miRNA display CGI


Results 1 - 20 of 27 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
27034 5' -57.5 NC_005832.1 + 94195 0.66 0.721102
Target:  5'- gAAAG-CCGggcuGGGAGGCCCUCuuuccGCCa-- -3'
miRNA:   3'- -UUUCaGGU----UCCUCCGGGAGc----CGGaau -5'
27034 5' -57.5 NC_005832.1 + 38715 0.66 0.721102
Target:  5'- cGGAGcUCGAGGAGGCUUUCguagaccuGGCCUUc -3'
miRNA:   3'- -UUUCaGGUUCCUCCGGGAG--------CCGGAAu -5'
27034 5' -57.5 NC_005832.1 + 96365 0.66 0.721102
Target:  5'- ---cUCCGAGGAGagcucagcGCCCugUCGGCCg-- -3'
miRNA:   3'- uuucAGGUUCCUC--------CGGG--AGCCGGaau -5'
27034 5' -57.5 NC_005832.1 + 28064 0.66 0.707652
Target:  5'- --uGUCCAGGGugguggggaccaagAGGCCCUUuGCCg-- -3'
miRNA:   3'- uuuCAGGUUCC--------------UCCGGGAGcCGGaau -5'
27034 5' -57.5 NC_005832.1 + 78277 0.66 0.70036
Target:  5'- --cGUCCuuGaAGGUCCUUGGCCUg- -3'
miRNA:   3'- uuuCAGGuuCcUCCGGGAGCCGGAau -5'
27034 5' -57.5 NC_005832.1 + 12992 0.66 0.70036
Target:  5'- cGGGGUCCGucAGGcugggguccAGGCCCcUGGUCUUGa -3'
miRNA:   3'- -UUUCAGGU--UCC---------UCCGGGaGCCGGAAU- -5'
27034 5' -57.5 NC_005832.1 + 54943 0.66 0.689892
Target:  5'- cGGGGUCC-AGGAcGGUCCccccgUCGGCCcUUAg -3'
miRNA:   3'- -UUUCAGGuUCCU-CCGGG-----AGCCGG-AAU- -5'
27034 5' -57.5 NC_005832.1 + 66843 0.67 0.662455
Target:  5'- --uGUCCAGGGAcagguccccaaacacGGUCC-CGGCCg-- -3'
miRNA:   3'- uuuCAGGUUCCU---------------CCGGGaGCCGGaau -5'
27034 5' -57.5 NC_005832.1 + 48296 0.67 0.658214
Target:  5'- uAAAGUCCugcaGGGCCCUggucaCGGCCUg- -3'
miRNA:   3'- -UUUCAGGuuccUCCGGGA-----GCCGGAau -5'
27034 5' -57.5 NC_005832.1 + 43130 0.67 0.647597
Target:  5'- uGGAGacacCCAGGGAGGCCgUgcUGGCCa-- -3'
miRNA:   3'- -UUUCa---GGUUCCUCCGGgA--GCCGGaau -5'
27034 5' -57.5 NC_005832.1 + 49006 0.67 0.647597
Target:  5'- uAAAGUCCcugacguaGAGGAGGUCgCacucgaCGGCCUUGg -3'
miRNA:   3'- -UUUCAGG--------UUCCUCCGG-Ga-----GCCGGAAU- -5'
27034 5' -57.5 NC_005832.1 + 2137 0.68 0.605085
Target:  5'- uAAAGUCCGAGGGGGa-CagGGCCa-- -3'
miRNA:   3'- -UUUCAGGUUCCUCCggGagCCGGaau -5'
27034 5' -57.5 NC_005832.1 + 79289 0.68 0.594491
Target:  5'- ----gCCAGGGAGGCCgCUCcacccaGGCCUc- -3'
miRNA:   3'- uuucaGGUUCCUCCGG-GAG------CCGGAau -5'
27034 5' -57.5 NC_005832.1 + 43240 0.68 0.583926
Target:  5'- ---cUCCAGGGAGaaccccaccCCCUCGGCCa-- -3'
miRNA:   3'- uuucAGGUUCCUCc--------GGGAGCCGGaau -5'
27034 5' -57.5 NC_005832.1 + 92557 0.68 0.573398
Target:  5'- cGGGUCCGAGGAcgcgacggggacGGCUCUgGGCUg-- -3'
miRNA:   3'- uUUCAGGUUCCU------------CCGGGAgCCGGaau -5'
27034 5' -57.5 NC_005832.1 + 104105 0.68 0.573398
Target:  5'- --cGUCCGcGGcGGCCCUCagGGCCa-- -3'
miRNA:   3'- uuuCAGGUuCCuCCGGGAG--CCGGaau -5'
27034 5' -57.5 NC_005832.1 + 49515 0.68 0.562916
Target:  5'- aAGGGUCCGAGGAGGUCa--GGCg--- -3'
miRNA:   3'- -UUUCAGGUUCCUCCGGgagCCGgaau -5'
27034 5' -57.5 NC_005832.1 + 28002 0.69 0.501342
Target:  5'- --cGcCUAAGGAGGUCCagGGCCUg- -3'
miRNA:   3'- uuuCaGGUUCCUCCGGGagCCGGAau -5'
27034 5' -57.5 NC_005832.1 + 16980 0.7 0.481463
Target:  5'- gGAGGUCCu-GGAuGGCCCUCaGCUUg- -3'
miRNA:   3'- -UUUCAGGuuCCU-CCGGGAGcCGGAau -5'
27034 5' -57.5 NC_005832.1 + 90776 0.7 0.461974
Target:  5'- aGGAGccUCCuGAGGGGcccGCCCUCGGCCg-- -3'
miRNA:   3'- -UUUC--AGG-UUCCUC---CGGGAGCCGGaau -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.