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
18279 3' -54.9 NC_004681.1 + 32236 0.66 0.832271
Target:  5'- uCCaGCUGGucGUUGGCGUGGGccg-CCg -3'
miRNA:   3'- uGGcCGACC--CGACUGCAUCCuuuaGG- -5'
18279 3' -54.9 NC_004681.1 + 14236 0.66 0.832271
Target:  5'- uACCaGGCUGaGCUGACGcGGGcugAGAaCCg -3'
miRNA:   3'- -UGG-CCGACcCGACUGCaUCC---UUUaGG- -5'
18279 3' -54.9 NC_004681.1 + 72078 0.66 0.823389
Target:  5'- uCCaGCUGaGCUGGCGgacauccgUAGGGAAUUCu -3'
miRNA:   3'- uGGcCGACcCGACUGC--------AUCCUUUAGG- -5'
18279 3' -54.9 NC_004681.1 + 56822 0.67 0.786023
Target:  5'- uCUGGaUGGGCUGACcaucGGguGUCCa -3'
miRNA:   3'- uGGCCgACCCGACUGcau-CCuuUAGG- -5'
18279 3' -54.9 NC_004681.1 + 26191 0.67 0.786023
Target:  5'- aACCcGCUGGGuCUGAC---GGAAacGUCCu -3'
miRNA:   3'- -UGGcCGACCC-GACUGcauCCUU--UAGG- -5'
18279 3' -54.9 NC_004681.1 + 22491 0.67 0.757359
Target:  5'- -gCGGCcgGGGUgaccagcguccacucGACGUcgGGGAGGUCCu -3'
miRNA:   3'- ugGCCGa-CCCGa--------------CUGCA--UCCUUUAGG- -5'
18279 3' -54.9 NC_004681.1 + 22762 0.68 0.725582
Target:  5'- gUCGGUgccgGGGaugcgGACGUAGGcGAUCUg -3'
miRNA:   3'- uGGCCGa---CCCga---CUGCAUCCuUUAGG- -5'
18279 3' -54.9 NC_004681.1 + 73722 0.68 0.704604
Target:  5'- uCCGGCc--GUUGugGUcGGAGGUCCa -3'
miRNA:   3'- uGGCCGaccCGACugCAuCCUUUAGG- -5'
18279 3' -54.9 NC_004681.1 + 24454 0.68 0.694007
Target:  5'- gACCGGCUGuccGGCaacgaGGCGccGGGAGAguUCCa -3'
miRNA:   3'- -UGGCCGAC---CCGa----CUGCa-UCCUUU--AGG- -5'
18279 3' -54.9 NC_004681.1 + 28444 0.68 0.694007
Target:  5'- cAUCGGCgccGGGgUGACG-AGGAcAUCg -3'
miRNA:   3'- -UGGCCGa--CCCgACUGCaUCCUuUAGg -5'
18279 3' -54.9 NC_004681.1 + 19377 0.68 0.683354
Target:  5'- cACCGGcCUGGGC-GACG--GGuacAUCCa -3'
miRNA:   3'- -UGGCC-GACCCGaCUGCauCCuu-UAGG- -5'
18279 3' -54.9 NC_004681.1 + 67987 0.69 0.672653
Target:  5'- cGCCGGUgucaaGGGCgacGACGaAGGGugaguGGUCCu -3'
miRNA:   3'- -UGGCCGa----CCCGa--CUGCaUCCU-----UUAGG- -5'
18279 3' -54.9 NC_004681.1 + 28036 0.69 0.66084
Target:  5'- gACCGacggcGCUGGcGCUGGCGgucgAGGcgguggcggcaagAAGUCCa -3'
miRNA:   3'- -UGGC-----CGACC-CGACUGCa---UCC-------------UUUAGG- -5'
18279 3' -54.9 NC_004681.1 + 14895 0.69 0.659764
Target:  5'- gGCCaGCUGGGCgccagccuucagGAUGgccAGGgcGUCCg -3'
miRNA:   3'- -UGGcCGACCCGa-----------CUGCa--UCCuuUAGG- -5'
18279 3' -54.9 NC_004681.1 + 4173 0.69 0.651151
Target:  5'- cCCaGCgcgGGGUUGGCGUGGGg---CCa -3'
miRNA:   3'- uGGcCGa--CCCGACUGCAUCCuuuaGG- -5'
18279 3' -54.9 NC_004681.1 + 46685 0.69 0.64037
Target:  5'- gGCCGGuCUGGGCUu-CGUcAGGc-AUCCu -3'
miRNA:   3'- -UGGCC-GACCCGAcuGCA-UCCuuUAGG- -5'
18279 3' -54.9 NC_004681.1 + 38880 0.71 0.543028
Target:  5'- aGCUGGCgccacUGGagaaggccagccuGCUGGCGUGGGucAAUCCa -3'
miRNA:   3'- -UGGCCG-----ACC-------------CGACUGCAUCCu-UUAGG- -5'
18279 3' -54.9 NC_004681.1 + 24088 0.76 0.278082
Target:  5'- uGuuGGCUGGGUUGAUGUucuugAGGAcGUCUa -3'
miRNA:   3'- -UggCCGACCCGACUGCA-----UCCUuUAGG- -5'
18279 3' -54.9 NC_004681.1 + 18977 1.12 0.000951
Target:  5'- gACCGGCUGGGCUGACGUAGGAAAUCCa -3'
miRNA:   3'- -UGGCCGACCCGACUGCAUCCUUUAGG- -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.