miRNA display CGI


Results 1 - 20 of 36 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
19599 3' -53.6 NC_004686.1 + 37043 0.66 0.864143
Target:  5'- gGGUGgauCCGugGUUGGCGc-GCCu -3'
miRNA:   3'- gCUACaguGGCugCAGCCGCuuUGGc -5'
19599 3' -53.6 NC_004686.1 + 48245 0.66 0.864143
Target:  5'- aGAUGUCACaCGAC--CGGCacGAcACCGc -3'
miRNA:   3'- gCUACAGUG-GCUGcaGCCG--CUuUGGC- -5'
19599 3' -53.6 NC_004686.1 + 5604 0.66 0.859276
Target:  5'- aCGGUGUCcgacACCGccGCGUucaggcCGGCGAAggaagcgacguccguGCCGa -3'
miRNA:   3'- -GCUACAG----UGGC--UGCA------GCCGCUU---------------UGGC- -5'
19599 3' -53.6 NC_004686.1 + 39538 0.66 0.855985
Target:  5'- gGGUGUCGCaugaGGCGggGcGCGAAACUc -3'
miRNA:   3'- gCUACAGUGg---CUGCagC-CGCUUUGGc -5'
19599 3' -53.6 NC_004686.1 + 19618 0.66 0.855985
Target:  5'- -----cCGgCGGCGUCGGCGGcgucguaucAACCGg -3'
miRNA:   3'- gcuacaGUgGCUGCAGCCGCU---------UUGGC- -5'
19599 3' -53.6 NC_004686.1 + 37330 0.66 0.855985
Target:  5'- gGAggGUC-CCGGCGcgggagCGGgGGAACCa -3'
miRNA:   3'- gCUa-CAGuGGCUGCa-----GCCgCUUUGGc -5'
19599 3' -53.6 NC_004686.1 + 23200 0.66 0.847596
Target:  5'- ---gGUCACUGGCGUuaaugUGGUGGGcacGCCGg -3'
miRNA:   3'- gcuaCAGUGGCUGCA-----GCCGCUU---UGGC- -5'
19599 3' -53.6 NC_004686.1 + 28790 0.66 0.847596
Target:  5'- gGGUGUCGCCGcgguguUGUUGGUGuuccuGCUGg -3'
miRNA:   3'- gCUACAGUGGCu-----GCAGCCGCuu---UGGC- -5'
19599 3' -53.6 NC_004686.1 + 9849 0.66 0.838986
Target:  5'- -aAUGUCGCgGACGccgCGGCGAucGCUc -3'
miRNA:   3'- gcUACAGUGgCUGCa--GCCGCUu-UGGc -5'
19599 3' -53.6 NC_004686.1 + 29436 0.66 0.838986
Target:  5'- uCGAaG-CACuCGAUGUUGGCGuGAACCu -3'
miRNA:   3'- -GCUaCaGUG-GCUGCAGCCGC-UUUGGc -5'
19599 3' -53.6 NC_004686.1 + 26720 0.66 0.821133
Target:  5'- uGAugcUGUCGCCG-UGaUCGGCGAGAaacUCGg -3'
miRNA:   3'- gCU---ACAGUGGCuGC-AGCCGCUUU---GGC- -5'
19599 3' -53.6 NC_004686.1 + 6570 0.66 0.821133
Target:  5'- gGAUGguccUCACCauCGUCGaCGGAGCCGa -3'
miRNA:   3'- gCUAC----AGUGGcuGCAGCcGCUUUGGC- -5'
19599 3' -53.6 NC_004686.1 + 3467 0.66 0.821133
Target:  5'- uGcgGagACCGAgGUCGGUuuGGAACUGa -3'
miRNA:   3'- gCuaCagUGGCUgCAGCCG--CUUUGGC- -5'
19599 3' -53.6 NC_004686.1 + 22105 0.67 0.811909
Target:  5'- uCGAcG-CGCCGcCGUCGGCGccguccuuGCCGu -3'
miRNA:   3'- -GCUaCaGUGGCuGCAGCCGCuu------UGGC- -5'
19599 3' -53.6 NC_004686.1 + 17412 0.67 0.811909
Target:  5'- aCGAuauuuUGUCGCCGAUuuUCGGUGguAUCGa -3'
miRNA:   3'- -GCU-----ACAGUGGCUGc-AGCCGCuuUGGC- -5'
19599 3' -53.6 NC_004686.1 + 22566 0.67 0.810977
Target:  5'- cCGGUGacggucaUCGCCGcCGg-GGCGggGCUGa -3'
miRNA:   3'- -GCUAC-------AGUGGCuGCagCCGCuuUGGC- -5'
19599 3' -53.6 NC_004686.1 + 2798 0.67 0.8025
Target:  5'- aCGGUGU-GCCGGCG-CaGGUGuuGCCGu -3'
miRNA:   3'- -GCUACAgUGGCUGCaG-CCGCuuUGGC- -5'
19599 3' -53.6 NC_004686.1 + 3204 0.67 0.8025
Target:  5'- gGGuUGUCGaauCCGACGUCGGCuGAGUCGu -3'
miRNA:   3'- gCU-ACAGU---GGCUGCAGCCGcUUUGGC- -5'
19599 3' -53.6 NC_004686.1 + 8449 0.67 0.792916
Target:  5'- uCGGUGUCGuuGcCG-CGGUGGGACUu -3'
miRNA:   3'- -GCUACAGUggCuGCaGCCGCUUUGGc -5'
19599 3' -53.6 NC_004686.1 + 30034 0.67 0.792916
Target:  5'- cCGggGUCGgUGugG-CGGCGGcuuGCCGa -3'
miRNA:   3'- -GCuaCAGUgGCugCaGCCGCUu--UGGC- -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.