miRNA display CGI


Results 1 - 20 of 26 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
30878 3' -59.2 NC_006552.1 + 37776 0.66 0.591664
Target:  5'- cCCGCGCUcugcaucACAGCGUCGGcGaUCGgCGcGAu -3'
miRNA:   3'- -GGCGCGA-------UGUCGUAGCU-C-GGCgGC-CU- -5'
30878 3' -59.2 NC_006552.1 + 9656 0.66 0.582245
Target:  5'- uUGCGCUcucGCcuGCAucaaucauUCGAGCCGCCa-- -3'
miRNA:   3'- gGCGCGA---UGu-CGU--------AGCUCGGCGGccu -5'
30878 3' -59.2 NC_006552.1 + 60279 0.66 0.5812
Target:  5'- gCCGCGCcACccggcuggcccugGGCAUCG-GCCcCUGGGu -3'
miRNA:   3'- -GGCGCGaUG-------------UCGUAGCuCGGcGGCCU- -5'
30878 3' -59.2 NC_006552.1 + 12210 0.66 0.571815
Target:  5'- aCCGCGCagaggccuCAGCG-CGGGCgGCCa-- -3'
miRNA:   3'- -GGCGCGau------GUCGUaGCUCGgCGGccu -5'
30878 3' -59.2 NC_006552.1 + 59579 0.66 0.561431
Target:  5'- aUGC-CUACGGCGUgGAGCUGgacCCGGc -3'
miRNA:   3'- gGCGcGAUGUCGUAgCUCGGC---GGCCu -5'
30878 3' -59.2 NC_006552.1 + 33748 0.66 0.551099
Target:  5'- gCCaGCGCggcgGCGGCAuugcugUUGAGCagaaCGCCGGc -3'
miRNA:   3'- -GG-CGCGa---UGUCGU------AGCUCG----GCGGCCu -5'
30878 3' -59.2 NC_006552.1 + 63191 0.66 0.551099
Target:  5'- -aGCGCUGCaaGGCGUUGuccuGGCCGCaaCGGu -3'
miRNA:   3'- ggCGCGAUG--UCGUAGC----UCGGCG--GCCu -5'
30878 3' -59.2 NC_006552.1 + 54115 0.66 0.540825
Target:  5'- aCCGCagGCUcugGC-GCAUCGucugagcgccgGGCCGcCCGGAg -3'
miRNA:   3'- -GGCG--CGA---UGuCGUAGC-----------UCGGC-GGCCU- -5'
30878 3' -59.2 NC_006552.1 + 26870 0.66 0.540825
Target:  5'- gCCGCGUUGCAGCGcggcaucuUCG-GCgacguuguugaUGCCGGc -3'
miRNA:   3'- -GGCGCGAUGUCGU--------AGCuCG-----------GCGGCCu -5'
30878 3' -59.2 NC_006552.1 + 52442 0.66 0.540825
Target:  5'- aCUGgGUUGaGGgAUgGGGCUGCCGGAu -3'
miRNA:   3'- -GGCgCGAUgUCgUAgCUCGGCGGCCU- -5'
30878 3' -59.2 NC_006552.1 + 47952 0.67 0.510419
Target:  5'- cCCGCGcCUGCAaggugaaagccGCAUaaaGAGCaugccccgguuCGCCGGGg -3'
miRNA:   3'- -GGCGC-GAUGU-----------CGUAg--CUCG-----------GCGGCCU- -5'
30878 3' -59.2 NC_006552.1 + 3575 0.67 0.510419
Target:  5'- -gGUGCU--GGC--CGAGCCGCCGGc -3'
miRNA:   3'- ggCGCGAugUCGuaGCUCGGCGGCCu -5'
30878 3' -59.2 NC_006552.1 + 62759 0.67 0.510419
Target:  5'- -gGCGCUGCcGCGccugCGAGCgaCGCCuGGAc -3'
miRNA:   3'- ggCGCGAUGuCGUa---GCUCG--GCGG-CCU- -5'
30878 3' -59.2 NC_006552.1 + 54000 0.67 0.510419
Target:  5'- gCGCGUgGCccuggcccuGGCcgCGAGCCGCCa-- -3'
miRNA:   3'- gGCGCGaUG---------UCGuaGCUCGGCGGccu -5'
30878 3' -59.2 NC_006552.1 + 2038 0.68 0.461443
Target:  5'- uCUGCGCcugggACAgGCGcUUGAGCgCGCCGGc -3'
miRNA:   3'- -GGCGCGa----UGU-CGU-AGCUCG-GCGGCCu -5'
30878 3' -59.2 NC_006552.1 + 38263 0.68 0.460488
Target:  5'- aUCGCGCUGCGGCucGUUGAGCaccacgacacgauCGgCGGu -3'
miRNA:   3'- -GGCGCGAUGUCG--UAGCUCG-------------GCgGCCu -5'
30878 3' -59.2 NC_006552.1 + 13237 0.68 0.433274
Target:  5'- gCGCGCUGCAugagggcuacauGCucAUCGAGC-GUCGGGg -3'
miRNA:   3'- gGCGCGAUGU------------CG--UAGCUCGgCGGCCU- -5'
30878 3' -59.2 NC_006552.1 + 54283 0.69 0.41506
Target:  5'- aCCaC-CUACGGCuUCGcGCCGCCGGu -3'
miRNA:   3'- -GGcGcGAUGUCGuAGCuCGGCGGCCu -5'
30878 3' -59.2 NC_006552.1 + 26289 0.69 0.406131
Target:  5'- gCCGCGCc-CAGCGgguAGUCGCCGGc -3'
miRNA:   3'- -GGCGCGauGUCGUagcUCGGCGGCCu -5'
30878 3' -59.2 NC_006552.1 + 29171 0.69 0.38864
Target:  5'- -gGCGCUGgaacacCAGCAUUGAGCUGCaCGa- -3'
miRNA:   3'- ggCGCGAU------GUCGUAGCUCGGCG-GCcu -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.