miRNA display CGI


Results 1 - 19 of 19 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
27238 5' -51 NC_005832.1 + 41966 0.66 0.97546
Target:  5'- cGGGGuGAGcuucucccAGGGUUUGCCGUcUGGGc -3'
miRNA:   3'- uCUCCuCUU--------UCUCAGACGGCA-ACUCu -5'
27238 5' -51 NC_005832.1 + 71131 0.66 0.971769
Target:  5'- cAGaAGGAGAccgacgacuacuacAAGcAGUUUGCCGgaGAGGc -3'
miRNA:   3'- -UC-UCCUCU--------------UUC-UCAGACGGCaaCUCU- -5'
27238 5' -51 NC_005832.1 + 80348 0.67 0.966361
Target:  5'- uGGGGGAGAAGGucAGUaUGCCGUUc--- -3'
miRNA:   3'- -UCUCCUCUUUC--UCAgACGGCAAcucu -5'
27238 5' -51 NC_005832.1 + 28073 0.67 0.966361
Target:  5'- uGGuGGGGAccAAGAGgcccUUUGCCGUgGAGGu -3'
miRNA:   3'- -UCuCCUCU--UUCUC----AGACGGCAaCUCU- -5'
27238 5' -51 NC_005832.1 + 32644 0.67 0.962859
Target:  5'- gAGAGGcuGGAGGuGUCUGCCGa----- -3'
miRNA:   3'- -UCUCCu-CUUUCuCAGACGGCaacucu -5'
27238 5' -51 NC_005832.1 + 18763 0.67 0.95911
Target:  5'- aAGAGGAGAaagaagAAGGGUCUGUCuaUGguAGAc -3'
miRNA:   3'- -UCUCCUCU------UUCUCAGACGGcaAC--UCU- -5'
27238 5' -51 NC_005832.1 + 43165 0.67 0.950411
Target:  5'- aGGcuGGGAAAGGGcCUGCCGggcuucuUUGAGGg -3'
miRNA:   3'- -UCucCUCUUUCUCaGACGGC-------AACUCU- -5'
27238 5' -51 NC_005832.1 + 32737 0.68 0.946332
Target:  5'- gAGAGGcuGGAGGuGUCUGCgGgaggcagGAGAa -3'
miRNA:   3'- -UCUCCu-CUUUCuCAGACGgCaa-----CUCU- -5'
27238 5' -51 NC_005832.1 + 103657 0.68 0.936494
Target:  5'- -cGGGAGccgucaaccacAGAGAGUUUGCUGgaGAGAu -3'
miRNA:   3'- ucUCCUC-----------UUUCUCAGACGGCaaCUCU- -5'
27238 5' -51 NC_005832.1 + 83353 0.68 0.931171
Target:  5'- cAGAGGuucuauaacgGGAuAGAGUCgGCCGg-GAGAa -3'
miRNA:   3'- -UCUCC----------UCUuUCUCAGaCGGCaaCUCU- -5'
27238 5' -51 NC_005832.1 + 32031 0.68 0.931171
Target:  5'- --cGGAaaGGGAGGGUCaGCCGUccUGAGGg -3'
miRNA:   3'- ucuCCU--CUUUCUCAGaCGGCA--ACUCU- -5'
27238 5' -51 NC_005832.1 + 8999 0.69 0.913575
Target:  5'- aAGAGGAGAGGcaAGUUUGCC--UGAGGc -3'
miRNA:   3'- -UCUCCUCUUUc-UCAGACGGcaACUCU- -5'
27238 5' -51 NC_005832.1 + 28344 0.69 0.913575
Target:  5'- gAGGGGGGAAAGGGUUua-CGU-GAGAa -3'
miRNA:   3'- -UCUCCUCUUUCUCAGacgGCAaCUCU- -5'
27238 5' -51 NC_005832.1 + 66889 0.69 0.893563
Target:  5'- -cGGGAGGAAGGGgcacCUgGCCGUagUGGGAc -3'
miRNA:   3'- ucUCCUCUUUCUCa---GA-CGGCA--ACUCU- -5'
27238 5' -51 NC_005832.1 + 35168 0.7 0.84669
Target:  5'- -uGGGAGAcagccucAGGGUCUGgaCCGUUGAGGc -3'
miRNA:   3'- ucUCCUCUu------UCUCAGAC--GGCAACUCU- -5'
27238 5' -51 NC_005832.1 + 32830 0.73 0.710178
Target:  5'- gAGAGGcuGGAGGuGUCUGCCGaaggcagGAGAa -3'
miRNA:   3'- -UCUCCu-CUUUCuCAGACGGCaa-----CUCU- -5'
27238 5' -51 NC_005832.1 + 90020 0.73 0.710178
Target:  5'- gGGAGGAGGAGuGAGguggGCCGUgaugGAGGa -3'
miRNA:   3'- -UCUCCUCUUU-CUCaga-CGGCAa---CUCU- -5'
27238 5' -51 NC_005832.1 + 101817 0.75 0.590973
Target:  5'- uGAGGGGAgGAGAGUCUG-CGUUGAcGGg -3'
miRNA:   3'- uCUCCUCU-UUCUCAGACgGCAACU-CU- -5'
27238 5' -51 NC_005832.1 + 101716 1.1 0.004844
Target:  5'- cAGAGGAGAAAGAGUCUGCCGUUGAGAa -3'
miRNA:   3'- -UCUCCUCUUUCUCAGACGGCAACUCU- -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.