miRNA display CGI


Results 1 - 17 of 17 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
21327 3' -66.3 NC_004778.3 + 30809 0.66 0.43418
Target:  5'- aCGCuaCGGGGCa-GCUCgACcGGCCGCu -3'
miRNA:   3'- gGCG--GCCCCGccCGAG-UGaCCGGCGu -5'
21327 3' -66.3 NC_004778.3 + 61798 0.66 0.43418
Target:  5'- aUGCgCGcGGCGuuGGCgcgCGCUGGCUGCGc -3'
miRNA:   3'- gGCG-GCcCCGC--CCGa--GUGACCGGCGU- -5'
21327 3' -66.3 NC_004778.3 + 81792 0.66 0.404412
Target:  5'- cCUGCCGGGGCGGcgUCugUaaccagaacuccugcGGCgGCGu -3'
miRNA:   3'- -GGCGGCCCCGCCcgAGugA---------------CCGgCGU- -5'
21327 3' -66.3 NC_004778.3 + 112019 0.67 0.377509
Target:  5'- aCCGCuCGGGaaacaGCGGGUcggggUCg--GGCCGCAc -3'
miRNA:   3'- -GGCG-GCCC-----CGCCCG-----AGugaCCGGCGU- -5'
21327 3' -66.3 NC_004778.3 + 30913 0.67 0.362256
Target:  5'- gUGCCGGuGCuGGUUUGC-GGCCGCAu -3'
miRNA:   3'- gGCGGCCcCGcCCGAGUGaCCGGCGU- -5'
21327 3' -66.3 NC_004778.3 + 1849 0.67 0.362256
Target:  5'- aUGUCGGGcauGCGccuGCUCgcgcuGCUGGCCGCAc -3'
miRNA:   3'- gGCGGCCC---CGCc--CGAG-----UGACCGGCGU- -5'
21327 3' -66.3 NC_004778.3 + 49847 0.67 0.354791
Target:  5'- cCCGCaC-GGGCGcGCUUGCgGGCUGCAu -3'
miRNA:   3'- -GGCG-GcCCCGCcCGAGUGaCCGGCGU- -5'
21327 3' -66.3 NC_004778.3 + 120938 0.68 0.338039
Target:  5'- -gGCgGGGGCGguaauacgaugacuGGCggggCGCgGGCCGCGc -3'
miRNA:   3'- ggCGgCCCCGC--------------CCGa---GUGaCCGGCGU- -5'
21327 3' -66.3 NC_004778.3 + 27337 0.68 0.335897
Target:  5'- aCCGCCGGGGacagguuguuguaguUGGcGCUCACgauCUGCAa -3'
miRNA:   3'- -GGCGGCCCC---------------GCC-CGAGUGaccGGCGU- -5'
21327 3' -66.3 NC_004778.3 + 121124 0.68 0.326031
Target:  5'- gCGCCGGGGCagcGGGC--GC-GGcCCGCGc -3'
miRNA:   3'- gGCGGCCCCG---CCCGagUGaCC-GGCGU- -5'
21327 3' -66.3 NC_004778.3 + 95764 0.7 0.244701
Target:  5'- gCGCCGGGcgcuauccGCGcGGCagcgCGCcGGCCGCGc -3'
miRNA:   3'- gGCGGCCC--------CGC-CCGa---GUGaCCGGCGU- -5'
21327 3' -66.3 NC_004778.3 + 121703 0.7 0.233799
Target:  5'- aCgGCCGGcGUGGGCgugUUGCUGGCCgGCGg -3'
miRNA:   3'- -GgCGGCCcCGCCCG---AGUGACCGG-CGU- -5'
21327 3' -66.3 NC_004778.3 + 53286 0.71 0.213219
Target:  5'- aCGCCGGcGGCGGuugCugUGGCgGCGg -3'
miRNA:   3'- gGCGGCC-CCGCCcgaGugACCGgCGU- -5'
21327 3' -66.3 NC_004778.3 + 68057 0.71 0.203524
Target:  5'- --uCCGGGGCGGGCUCAacgucgagcaGGCUGUg -3'
miRNA:   3'- ggcGGCCCCGCCCGAGUga--------CCGGCGu -5'
21327 3' -66.3 NC_004778.3 + 124638 0.72 0.184406
Target:  5'- aCGCaCGGGcGCGGGCcuuaUCGCgccuauaaauaaGGCCGCAc -3'
miRNA:   3'- gGCG-GCCC-CGCCCG----AGUGa-----------CCGGCGU- -5'
21327 3' -66.3 NC_004778.3 + 60202 0.73 0.153082
Target:  5'- uCCGCCGGuuccucGGCGGGCUCAucCUcGCUGUAc -3'
miRNA:   3'- -GGCGGCC------CCGCCCGAGU--GAcCGGCGU- -5'
21327 3' -66.3 NC_004778.3 + 75149 1.09 0.000325
Target:  5'- gCCGCCGGGGCGGGCUCACUGGCCGCAg -3'
miRNA:   3'- -GGCGGCCCCGCCCGAGUGACCGGCGU- -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.