miRNA display CGI


Results 1 - 20 of 28 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
28502 5' -55.8 NC_005946.1 + 41109 0.66 0.864931
Target:  5'- uGGGUCCCAc--GCgCCCGACugGa-- -3'
miRNA:   3'- cUCCAGGGUuucUG-GGGCUGugCagu -5'
28502 5' -55.8 NC_005946.1 + 78482 0.66 0.864931
Target:  5'- uGAGGcUCCUGAGGucgguGCCCUGGuuggauucuaccCACGUCAg -3'
miRNA:   3'- -CUCC-AGGGUUUC-----UGGGGCU------------GUGCAGU- -5'
28502 5' -55.8 NC_005946.1 + 89831 0.66 0.864931
Target:  5'- cGAGGaUCCCucuugcGACCCCGAUGCc--- -3'
miRNA:   3'- -CUCC-AGGGuuu---CUGGGGCUGUGcagu -5'
28502 5' -55.8 NC_005946.1 + 94673 0.66 0.857126
Target:  5'- aGGGGUCC----GACCUCG-CACGUCc -3'
miRNA:   3'- -CUCCAGGguuuCUGGGGCuGUGCAGu -5'
28502 5' -55.8 NC_005946.1 + 95348 0.66 0.856333
Target:  5'- uGAGG-CCCAgGAGcuCCCCGAagggcacggacccCGCGUCGu -3'
miRNA:   3'- -CUCCaGGGU-UUCu-GGGGCU-------------GUGCAGU- -5'
28502 5' -55.8 NC_005946.1 + 97757 0.66 0.855538
Target:  5'- uGAGaUCCCuuuccccugcccAGGACCCUGucCACGUCAg -3'
miRNA:   3'- -CUCcAGGGu-----------UUCUGGGGCu-GUGCAGU- -5'
28502 5' -55.8 NC_005946.1 + 42920 0.66 0.832457
Target:  5'- aAGGUCCCGAcuuuuccuugGGuGCCCUGAaggGCGUCc -3'
miRNA:   3'- cUCCAGGGUU----------UC-UGGGGCUg--UGCAGu -5'
28502 5' -55.8 NC_005946.1 + 84535 0.67 0.823843
Target:  5'- gGAGGUggagagcaCCAGGGACgCCGugGaCGUCGu -3'
miRNA:   3'- -CUCCAg-------GGUUUCUGgGGCugU-GCAGU- -5'
28502 5' -55.8 NC_005946.1 + 103656 0.67 0.815046
Target:  5'- -cGGcCCaCAGGGGCCCCGACcaggACGcCGc -3'
miRNA:   3'- cuCCaGG-GUUUCUGGGGCUG----UGCaGU- -5'
28502 5' -55.8 NC_005946.1 + 8012 0.67 0.814157
Target:  5'- cAGGUUCUuggccggGAGGACCCUGGCucCGUCc -3'
miRNA:   3'- cUCCAGGG-------UUUCUGGGGCUGu-GCAGu -5'
28502 5' -55.8 NC_005946.1 + 11899 0.67 0.806075
Target:  5'- aGGGcCCgCAGGGacGCCCCGGC-CGUCc -3'
miRNA:   3'- cUCCaGG-GUUUC--UGGGGCUGuGCAGu -5'
28502 5' -55.8 NC_005946.1 + 30730 0.67 0.778209
Target:  5'- cGGGGUCCacc--ACCCCGGCaccgACGUCu -3'
miRNA:   3'- -CUCCAGGguuucUGGGGCUG----UGCAGu -5'
28502 5' -55.8 NC_005946.1 + 19253 0.68 0.739184
Target:  5'- -uGGUCCUGAGGACCCUG-CA-GUCc -3'
miRNA:   3'- cuCCAGGGUUUCUGGGGCuGUgCAGu -5'
28502 5' -55.8 NC_005946.1 + 11312 0.68 0.739184
Target:  5'- aGAGGaUCCCAGAGACCagggagauguaCGACGCu--- -3'
miRNA:   3'- -CUCC-AGGGUUUCUGGg----------GCUGUGcagu -5'
28502 5' -55.8 NC_005946.1 + 97920 0.68 0.739184
Target:  5'- -cGG-CCUcuGGGCCCCGcACGCGUUg -3'
miRNA:   3'- cuCCaGGGuuUCUGGGGC-UGUGCAGu -5'
28502 5' -55.8 NC_005946.1 + 102695 0.69 0.707832
Target:  5'- aGAGaGUUCCAccuGAGgugcgacGCCCCG-CACGUCAu -3'
miRNA:   3'- -CUC-CAGGGU---UUC-------UGGGGCuGUGCAGU- -5'
28502 5' -55.8 NC_005946.1 + 69590 0.69 0.698596
Target:  5'- cGAGGUCC-----GCCCCGAC-CGUCc -3'
miRNA:   3'- -CUCCAGGguuucUGGGGCUGuGCAGu -5'
28502 5' -55.8 NC_005946.1 + 64479 0.69 0.677913
Target:  5'- uGAGGUCCgCGGGG-UCCCGGCGgacCGUCc -3'
miRNA:   3'- -CUCCAGG-GUUUCuGGGGCUGU---GCAGu -5'
28502 5' -55.8 NC_005946.1 + 11652 0.69 0.677913
Target:  5'- cGAGGUguaCUCu--GACCCCGACAUgGUCGc -3'
miRNA:   3'- -CUCCA---GGGuuuCUGGGGCUGUG-CAGU- -5'
28502 5' -55.8 NC_005946.1 + 82850 0.7 0.657072
Target:  5'- gGAGGUCCCGgagguccgcGAGACCCCagagGGC-CGUg- -3'
miRNA:   3'- -CUCCAGGGU---------UUCUGGGG----CUGuGCAgu -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.