miRNA display CGI


Results 1 - 20 of 29 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
25049 3' -56.9 NC_005336.1 + 74648 0.66 0.857969
Target:  5'- cCGUCuCCgAGGCCAggcgcagcgUGGcggccaGGGUGGACa -3'
miRNA:   3'- aGUAGcGGgUCCGGU---------ACC------UCUACCUG- -5'
25049 3' -56.9 NC_005336.1 + 95581 0.66 0.850094
Target:  5'- -aGUCGCCgaAGGCgAaGGAGgcGGGCc -3'
miRNA:   3'- agUAGCGGg-UCCGgUaCCUCuaCCUG- -5'
25049 3' -56.9 NC_005336.1 + 5873 0.66 0.833748
Target:  5'- gUCGUacagcgaGCCCGGcGCCGcGGGcGUGGGCu -3'
miRNA:   3'- -AGUAg------CGGGUC-CGGUaCCUcUACCUG- -5'
25049 3' -56.9 NC_005336.1 + 37405 0.66 0.833748
Target:  5'- gCcgCGgUCGGGCUuuAUGGcGAUGGGCa -3'
miRNA:   3'- aGuaGCgGGUCCGG--UACCuCUACCUG- -5'
25049 3' -56.9 NC_005336.1 + 6539 0.66 0.833748
Target:  5'- gCAUgCGCaCCAGGCCcucGGAGAucuUGGcCg -3'
miRNA:   3'- aGUA-GCG-GGUCCGGua-CCUCU---ACCuG- -5'
25049 3' -56.9 NC_005336.1 + 85633 0.66 0.828696
Target:  5'- aCcgCGCCCGGGCCGgacgcgcccgacgaGGAGAuuuacgccuucUGcGACg -3'
miRNA:   3'- aGuaGCGGGUCCGGUa-------------CCUCU-----------AC-CUG- -5'
25049 3' -56.9 NC_005336.1 + 92758 0.66 0.825291
Target:  5'- gUCGggCGCCCAcucGGUCAUGGAGuacucgcGGAa -3'
miRNA:   3'- -AGUa-GCGGGU---CCGGUACCUCua-----CCUg -5'
25049 3' -56.9 NC_005336.1 + 72957 0.66 0.825291
Target:  5'- gCG-CGUCCGGGuCCGUGGccaccAUGGACg -3'
miRNA:   3'- aGUaGCGGGUCC-GGUACCuc---UACCUG- -5'
25049 3' -56.9 NC_005336.1 + 61450 0.66 0.824436
Target:  5'- ---gCGUCCAauaaaucGGCCAUGGAcgcGGUGGAg -3'
miRNA:   3'- aguaGCGGGU-------CCGGUACCU---CUACCUg -5'
25049 3' -56.9 NC_005336.1 + 29303 0.66 0.816657
Target:  5'- aCGcgCGCCCucacGGCCucuaaAUGGAGGaGGACc -3'
miRNA:   3'- aGUa-GCGGGu---CCGG-----UACCUCUaCCUG- -5'
25049 3' -56.9 NC_005336.1 + 98672 0.67 0.798885
Target:  5'- cCGUCGCCUgcgagggcggcaAGGCCGUGauGAUGGcCa -3'
miRNA:   3'- aGUAGCGGG------------UCCGGUACcuCUACCuG- -5'
25049 3' -56.9 NC_005336.1 + 127386 0.67 0.798885
Target:  5'- gCGUgGCCgCGcGCCGacaagaGGAGAUGGACg -3'
miRNA:   3'- aGUAgCGG-GUcCGGUa-----CCUCUACCUG- -5'
25049 3' -56.9 NC_005336.1 + 112336 0.67 0.780501
Target:  5'- aCAUCGCUCA-GCCGcUGGc-GUGGACg -3'
miRNA:   3'- aGUAGCGGGUcCGGU-ACCucUACCUG- -5'
25049 3' -56.9 NC_005336.1 + 71250 0.67 0.771102
Target:  5'- aCGUCGaguaCAgcgcGGUCAaGGAGAUGGACg -3'
miRNA:   3'- aGUAGCgg--GU----CCGGUaCCUCUACCUG- -5'
25049 3' -56.9 NC_005336.1 + 87416 0.68 0.761577
Target:  5'- uUCAUCuGUCCGcGGCCggGGAucuUGGGCg -3'
miRNA:   3'- -AGUAG-CGGGU-CCGGuaCCUcu-ACCUG- -5'
25049 3' -56.9 NC_005336.1 + 29523 0.68 0.722406
Target:  5'- cUCGUCGgCgAGGCCGugcUGGccGUGGACc -3'
miRNA:   3'- -AGUAGCgGgUCCGGU---ACCucUACCUG- -5'
25049 3' -56.9 NC_005336.1 + 129912 0.69 0.692167
Target:  5'- uUCAguccgcgCGCCCGcGGCC--GGAGGUGGuGCa -3'
miRNA:   3'- -AGUa------GCGGGU-CCGGuaCCUCUACC-UG- -5'
25049 3' -56.9 NC_005336.1 + 87029 0.69 0.681973
Target:  5'- gCAgaugCGCUgCAGGCgGUGGAaGAUGGAg -3'
miRNA:   3'- aGUa---GCGG-GUCCGgUACCU-CUACCUg -5'
25049 3' -56.9 NC_005336.1 + 92573 0.7 0.64087
Target:  5'- -uGUgGCCCGGGUCAUGccGcgGGACg -3'
miRNA:   3'- agUAgCGGGUCCGGUACcuCuaCCUG- -5'
25049 3' -56.9 NC_005336.1 + 119265 0.7 0.609937
Target:  5'- cUCAUCGCCagcaucGGCCAacGGcuGAUGGGCg -3'
miRNA:   3'- -AGUAGCGGgu----CCGGUa-CCu-CUACCUG- -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.