miRNA display CGI


Results 1 - 20 of 40 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
7641 3' -58.7 NC_001973.1 + 3840 0.67 0.7391
Target:  5'- cGCCggcgauUugGGCCgGCUcGUCGAuGUGCAu -3'
miRNA:   3'- -CGG------GugCCGGgUGGuCAGCUuCACGU- -5'
7641 3' -58.7 NC_001973.1 + 5762 0.68 0.700282
Target:  5'- gGCCCACGGCgCUACgCGcGUCGccGUGg- -3'
miRNA:   3'- -CGGGUGCCG-GGUG-GU-CAGCuuCACgu -5'
7641 3' -58.7 NC_001973.1 + 7188 0.67 0.775576
Target:  5'- uGUCCACGGgCggguucgUGCCGGUCGAaauaaAGUGCc -3'
miRNA:   3'- -CGGGUGCCgG-------GUGGUCAGCU-----UCACGu -5'
7641 3' -58.7 NC_001973.1 + 21492 0.72 0.465627
Target:  5'- cGCgUCGCGGCCCGCCGacUCGAGGUuGCc -3'
miRNA:   3'- -CG-GGUGCCGGGUGGUc-AGCUUCA-CGu -5'
7641 3' -58.7 NC_001973.1 + 21563 0.67 0.748603
Target:  5'- gGUCC-CGGCgCGCgGgGUUGAAGUGCu -3'
miRNA:   3'- -CGGGuGCCGgGUGgU-CAGCUUCACGu -5'
7641 3' -58.7 NC_001973.1 + 21694 0.66 0.811898
Target:  5'- uGCgCCGCcGUCgGCUGGUCGAAGUGa- -3'
miRNA:   3'- -CG-GGUGcCGGgUGGUCAGCUUCACgu -5'
7641 3' -58.7 NC_001973.1 + 22441 0.68 0.71009
Target:  5'- cGCCCACGGCCUuggaGCUGGuguUCG-AGcGCAa -3'
miRNA:   3'- -CGGGUGCCGGG----UGGUC---AGCuUCaCGU- -5'
7641 3' -58.7 NC_001973.1 + 27167 0.71 0.541247
Target:  5'- cGCCgACcgucGCCgACCGGUCGuGGGUGCAc -3'
miRNA:   3'- -CGGgUGc---CGGgUGGUCAGC-UUCACGU- -5'
7641 3' -58.7 NC_001973.1 + 34017 0.72 0.493394
Target:  5'- cGUCCACGGCCC---GGUCGAGGUucguguacaGCAg -3'
miRNA:   3'- -CGGGUGCCGGGuggUCAGCUUCA---------CGU- -5'
7641 3' -58.7 NC_001973.1 + 39814 0.66 0.831976
Target:  5'- gGgCCACGGCCU-CCGacaggggcuccgcgcGUCGAucGUGCAg -3'
miRNA:   3'- -CgGGUGCCGGGuGGU---------------CAGCUu-CACGU- -5'
7641 3' -58.7 NC_001973.1 + 39880 0.66 0.80326
Target:  5'- cGCUCgGCGGCaCCgGCCGGUuguugucgaagaCGGAGUGCc -3'
miRNA:   3'- -CGGG-UGCCG-GG-UGGUCA------------GCUUCACGu -5'
7641 3' -58.7 NC_001973.1 + 39962 0.66 0.820379
Target:  5'- aGCCC-CGGCgCCuCCGGgcCGAAGcgGCGc -3'
miRNA:   3'- -CGGGuGCCG-GGuGGUCa-GCUUCa-CGU- -5'
7641 3' -58.7 NC_001973.1 + 44871 0.66 0.785548
Target:  5'- cGUCCACGauGCCCACgCAcaCGgAGGUGCGg -3'
miRNA:   3'- -CGGGUGC--CGGGUG-GUcaGC-UUCACGU- -5'
7641 3' -58.7 NC_001973.1 + 45970 0.66 0.820379
Target:  5'- gGCCgGCGcGCUCGCCcugcuGUCGcuGGUGCc -3'
miRNA:   3'- -CGGgUGC-CGGGUGGu----CAGCu-UCACGu -5'
7641 3' -58.7 NC_001973.1 + 47789 0.69 0.660583
Target:  5'- gGUCCAggcCGGCCgCGCCGGcCGAcgcGUGCGc -3'
miRNA:   3'- -CGGGU---GCCGG-GUGGUCaGCUu--CACGU- -5'
7641 3' -58.7 NC_001973.1 + 54675 0.67 0.729508
Target:  5'- cGCCCAC-GCCCACCucGcCGAuggGCAg -3'
miRNA:   3'- -CGGGUGcCGGGUGGu-CaGCUucaCGU- -5'
7641 3' -58.7 NC_001973.1 + 64602 0.67 0.767306
Target:  5'- cGCCCGcCGGCCCGgCgaaAGUCGgcGccgaGCAa -3'
miRNA:   3'- -CGGGU-GCCGGGUgG---UCAGCuuCa---CGU- -5'
7641 3' -58.7 NC_001973.1 + 71752 0.7 0.584581
Target:  5'- cGCCC-CGGCCgCGCCGGgccccgccgccgagcUCGAGGccgGCGg -3'
miRNA:   3'- -CGGGuGCCGG-GUGGUC---------------AGCUUCa--CGU- -5'
7641 3' -58.7 NC_001973.1 + 74161 0.73 0.395863
Target:  5'- cGCCCGCGcagcgauacuGCCCGCC-GUCGAAGacgcgguugaUGCAa -3'
miRNA:   3'- -CGGGUGC----------CGGGUGGuCAGCUUC----------ACGU- -5'
7641 3' -58.7 NC_001973.1 + 77869 0.7 0.590551
Target:  5'- cUCCaACGGCCCACC-GUCGAGcccgaggaccuGUGCc -3'
miRNA:   3'- cGGG-UGCCGGGUGGuCAGCUU-----------CACGu -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.