miRNA display CGI


Results 1 - 20 of 92 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
14616 3' -57.6 NC_003521.1 + 349 0.68 0.846853
Target:  5'- aGCGUGAGCugccggaGGCGGCgccugCGACCgcugcccgccucacgCGGg- -3'
miRNA:   3'- -CGUACUCG-------UCGCCGa----GCUGGa--------------GCCac -5'
14616 3' -57.6 NC_003521.1 + 3206 0.67 0.882908
Target:  5'- aGCAacccGAGCGGUGuGUgCGugUUCGGUGa -3'
miRNA:   3'- -CGUa---CUCGUCGC-CGaGCugGAGCCAC- -5'
14616 3' -57.6 NC_003521.1 + 9662 0.68 0.854446
Target:  5'- cGCcgGAGCAGCGGaucugUCG-CCUCcaaGUGa -3'
miRNA:   3'- -CGuaCUCGUCGCCg----AGCuGGAGc--CAC- -5'
14616 3' -57.6 NC_003521.1 + 16507 0.67 0.902115
Target:  5'- aGCAcGGGCuGCGGCgcUCGG-CUCGGcUGg -3'
miRNA:   3'- -CGUaCUCGuCGCCG--AGCUgGAGCC-AC- -5'
14616 3' -57.6 NC_003521.1 + 21913 0.66 0.929802
Target:  5'- uGC-UGAcGCAGUcgagacccuGGCgggCGGCCUCGGg- -3'
miRNA:   3'- -CGuACU-CGUCG---------CCGa--GCUGGAGCCac -5'
14616 3' -57.6 NC_003521.1 + 28306 0.72 0.607866
Target:  5'- ---aGAGCAGCGGCagCGACCcCGGc- -3'
miRNA:   3'- cguaCUCGUCGCCGa-GCUGGaGCCac -5'
14616 3' -57.6 NC_003521.1 + 34498 0.68 0.854446
Target:  5'- aGCA-GAGCAGCGaGCgcagguagCGGCCgCGGg- -3'
miRNA:   3'- -CGUaCUCGUCGC-CGa-------GCUGGaGCCac -5'
14616 3' -57.6 NC_003521.1 + 34537 0.67 0.86907
Target:  5'- cGCGcGAGCGGCGacagaGUUCGGCCUUguggucggGGUGc -3'
miRNA:   3'- -CGUaCUCGUCGC-----CGAGCUGGAG--------CCAC- -5'
14616 3' -57.6 NC_003521.1 + 37204 0.66 0.919386
Target:  5'- aGCcgGGGgAccGCGGUuaggCGGCCUCGGg- -3'
miRNA:   3'- -CGuaCUCgU--CGCCGa---GCUGGAGCCac -5'
14616 3' -57.6 NC_003521.1 + 38216 0.66 0.913848
Target:  5'- ---cGGGCAGgaGGCgcagggCGGCCUCGGc- -3'
miRNA:   3'- cguaCUCGUCg-CCGa-----GCUGGAGCCac -5'
14616 3' -57.6 NC_003521.1 + 49050 0.68 0.839079
Target:  5'- aGCAUguuggGAGguGCGGaCagGACC-CGGUGg -3'
miRNA:   3'- -CGUA-----CUCguCGCC-GagCUGGaGCCAC- -5'
14616 3' -57.6 NC_003521.1 + 61110 0.66 0.929802
Target:  5'- cGCAgcUGAGCGGCgagacGGUgaagcccaacaUCGACCUgcUGGUGc -3'
miRNA:   3'- -CGU--ACUCGUCG-----CCG-----------AGCUGGA--GCCAC- -5'
14616 3' -57.6 NC_003521.1 + 68020 0.67 0.88952
Target:  5'- uGCGUGAGCcucaccgccacgGGCGGCgugguccgcggCGcCCcCGGUGg -3'
miRNA:   3'- -CGUACUCG------------UCGCCGa----------GCuGGaGCCAC- -5'
14616 3' -57.6 NC_003521.1 + 69624 0.72 0.637363
Target:  5'- cGCAgagcGAGCAGUGcaccaGCUCGGCgUUGGUGu -3'
miRNA:   3'- -CGUa---CUCGUCGC-----CGAGCUGgAGCCAC- -5'
14616 3' -57.6 NC_003521.1 + 73140 0.75 0.465705
Target:  5'- gGCggGGGCAGCGGCggcggCGccGCCUCGGc- -3'
miRNA:   3'- -CGuaCUCGUCGCCGa----GC--UGGAGCCac -5'
14616 3' -57.6 NC_003521.1 + 74577 0.66 0.919386
Target:  5'- gGCGacgGAGCGGCGGCgcggCGuCCcgCGGc- -3'
miRNA:   3'- -CGUa--CUCGUCGCCGa---GCuGGa-GCCac -5'
14616 3' -57.6 NC_003521.1 + 76217 0.67 0.902115
Target:  5'- gGUAUGAGUGGCGGC--GGCC--GGUGg -3'
miRNA:   3'- -CGUACUCGUCGCCGagCUGGagCCAC- -5'
14616 3' -57.6 NC_003521.1 + 76361 0.72 0.621624
Target:  5'- gGCGgcGGCAGCGGCgaccgugacggccgCGGCCgCGGUGg -3'
miRNA:   3'- -CGUacUCGUCGCCGa-------------GCUGGaGCCAC- -5'
14616 3' -57.6 NC_003521.1 + 77709 0.73 0.588274
Target:  5'- cCGUG-GCGGCguuguuGGCgacggCGGCCUCGGUGg -3'
miRNA:   3'- cGUACuCGUCG------CCGa----GCUGGAGCCAC- -5'
14616 3' -57.6 NC_003521.1 + 80866 0.66 0.929802
Target:  5'- gGC-UGGGUAGCuGGCacu-CCUCGGUGc -3'
miRNA:   3'- -CGuACUCGUCG-CCGagcuGGAGCCAC- -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.