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
23818 3' -61.8 NC_005261.1 + 31568 0.66 0.68101
Target:  5'- gGGUCCUGGACGGGcgcgccGGACgugagcgcgCUCGGCg -3'
miRNA:   3'- -CCGGGACCUGCUCc-----CCUGg--------GAGCUGa -5'
23818 3' -61.8 NC_005261.1 + 4550 0.66 0.678089
Target:  5'- gGGCCCUGGccuuggcuggauccGCGGGcGGGuccggcggggcGCCCccCGGCg -3'
miRNA:   3'- -CCGGGACC--------------UGCUC-CCC-----------UGGGa-GCUGa -5'
23818 3' -61.8 NC_005261.1 + 56069 0.66 0.671263
Target:  5'- cGCCCUGGGCGAGcaGuCCgCUCG-CUa -3'
miRNA:   3'- cCGGGACCUGCUCccCuGG-GAGCuGA- -5'
23818 3' -61.8 NC_005261.1 + 14690 0.66 0.671263
Target:  5'- cGCUgaUGGugGCGAGGGGgggcGCCUUCGGCc -3'
miRNA:   3'- cCGGg-ACC--UGCUCCCC----UGGGAGCUGa -5'
23818 3' -61.8 NC_005261.1 + 23165 0.66 0.664422
Target:  5'- gGGCCCggcaggcgcgccggGGGCGAcagcgagcgcgccGcGGGGCCCgcagCGGCg -3'
miRNA:   3'- -CCGGGa-------------CCUGCU-------------C-CCCUGGGa---GCUGa -5'
23818 3' -61.8 NC_005261.1 + 138083 0.66 0.661486
Target:  5'- cGGUCCUGGucccGCGAcGGGGugCCcacgGACc -3'
miRNA:   3'- -CCGGGACC----UGCU-CCCCugGGag--CUGa -5'
23818 3' -61.8 NC_005261.1 + 17538 0.66 0.661486
Target:  5'- uGGCaaaCUGGGCGGcGcGGGCCCgccguUCGGCg -3'
miRNA:   3'- -CCGg--GACCUGCUcC-CCUGGG-----AGCUGa -5'
23818 3' -61.8 NC_005261.1 + 412 0.66 0.661486
Target:  5'- cGGUCCUGGucccGCGAcGGGGugCCcacgGACc -3'
miRNA:   3'- -CCGGGACC----UGCU-CCCCugGGag--CUGa -5'
23818 3' -61.8 NC_005261.1 + 113915 0.66 0.651688
Target:  5'- uGGCCgaGGcaGCGGGcgcGGcGACCCUCGcACg -3'
miRNA:   3'- -CCGGgaCC--UGCUC---CC-CUGGGAGC-UGa -5'
23818 3' -61.8 NC_005261.1 + 112922 0.66 0.651688
Target:  5'- uGCgCgaGGGCGAGGGcGgcgcgcucGCCUUCGACUu -3'
miRNA:   3'- cCG-GgaCCUGCUCCC-C--------UGGGAGCUGA- -5'
23818 3' -61.8 NC_005261.1 + 125864 0.66 0.651688
Target:  5'- cGGCaaaCUcGGcCGGGGcGGcGCCCUUGGCUg -3'
miRNA:   3'- -CCGg--GA-CCuGCUCC-CC-UGGGAGCUGA- -5'
23818 3' -61.8 NC_005261.1 + 5541 0.66 0.632057
Target:  5'- cGGCgCgcagcGaGACGGGGGGcGCCCgagCGGCg -3'
miRNA:   3'- -CCGgGa----C-CUGCUCCCC-UGGGa--GCUGa -5'
23818 3' -61.8 NC_005261.1 + 27650 0.66 0.622238
Target:  5'- cGCCgucgGGACGAGGGGcCCCUUu--- -3'
miRNA:   3'- cCGGga--CCUGCUCCCCuGGGAGcuga -5'
23818 3' -61.8 NC_005261.1 + 72440 0.66 0.622238
Target:  5'- uGCCCccGGCGGGGGcGCCCgCGGCg -3'
miRNA:   3'- cCGGGacCUGCUCCCcUGGGaGCUGa -5'
23818 3' -61.8 NC_005261.1 + 71807 0.66 0.622238
Target:  5'- cGGCCCguggGGACGuAGGagacGGGCCacaccgCGGCg -3'
miRNA:   3'- -CCGGGa---CCUGC-UCC----CCUGGga----GCUGa -5'
23818 3' -61.8 NC_005261.1 + 28746 0.66 0.622238
Target:  5'- aGGCCCcagaGGACGccgcggccGGGGGCgCCUgGGCc -3'
miRNA:   3'- -CCGGGa---CCUGCu-------CCCCUG-GGAgCUGa -5'
23818 3' -61.8 NC_005261.1 + 35698 0.67 0.612425
Target:  5'- aGCCCcGGugGGccGGGGGCUCgguggCGGCc -3'
miRNA:   3'- cCGGGaCCugCU--CCCCUGGGa----GCUGa -5'
23818 3' -61.8 NC_005261.1 + 14947 0.67 0.602626
Target:  5'- uGGCgCUGGaaGCGAGcGGGcguGCCUggggCGACUg -3'
miRNA:   3'- -CCGgGACC--UGCUC-CCC---UGGGa---GCUGA- -5'
23818 3' -61.8 NC_005261.1 + 61513 0.67 0.602626
Target:  5'- cGGCCCcGG-CGAGGcccGGGCCUUcucCGGCa -3'
miRNA:   3'- -CCGGGaCCuGCUCC---CCUGGGA---GCUGa -5'
23818 3' -61.8 NC_005261.1 + 97744 0.67 0.592848
Target:  5'- uGGCag-GGGCGGGGcGGGCUCggCGGCg -3'
miRNA:   3'- -CCGggaCCUGCUCC-CCUGGGa-GCUGa -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.