAAAUG------GCUGGCAAUGA------CUGUGGAAACAU-----UUUCCAGUCGUGCCGUUACUUUUAAUUAACUUUGAUUUUCAUUAAACAAGCCAUAAACACA
...........--...(((------(((((((.(((------(((.((((....-----))))))))))))))((((........))))..................))))))....... ( -25.10)
>DroYak_CAF1 95957 119 - 1
GAAUGGCCUCGGCCGAAUGGCAAUGGCUGGCUGUUAAGGGCGCAAUGGAAGCAUAGCGCUUUCCAG-CACGCCGUUACUUUUAAUUAACUUUGAUUUUCAUUAAAGAAGCCAUAAACACG
...((((....)))).(((((((((((..((((...(((((((.(((....))).))))))).)))-)..))))))............(((((((....)))))))..)))))....... ( -42.70)
>DroAna_CAF1 91273 114 - 1
GAAUGGCCCUGGCCAAAUGGCAAUGGCUGGCAGUUAAGGGCGCAAUGGAAGCAU-----UUUCCAA-CACGCCGUUACUUUUAAUUAACUUUGAUUUUCAUUAAAGAAGCCAUAAACACG
....((((...(((....)))...))))((((((.((.((((...((((((...-----)))))).-..)))).))))).........(((((((....)))))))..)))......... ( -33.40)
>DroPer_CAF1 87230 94 - 1
GAAUGGCCCUGGCUG-------------GGCCGUUAAGAGUGCAAUGGAAGC------------AG-AAUGCCGUUACUUUUAAUUAACUUUGAUUUUCAUUAAAGAAGCCAUAAACAGA
....(((((.....)-------------))))((((((((((..((((....------------..-....))))))))))))))...(((((((....))))))).............. ( -23.50)
>consensus
GAAUGGCCCUGGCCAAAUG______GCUGGCAGUUAAGGGCGCAAUGGAAGCAU_____UUUCCAG_CACGCCGUUACUUUUAAUUAACUUUGAUUUUCAUUAAAGAAGCCAUAAACACG
...((((....)))).............(((.((((((((...(((((.......................))))).))))))))...(((((((....)))))))..)))......... (-14.31 = -14.90 +   0.59)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:12:00 2006