miRNA display CGI


Results 1 - 20 of 124 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
28092 3' -59.8 NC_005887.1 + 31184 0.66 0.386539
Target:  5'- -uUGUGCucGGGCaUGCGCGCGuagauuuCgGGCg -3'
miRNA:   3'- guGCGCGu-UCCG-ACGCGCGCu------GaCCG- -5'
28092 3' -59.8 NC_005887.1 + 37005 0.66 0.385648
Target:  5'- gCACGCGC-AGGCcGUaCGCGAacacgucgggauaCUGGUc -3'
miRNA:   3'- -GUGCGCGuUCCGaCGcGCGCU-------------GACCG- -5'
28092 3' -59.8 NC_005887.1 + 37070 0.66 0.413893
Target:  5'- cCGCGCGCu--GCU-CGgGCGACUGcGUu -3'
miRNA:   3'- -GUGCGCGuucCGAcGCgCGCUGAC-CG- -5'
28092 3' -59.8 NC_005887.1 + 40165 0.66 0.413893
Target:  5'- cCGCGUGUGA-GCUGCGCGaCGGCacgaagGGa -3'
miRNA:   3'- -GUGCGCGUUcCGACGCGC-GCUGa-----CCg -5'
28092 3' -59.8 NC_005887.1 + 29521 0.66 0.395524
Target:  5'- gGCGCGUuguAGaacagcacGUcGCGCGCGACggccUGGCa -3'
miRNA:   3'- gUGCGCGu--UC--------CGaCGCGCGCUG----ACCG- -5'
28092 3' -59.8 NC_005887.1 + 23258 0.66 0.377689
Target:  5'- gGCGCGCAaaAGGCgcaGCuCGUGGC-GGUu -3'
miRNA:   3'- gUGCGCGU--UCCGa--CGcGCGCUGaCCG- -5'
28092 3' -59.8 NC_005887.1 + 3388 0.66 0.404642
Target:  5'- -gUGCGCAc-GCUGUucgccGCGCGcuaccGCUGGCa -3'
miRNA:   3'- guGCGCGUucCGACG-----CGCGC-----UGACCG- -5'
28092 3' -59.8 NC_005887.1 + 7107 0.66 0.404642
Target:  5'- uCGCGCGUggucuaacGAGGCgggGCgGCGCuGC-GGCg -3'
miRNA:   3'- -GUGCGCG--------UUCCGa--CG-CGCGcUGaCCG- -5'
28092 3' -59.8 NC_005887.1 + 28403 0.66 0.404642
Target:  5'- uCACGCGCAcgucgcaGCcgaGCGCGCG-CaGGCg -3'
miRNA:   3'- -GUGCGCGUuc-----CGa--CGCGCGCuGaCCG- -5'
28092 3' -59.8 NC_005887.1 + 22250 0.66 0.386539
Target:  5'- uCACGaucaGCGAcGGUgGCGCGCaGCaGGCg -3'
miRNA:   3'- -GUGCg---CGUU-CCGaCGCGCGcUGaCCG- -5'
28092 3' -59.8 NC_005887.1 + 30462 0.66 0.368977
Target:  5'- -cCGgGCuggaacAGGCgGUGCGCGACgcGGCc -3'
miRNA:   3'- guGCgCGu-----UCCGaCGCGCGCUGa-CCG- -5'
28092 3' -59.8 NC_005887.1 + 32741 0.66 0.413893
Target:  5'- --aGCGCGGcGCUcGCGUGCGcGCcGGCg -3'
miRNA:   3'- gugCGCGUUcCGA-CGCGCGC-UGaCCG- -5'
28092 3' -59.8 NC_005887.1 + 23507 0.66 0.392814
Target:  5'- gACGUGUucGGCcGCGCugacgaacgcgcggGUGAgCUGGCa -3'
miRNA:   3'- gUGCGCGuuCCGaCGCG--------------CGCU-GACCG- -5'
28092 3' -59.8 NC_005887.1 + 38169 0.66 0.404642
Target:  5'- aGCGCGaaauAGGCgGUGUGCaGCaUGGCc -3'
miRNA:   3'- gUGCGCgu--UCCGaCGCGCGcUG-ACCG- -5'
28092 3' -59.8 NC_005887.1 + 6782 0.66 0.368977
Target:  5'- gCACGCacuaCAAgugggacaucGGCcucacGCuGCGCGACUGGCg -3'
miRNA:   3'- -GUGCGc---GUU----------CCGa----CG-CGCGCUGACCG- -5'
28092 3' -59.8 NC_005887.1 + 31384 0.66 0.377689
Target:  5'- gACGCGCucGGCguagcgGUGCGUGcCgUGGUu -3'
miRNA:   3'- gUGCGCGuuCCGa-----CGCGCGCuG-ACCG- -5'
28092 3' -59.8 NC_005887.1 + 38528 0.66 0.377689
Target:  5'- gGCGgGUAGGGUggGCGCuuacaccagcggGCGccACUGGCc -3'
miRNA:   3'- gUGCgCGUUCCGa-CGCG------------CGC--UGACCG- -5'
28092 3' -59.8 NC_005887.1 + 4405 0.66 0.385648
Target:  5'- uGCGCGCc-GGCgaagGCGCgGCGAUccugcaaUGGUu -3'
miRNA:   3'- gUGCGCGuuCCGa---CGCG-CGCUG-------ACCG- -5'
28092 3' -59.8 NC_005887.1 + 14707 0.66 0.377689
Target:  5'- gGCGgGC-GGGCcGgGCGCGGCgaucgcgcaGGCg -3'
miRNA:   3'- gUGCgCGuUCCGaCgCGCGCUGa--------CCG- -5'
28092 3' -59.8 NC_005887.1 + 17740 0.66 0.413893
Target:  5'- gACGCucgGCAcGGC--CGCGCGGCUgauGGCg -3'
miRNA:   3'- gUGCG---CGUuCCGacGCGCGCUGA---CCG- -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.