miRNA display CGI


Results 1 - 18 of 18 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
19535 5' -56.8 NC_004685.1 + 56893 0.66 0.717555
Target:  5'- uGCgCCGCAUGGGcgUGuc-GUCUUCGUUc -3'
miRNA:   3'- -CG-GGCGUACCC--ACuacCAGAAGCGGu -5'
19535 5' -56.8 NC_004685.1 + 34431 0.66 0.707087
Target:  5'- cCCCGUAggcgcGGGUGAUGucGUCgaugacagCGCCGc -3'
miRNA:   3'- cGGGCGUa----CCCACUAC--CAGaa------GCGGU- -5'
19535 5' -56.8 NC_004685.1 + 42458 0.66 0.685951
Target:  5'- aGCCCuuggcgGCGUcGGUGGUGccgaaCUUCGCCAg -3'
miRNA:   3'- -CGGG------CGUAcCCACUACca---GAAGCGGU- -5'
19535 5' -56.8 NC_004685.1 + 36883 0.66 0.675304
Target:  5'- cGCgCCGUGUgGGGUGAUGGggUUCGaCGg -3'
miRNA:   3'- -CG-GGCGUA-CCCACUACCagAAGCgGU- -5'
19535 5' -56.8 NC_004685.1 + 46153 0.66 0.664619
Target:  5'- gGCCCGUcgcguagGGGUGAccggGGUCgcccgCGUCGg -3'
miRNA:   3'- -CGGGCGua-----CCCACUa---CCAGaa---GCGGU- -5'
19535 5' -56.8 NC_004685.1 + 55842 0.66 0.664619
Target:  5'- aGCaCCGCGgucaGGGUGugGGUCUU-GCCGc -3'
miRNA:   3'- -CG-GGCGUa---CCCACuaCCAGAAgCGGU- -5'
19535 5' -56.8 NC_004685.1 + 44744 0.67 0.643171
Target:  5'- aCCCGCGUcGGGguc-GGUCUUcgagCGCCGg -3'
miRNA:   3'- cGGGCGUA-CCCacuaCCAGAA----GCGGU- -5'
19535 5' -56.8 NC_004685.1 + 37687 0.67 0.61095
Target:  5'- cGCaCCGCcgGgucgaccggcucGGUGAaGGUCgUCGCCGa -3'
miRNA:   3'- -CG-GGCGuaC------------CCACUaCCAGaAGCGGU- -5'
19535 5' -56.8 NC_004685.1 + 64423 0.67 0.61095
Target:  5'- -aCCGCcgGaccucGGUGAUGGUCUUgcaGCCc -3'
miRNA:   3'- cgGGCGuaC-----CCACUACCAGAAg--CGGu -5'
19535 5' -56.8 NC_004685.1 + 11993 0.67 0.61095
Target:  5'- cGCUCGaCGUGGGgcaGAUGcUCU-CGCCGg -3'
miRNA:   3'- -CGGGC-GUACCCa--CUACcAGAaGCGGU- -5'
19535 5' -56.8 NC_004685.1 + 42624 0.68 0.557703
Target:  5'- cGCCaGCAUGGGUGGgcUGGUgaUCuggcgggcgGCCAa -3'
miRNA:   3'- -CGGgCGUACCCACU--ACCAgaAG---------CGGU- -5'
19535 5' -56.8 NC_004685.1 + 22625 0.68 0.557703
Target:  5'- -aCCGCcgGGGUGAucccggUGGgCUgcgUCGCCGc -3'
miRNA:   3'- cgGGCGuaCCCACU------ACCaGA---AGCGGU- -5'
19535 5' -56.8 NC_004685.1 + 20032 0.68 0.547194
Target:  5'- aCCCGCcgGGGcgGAUcaucgcggGGUUcgUCGCCAa -3'
miRNA:   3'- cGGGCGuaCCCa-CUA--------CCAGa-AGCGGU- -5'
19535 5' -56.8 NC_004685.1 + 442 0.69 0.536748
Target:  5'- -gCCGCGgucGGUGA-GGUCggCGCCAa -3'
miRNA:   3'- cgGGCGUac-CCACUaCCAGaaGCGGU- -5'
19535 5' -56.8 NC_004685.1 + 30332 0.69 0.495728
Target:  5'- uUCCGCcgaGGGUGGucUGGUCcgCGCCGc -3'
miRNA:   3'- cGGGCGua-CCCACU--ACCAGaaGCGGU- -5'
19535 5' -56.8 NC_004685.1 + 13334 0.71 0.418405
Target:  5'- gGCCCGCGUGGccGAagugcaggcacUGGaaUUCGCCAg -3'
miRNA:   3'- -CGGGCGUACCcaCU-----------ACCagAAGCGGU- -5'
19535 5' -56.8 NC_004685.1 + 1513 0.72 0.332825
Target:  5'- cCCCGCAUGaGGUGGUGGa--UgGCCAg -3'
miRNA:   3'- cGGGCGUAC-CCACUACCagaAgCGGU- -5'
19535 5' -56.8 NC_004685.1 + 60271 1.1 0.000758
Target:  5'- gGCCCGCAUGGGUGAUGGUCUUCGCCAg -3'
miRNA:   3'- -CGGGCGUACCCACUACCAGAAGCGGU- -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.