miRNA display CGI


Results 1 - 20 of 25 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
22873 3' -49.1 NC_005137.2 + 67725 0.65 0.998307
Target:  5'- gCGAGCGacgg-CGAGAccguguuggaguuUGGCGCCGa- -3'
miRNA:   3'- -GCUCGCaaauaGUUUU-------------ACCGCGGCcg -5'
22873 3' -49.1 NC_005137.2 + 82948 0.66 0.998
Target:  5'- -aAGCG----UCGAGAUGGCacGCgCGGCa -3'
miRNA:   3'- gcUCGCaaauAGUUUUACCG--CG-GCCG- -5'
22873 3' -49.1 NC_005137.2 + 113667 0.66 0.997605
Target:  5'- -uAGUGUacuauuuaUAUCAGAGUGGUGCgCGuGCg -3'
miRNA:   3'- gcUCGCAa-------AUAGUUUUACCGCG-GC-CG- -5'
22873 3' -49.1 NC_005137.2 + 1334 0.66 0.997605
Target:  5'- gGAGgaGUUa---AAGGUGGCGgCGGCg -3'
miRNA:   3'- gCUCg-CAAauagUUUUACCGCgGCCG- -5'
22873 3' -49.1 NC_005137.2 + 58690 0.67 0.996014
Target:  5'- --cGCGU---UCGGAcaGUGGCGCCGcGUu -3'
miRNA:   3'- gcuCGCAaauAGUUU--UACCGCGGC-CG- -5'
22873 3' -49.1 NC_005137.2 + 116340 0.67 0.996014
Target:  5'- aCGGGCGUUUacGUCAAGcuuaaacgauuuGUGcGCGCUGa- -3'
miRNA:   3'- -GCUCGCAAA--UAGUUU------------UAC-CGCGGCcg -5'
22873 3' -49.1 NC_005137.2 + 63000 0.67 0.996014
Target:  5'- -cGGCGgacc-CAugGUgcGGCGCCGGCg -3'
miRNA:   3'- gcUCGCaaauaGUuuUA--CCGCGGCCG- -5'
22873 3' -49.1 NC_005137.2 + 104764 0.67 0.99561
Target:  5'- gGGGCG-UUGUUAAcguuccacgagguucGGUGGCccaGUCGGCg -3'
miRNA:   3'- gCUCGCaAAUAGUU---------------UUACCG---CGGCCG- -5'
22873 3' -49.1 NC_005137.2 + 78653 0.67 0.995323
Target:  5'- gCGAGUug-UGUC-AAAUGcGUGUCGGCu -3'
miRNA:   3'- -GCUCGcaaAUAGuUUUAC-CGCGGCCG- -5'
22873 3' -49.1 NC_005137.2 + 70323 0.67 0.993646
Target:  5'- -aGGUGUUgg-CGGA--GGCGUCGGCg -3'
miRNA:   3'- gcUCGCAAauaGUUUuaCCGCGGCCG- -5'
22873 3' -49.1 NC_005137.2 + 6997 0.67 0.992749
Target:  5'- aCGAGCGgucgccgggcaCAAcGUGGCGCaCGcGCg -3'
miRNA:   3'- -GCUCGCaaaua------GUUuUACCGCG-GC-CG- -5'
22873 3' -49.1 NC_005137.2 + 35553 0.67 0.992643
Target:  5'- -cGGCGcUUGUCAAGAcacgcacCGCCGGCg -3'
miRNA:   3'- gcUCGCaAAUAGUUUUacc----GCGGCCG- -5'
22873 3' -49.1 NC_005137.2 + 74449 0.68 0.991519
Target:  5'- gGGGCGUUU----GAAUGuGC-CCGGCa -3'
miRNA:   3'- gCUCGCAAAuaguUUUAC-CGcGGCCG- -5'
22873 3' -49.1 NC_005137.2 + 67298 0.68 0.991519
Target:  5'- -aAGCGUUUGUCucuGUuGCGCUGcGCa -3'
miRNA:   3'- gcUCGCAAAUAGuuuUAcCGCGGC-CG- -5'
22873 3' -49.1 NC_005137.2 + 87160 0.68 0.991519
Target:  5'- cCGcGGCGUUUcgcacgugcaaAUCGcguucGAcgGGCGCgGGCg -3'
miRNA:   3'- -GC-UCGCAAA-----------UAGU-----UUuaCCGCGgCCG- -5'
22873 3' -49.1 NC_005137.2 + 97969 0.68 0.990262
Target:  5'- --cGCGUcaUUGUaggcaAAAcgGGCGCgCGGCg -3'
miRNA:   3'- gcuCGCA--AAUAg----UUUuaCCGCG-GCCG- -5'
22873 3' -49.1 NC_005137.2 + 128560 0.68 0.990262
Target:  5'- aGAGUG---GUCGucg-GGCGCgGGCa -3'
miRNA:   3'- gCUCGCaaaUAGUuuuaCCGCGgCCG- -5'
22873 3' -49.1 NC_005137.2 + 93556 0.69 0.983722
Target:  5'- uCGAGCG-----CAAAuacGUGGUGCgCGGCg -3'
miRNA:   3'- -GCUCGCaaauaGUUU---UACCGCG-GCCG- -5'
22873 3' -49.1 NC_005137.2 + 32833 0.69 0.976956
Target:  5'- uCGcGCGUaucUUAUCu--GUGGCcgcgcGCCGGCu -3'
miRNA:   3'- -GCuCGCA---AAUAGuuuUACCG-----CGGCCG- -5'
22873 3' -49.1 NC_005137.2 + 80370 0.7 0.971422
Target:  5'- aGGGCGg----CAAGGUGcugcagccccGUGCCGGCg -3'
miRNA:   3'- gCUCGCaaauaGUUUUAC----------CGCGGCCG- -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.