miRNA display CGI


Results 1 - 20 of 157 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
13987 3' -67.9 NC_003521.1 + 68 0.7 0.280652
Target:  5'- uUCCgcggCGGCGUgcggCGGGC-CGGCCGGUc -3'
miRNA:   3'- cGGGa---GCCGCG----GCCCGaGCCGGCCGu -5'
13987 3' -67.9 NC_003521.1 + 13853 0.66 0.527707
Target:  5'- --gCUCGGCGCgGGGguCUCuGCgGGCGg -3'
miRNA:   3'- cggGAGCCGCGgCCC--GAGcCGgCCGU- -5'
13987 3' -67.9 NC_003521.1 + 13986 0.66 0.501464
Target:  5'- uGCCCggcgCGGCGgCGGGCgaGGaCCccauGGCGc -3'
miRNA:   3'- -CGGGa---GCCGCgGCCCGagCC-GG----CCGU- -5'
13987 3' -67.9 NC_003521.1 + 15504 0.66 0.518899
Target:  5'- cUCCUucucCGGCGCuCGGGUuggCGG-CGGCAu -3'
miRNA:   3'- cGGGA----GCCGCG-GCCCGa--GCCgGCCGU- -5'
13987 3' -67.9 NC_003521.1 + 16513 0.7 0.280652
Target:  5'- gGCUg-CGGCGCUcGGCUCGGCUGGa- -3'
miRNA:   3'- -CGGgaGCCGCGGcCCGAGCCGGCCgu -5'
13987 3' -67.9 NC_003521.1 + 17485 0.66 0.510151
Target:  5'- gGCaCCgguagCGGCGCCGccggucacGGCgguuccCGGCCcGGCGg -3'
miRNA:   3'- -CG-GGa----GCCGCGGC--------CCGa-----GCCGG-CCGU- -5'
13987 3' -67.9 NC_003521.1 + 24425 0.7 0.280652
Target:  5'- aGCCagaCGGCGCagGGGC-CGGCgGGCu -3'
miRNA:   3'- -CGGga-GCCGCGg-CCCGaGCCGgCCGu -5'
13987 3' -67.9 NC_003521.1 + 26282 0.66 0.518899
Target:  5'- aCCC-CGGUGCUGGuGCUgGGCaucuuggagGGCAc -3'
miRNA:   3'- cGGGaGCCGCGGCC-CGAgCCGg--------CCGU- -5'
13987 3' -67.9 NC_003521.1 + 27094 0.67 0.467404
Target:  5'- gGCCUucugCGGCGCCGucuGGCUgGGCauccccgaGGCc -3'
miRNA:   3'- -CGGGa---GCCGCGGC---CCGAgCCGg-------CCGu -5'
13987 3' -67.9 NC_003521.1 + 29707 0.73 0.202767
Target:  5'- cGUCCUCGGCGCCuGGCUgcUGaGCCucGGCGc -3'
miRNA:   3'- -CGGGAGCCGCGGcCCGA--GC-CGG--CCGU- -5'
13987 3' -67.9 NC_003521.1 + 33462 0.67 0.44266
Target:  5'- uGUUCUCGGUGUC-GGC-CGGCCGcGCc -3'
miRNA:   3'- -CGGGAGCCGCGGcCCGaGCCGGC-CGu -5'
13987 3' -67.9 NC_003521.1 + 36674 0.67 0.44266
Target:  5'- gGgUCUCGGCcgagcugagGCCGGGCUCcGGCgccUGGCc -3'
miRNA:   3'- -CgGGAGCCG---------CGGCCCGAG-CCG---GCCGu -5'
13987 3' -67.9 NC_003521.1 + 36840 0.66 0.48344
Target:  5'- gGCgCUgCuGUGCCGGGUagagcaccugacgUgGGCCGGCAa -3'
miRNA:   3'- -CGgGA-GcCGCGGCCCG-------------AgCCGGCCGU- -5'
13987 3' -67.9 NC_003521.1 + 39434 0.72 0.226401
Target:  5'- uCCCguaggCGGCGCCGuGGCUCccggGGaCGGCAg -3'
miRNA:   3'- cGGGa----GCCGCGGC-CCGAG----CCgGCCGU- -5'
13987 3' -67.9 NC_003521.1 + 39638 0.71 0.274792
Target:  5'- gGCCuCUCGuugcgcccacuuGCGCauGGCUCGGCUGGUg -3'
miRNA:   3'- -CGG-GAGC------------CGCGgcCCGAGCCGGCCGu -5'
13987 3' -67.9 NC_003521.1 + 39829 0.67 0.459076
Target:  5'- cGCCgaUGGCGCCu-GCUUGGCCuccGGCGu -3'
miRNA:   3'- -CGGgaGCCGCGGccCGAGCCGG---CCGU- -5'
13987 3' -67.9 NC_003521.1 + 42777 0.69 0.32248
Target:  5'- -aCCUUGGCGUCGGuaucucguacucacGCUCGGCagCGGCc -3'
miRNA:   3'- cgGGAGCCGCGGCC--------------CGAGCCG--GCCGu -5'
13987 3' -67.9 NC_003521.1 + 43131 0.71 0.246955
Target:  5'- aGCgCUCGGCGCUGGGCguggaggugcaCGcGCUGGUg -3'
miRNA:   3'- -CGgGAGCCGCGGCCCGa----------GC-CGGCCGu -5'
13987 3' -67.9 NC_003521.1 + 43412 0.68 0.421825
Target:  5'- cGCUUUCGGCGUCGuGGCcagacacccaguccCGGgCGGCGa -3'
miRNA:   3'- -CGGGAGCCGCGGC-CCGa-------------GCCgGCCGU- -5'
13987 3' -67.9 NC_003521.1 + 43547 0.67 0.461566
Target:  5'- cGCCCUCccgcuccccgccgccGGCGCCGcGUcaagcaccgcuccUCGGgCGGCGa -3'
miRNA:   3'- -CGGGAG---------------CCGCGGCcCG-------------AGCCgGCCGU- -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.