miRNA display CGI


Results 1 - 20 of 68 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
20399 3' -58 NC_004687.1 + 6770 0.66 0.856086
Target:  5'- --cUGUGGCcgucauccgccgaacGGGGUGUUGGUGAGGa -3'
miRNA:   3'- agcACACCGu--------------UCCCGUAGCCGCUCCg -5'
20399 3' -58 NC_004687.1 + 85061 0.66 0.855321
Target:  5'- aCGUGgucaccGGCuGGGGCugcUCGuGCGGcuGGCa -3'
miRNA:   3'- aGCACa-----CCGuUCCCGu--AGC-CGCU--CCG- -5'
20399 3' -58 NC_004687.1 + 79117 0.66 0.847563
Target:  5'- cCGUGgcaccgGGUcuGGGCGgcggcaCGGCGcAGGUg -3'
miRNA:   3'- aGCACa-----CCGuuCCCGUa-----GCCGC-UCCG- -5'
20399 3' -58 NC_004687.1 + 48888 0.66 0.847563
Target:  5'- gCGUGaugaaccagGGCccgucccGGGCGcCGGUGGGGCu -3'
miRNA:   3'- aGCACa--------CCGuu-----CCCGUaGCCGCUCCG- -5'
20399 3' -58 NC_004687.1 + 85379 0.66 0.847563
Target:  5'- gCGcUG-GGCGccuucGGCAUCGGCGuGGUc -3'
miRNA:   3'- aGC-ACaCCGUuc---CCGUAGCCGCuCCG- -5'
20399 3' -58 NC_004687.1 + 106905 0.66 0.847563
Target:  5'- gCGgcauggGUGGCGccGGGGCGggcgCGG-GuGGCg -3'
miRNA:   3'- aGCa-----CACCGU--UCCCGUa---GCCgCuCCG- -5'
20399 3' -58 NC_004687.1 + 19598 0.66 0.847563
Target:  5'- gUCG-GUGGcCGAGGaCAUCgcGGCG-GGCc -3'
miRNA:   3'- -AGCaCACC-GUUCCcGUAG--CCGCuCCG- -5'
20399 3' -58 NC_004687.1 + 73994 0.66 0.839615
Target:  5'- cCGgccagGGCGguaucGGuGGCGUCGGUGGcGGCa -3'
miRNA:   3'- aGCaca--CCGU-----UC-CCGUAGCCGCU-CCG- -5'
20399 3' -58 NC_004687.1 + 64178 0.66 0.839615
Target:  5'- -----cGGCGAuGGCAUCGGCGuagcGGGUc -3'
miRNA:   3'- agcacaCCGUUcCCGUAGCCGC----UCCG- -5'
20399 3' -58 NC_004687.1 + 3859 0.66 0.83881
Target:  5'- gUCG-GUGGCcGGGGUGgcugggcccUUGGCGAgcaccucGGCa -3'
miRNA:   3'- -AGCaCACCGuUCCCGU---------AGCCGCU-------CCG- -5'
20399 3' -58 NC_004687.1 + 75516 0.66 0.831484
Target:  5'- aCG-GUGcGCAccgAGGGaCAggugucCGGCGAGGUc -3'
miRNA:   3'- aGCaCAC-CGU---UCCC-GUa-----GCCGCUCCG- -5'
20399 3' -58 NC_004687.1 + 74367 0.66 0.831484
Target:  5'- ---cGUGGcCAAGGGUGccggucugcUCGGCGccgGGGCc -3'
miRNA:   3'- agcaCACC-GUUCCCGU---------AGCCGC---UCCG- -5'
20399 3' -58 NC_004687.1 + 44471 0.66 0.831484
Target:  5'- gCGacUGGCu-GGGUGUCGGCGGGa- -3'
miRNA:   3'- aGCacACCGuuCCCGUAGCCGCUCcg -5'
20399 3' -58 NC_004687.1 + 150800 0.66 0.831484
Target:  5'- -gGUGgaagGGCGAGuGGC-UCGuCGAGGUc -3'
miRNA:   3'- agCACa---CCGUUC-CCGuAGCcGCUCCG- -5'
20399 3' -58 NC_004687.1 + 66675 0.66 0.831484
Target:  5'- --cUG-GGCcGGGGCucgauccugGUCGGCGGcGGCa -3'
miRNA:   3'- agcACaCCGuUCCCG---------UAGCCGCU-CCG- -5'
20399 3' -58 NC_004687.1 + 16869 0.66 0.823178
Target:  5'- gUCG-GUGGCGGuguccagcGGGCugAUCGGCucGGUg -3'
miRNA:   3'- -AGCaCACCGUU--------CCCG--UAGCCGcuCCG- -5'
20399 3' -58 NC_004687.1 + 142389 0.66 0.814704
Target:  5'- cUCG-GcGGCGAcgucgaaGGCGUCGGCGAucucgGGCa -3'
miRNA:   3'- -AGCaCaCCGUUc------CCGUAGCCGCU-----CCG- -5'
20399 3' -58 NC_004687.1 + 146542 0.66 0.814704
Target:  5'- ---gGUGGCcaucuGGCAgaUCGuGCGAGGCa -3'
miRNA:   3'- agcaCACCGuuc--CCGU--AGC-CGCUCCG- -5'
20399 3' -58 NC_004687.1 + 132343 0.67 0.806068
Target:  5'- gCGUGUGGU---GGCcgAUCGGCGccGCa -3'
miRNA:   3'- aGCACACCGuucCCG--UAGCCGCucCG- -5'
20399 3' -58 NC_004687.1 + 70939 0.67 0.806068
Target:  5'- cUCGgcgGUGcGCGGcGGC-UCGGUGAGcGCa -3'
miRNA:   3'- -AGCa--CAC-CGUUcCCGuAGCCGCUC-CG- -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.