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
12662 3' -50.9 NC_003345.1 + 42883 0.66 0.973271
Target:  5'- gCCAUCAgGAcaGCgaaCGGGUGAAUgUCGAGGc -3'
miRNA:   3'- -GGUAGUgCU--CG---GCUCACUUA-GGCUUC- -5'
12662 3' -50.9 NC_003345.1 + 52169 0.66 0.973271
Target:  5'- cCCcgCAuCGAGUCGGGUucucgCCGGAGu -3'
miRNA:   3'- -GGuaGU-GCUCGGCUCAcuua-GGCUUC- -5'
12662 3' -50.9 NC_003345.1 + 14026 0.66 0.970275
Target:  5'- cCCGugguUCACGGuGaCGAGUGAugCCGGAGa -3'
miRNA:   3'- -GGU----AGUGCU-CgGCUCACUuaGGCUUC- -5'
12662 3' -50.9 NC_003345.1 + 22175 0.66 0.963577
Target:  5'- gCAUCAUGGGgCG-GUGGgagaagcacGUCCGAAa -3'
miRNA:   3'- gGUAGUGCUCgGCuCACU---------UAGGCUUc -5'
12662 3' -50.9 NC_003345.1 + 44993 0.66 0.959861
Target:  5'- uCCAUCACcGGauGAGUGAuuucGUCUGAAc -3'
miRNA:   3'- -GGUAGUGcUCggCUCACU----UAGGCUUc -5'
12662 3' -50.9 NC_003345.1 + 48889 0.66 0.959861
Target:  5'- uCCAgaaGCGguaGGUCGGGUGAagaugaAUCUGAAGg -3'
miRNA:   3'- -GGUag-UGC---UCGGCUCACU------UAGGCUUC- -5'
12662 3' -50.9 NC_003345.1 + 30704 0.66 0.955891
Target:  5'- uCgGUCuuGAGCCG-G-GAGUCCGAc- -3'
miRNA:   3'- -GgUAGugCUCGGCuCaCUUAGGCUuc -5'
12662 3' -50.9 NC_003345.1 + 62061 0.67 0.945771
Target:  5'- aCAUCAuCGAGCCGgaguagcugauggaAGUGA--CCGAAu -3'
miRNA:   3'- gGUAGU-GCUCGGC--------------UCACUuaGGCUUc -5'
12662 3' -50.9 NC_003345.1 + 8471 0.67 0.932081
Target:  5'- -uGUUGaaaGAGCCGAG-GAAUCuCGAAGc -3'
miRNA:   3'- ggUAGUg--CUCGGCUCaCUUAG-GCUUC- -5'
12662 3' -50.9 NC_003345.1 + 25255 0.67 0.932081
Target:  5'- -gGUCACGAGCCGuGgacucagaGAAUCCa--- -3'
miRNA:   3'- ggUAGUGCUCGGCuCa-------CUUAGGcuuc -5'
12662 3' -50.9 NC_003345.1 + 3929 0.68 0.920658
Target:  5'- aCCucgaACGAGCCGAGaGAG-CCGAc- -3'
miRNA:   3'- -GGuag-UGCUCGGCUCaCUUaGGCUuc -5'
12662 3' -50.9 NC_003345.1 + 8669 0.69 0.894549
Target:  5'- aCgGUCACaucuGCCGAGUGAuugaCGAGGa -3'
miRNA:   3'- -GgUAGUGcu--CGGCUCACUuag-GCUUC- -5'
12662 3' -50.9 NC_003345.1 + 8750 0.69 0.879906
Target:  5'- aCCGUUguaGAGUCGGG-GAAUCaCGAAGa -3'
miRNA:   3'- -GGUAGug-CUCGGCUCaCUUAG-GCUUC- -5'
12662 3' -50.9 NC_003345.1 + 20145 0.69 0.872203
Target:  5'- uCCGUCcccgGCGAGCggaUGAGUGGuacggucguUCCGAAGu -3'
miRNA:   3'- -GGUAG----UGCUCG---GCUCACUu--------AGGCUUC- -5'
12662 3' -50.9 NC_003345.1 + 27742 0.69 0.872203
Target:  5'- aCGUCAgCGGGCCGAauguugGggUCUGAAa -3'
miRNA:   3'- gGUAGU-GCUCGGCUca----CuuAGGCUUc -5'
12662 3' -50.9 NC_003345.1 + 47512 0.7 0.856066
Target:  5'- aCGUCGCcgGAGCCGAG-GAAgaCGggGa -3'
miRNA:   3'- gGUAGUG--CUCGGCUCaCUUagGCuuC- -5'
12662 3' -50.9 NC_003345.1 + 38706 0.7 0.856066
Target:  5'- gCCGUgGgGAGCCGAGUaGuuguAUUCGggGu -3'
miRNA:   3'- -GGUAgUgCUCGGCUCA-Cu---UAGGCuuC- -5'
12662 3' -50.9 NC_003345.1 + 38613 0.71 0.811812
Target:  5'- aCCGUUcUGAGCgCGGGUGGAgccuuUCCGAAu -3'
miRNA:   3'- -GGUAGuGCUCG-GCUCACUU-----AGGCUUc -5'
12662 3' -50.9 NC_003345.1 + 22671 0.71 0.802363
Target:  5'- ---aCACGAGCCGAGUucAUCUGGu- -3'
miRNA:   3'- gguaGUGCUCGGCUCAcuUAGGCUuc -5'
12662 3' -50.9 NC_003345.1 + 24634 0.71 0.772999
Target:  5'- -gGUCGCGGGCCGcuGGUcAAUUCGAGGu -3'
miRNA:   3'- ggUAGUGCUCGGC--UCAcUUAGGCUUC- -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.