miRNA display CGI


Results 1 - 20 of 22 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
13062 3' -52.2 NC_003390.1 + 45013 0.66 0.837177
Target:  5'- -cGUGAGGAGAAGgguaaggauCUCGcuGGCUGUCUg -3'
miRNA:   3'- guCGCUUCUCUUC---------GGGUu-CCGAUAGG- -5'
13062 3' -52.2 NC_003390.1 + 38804 0.66 0.827867
Target:  5'- -cGCGccuuuGAGggGCuCCAAGGCaccucUCCc -3'
miRNA:   3'- guCGCuu---CUCuuCG-GGUUCCGau---AGG- -5'
13062 3' -52.2 NC_003390.1 + 20527 0.66 0.818335
Target:  5'- aAGCuGAAGAcGAAGCCCugagugaucAGGaaAUCCa -3'
miRNA:   3'- gUCG-CUUCU-CUUCGGGu--------UCCgaUAGG- -5'
13062 3' -52.2 NC_003390.1 + 34066 0.66 0.818335
Target:  5'- gCAGCaGAGGGggGCCaugggggGAGcGCUAgcugCCg -3'
miRNA:   3'- -GUCGcUUCUCuuCGGg------UUC-CGAUa---GG- -5'
13062 3' -52.2 NC_003390.1 + 27128 0.66 0.815433
Target:  5'- -cGCGGAGAcuGggGCCCucucugaugagaccGuugAGGCcUGUCCa -3'
miRNA:   3'- guCGCUUCU--CuuCGGG--------------U---UCCG-AUAGG- -5'
13062 3' -52.2 NC_003390.1 + 34631 0.66 0.808591
Target:  5'- uGGUGuugcuaAGGAGuguGCCCGAGG-UAUCCu -3'
miRNA:   3'- gUCGC------UUCUCuu-CGGGUUCCgAUAGG- -5'
13062 3' -52.2 NC_003390.1 + 131 0.67 0.777166
Target:  5'- cCAGaGAGGAGAAGuCCCugauuccGGGCUAcgucaacccuuauUCCu -3'
miRNA:   3'- -GUCgCUUCUCUUC-GGGu------UCCGAU-------------AGG- -5'
13062 3' -52.2 NC_003390.1 + 36236 0.67 0.757111
Target:  5'- gGGCGAAGGGAgGGCCCucauaagccGGauaagGUCCu -3'
miRNA:   3'- gUCGCUUCUCU-UCGGGuu-------CCga---UAGG- -5'
13062 3' -52.2 NC_003390.1 + 26067 0.67 0.757111
Target:  5'- aAGCaaaucGGuGAAGCUCu-GGCUAUCCa -3'
miRNA:   3'- gUCGcu---UCuCUUCGGGuuCCGAUAGG- -5'
13062 3' -52.2 NC_003390.1 + 332 0.67 0.753897
Target:  5'- gGGCGAGG-GAGGCUCGgaugccaugcaaccGGGCgagcUCCu -3'
miRNA:   3'- gUCGCUUCuCUUCGGGU--------------UCCGau--AGG- -5'
13062 3' -52.2 NC_003390.1 + 5005 0.67 0.74635
Target:  5'- gCAGCuAAGcaAGAGGCCUAucgcauGGCUcUCCa -3'
miRNA:   3'- -GUCGcUUC--UCUUCGGGUu-----CCGAuAGG- -5'
13062 3' -52.2 NC_003390.1 + 39244 0.67 0.74635
Target:  5'- uGGUGGAGaAGGAcgCCAAGGCUggCCg -3'
miRNA:   3'- gUCGCUUC-UCUUcgGGUUCCGAuaGG- -5'
13062 3' -52.2 NC_003390.1 + 31493 0.68 0.713368
Target:  5'- aGGaCGAAGAGcAGCUCAuGGCcuUCCu -3'
miRNA:   3'- gUC-GCUUCUCuUCGGGUuCCGauAGG- -5'
13062 3' -52.2 NC_003390.1 + 30066 0.68 0.713368
Target:  5'- -uGCGGguuccuuuuAGAGGAGCCCAuuuGGUg--CCa -3'
miRNA:   3'- guCGCU---------UCUCUUCGGGUu--CCGauaGG- -5'
13062 3' -52.2 NC_003390.1 + 10969 0.68 0.710021
Target:  5'- -cGCGAAGAGcccuggagugggcuAAGUCgAAGGCUcccaAUCCc -3'
miRNA:   3'- guCGCUUCUC--------------UUCGGgUUCCGA----UAGG- -5'
13062 3' -52.2 NC_003390.1 + 29471 0.68 0.690925
Target:  5'- aGGUGggGccacaGGggGCCguGGGggAUCCg -3'
miRNA:   3'- gUCGCuuC-----UCuuCGGguUCCgaUAGG- -5'
13062 3' -52.2 NC_003390.1 + 38248 0.68 0.679606
Target:  5'- gGGCGAgcAGGGucuacaGGGCCCAcaGGGCcuUCCa -3'
miRNA:   3'- gUCGCU--UCUC------UUCGGGU--UCCGauAGG- -5'
13062 3' -52.2 NC_003390.1 + 46902 0.69 0.622516
Target:  5'- uGGUGAGGAGuugacuGCCCAGGaGCg--CCu -3'
miRNA:   3'- gUCGCUUCUCuu----CGGGUUC-CGauaGG- -5'
13062 3' -52.2 NC_003390.1 + 14163 0.7 0.61108
Target:  5'- uCAGCuuuGGAGAGAAGCUCcAGGCcuUCUu -3'
miRNA:   3'- -GUCG---CUUCUCUUCGGGuUCCGauAGG- -5'
13062 3' -52.2 NC_003390.1 + 36835 0.7 0.575801
Target:  5'- -uGUGAAGuuGAGCCCuaguGGGCUuagguagAUCCa -3'
miRNA:   3'- guCGCUUCucUUCGGGu---UCCGA-------UAGG- -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.