miRNA display CGI


Results 1 - 20 of 59 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
13115 3' -55.6 NC_003401.1 + 125024 0.68 0.820487
Target:  5'- aCGCCcacuGCCAGggGUGgAAcgucacgGCGGGGuCGa -3'
miRNA:   3'- aGCGG----UGGUCuuCGCgUU-------UGCCCU-GC- -5'
13115 3' -55.6 NC_003401.1 + 13824 0.69 0.775256
Target:  5'- cUCGCCggcaugcACCAGcuacagcaggaaGAGCGUAGGCGGuuaGACGa -3'
miRNA:   3'- -AGCGG-------UGGUC------------UUCGCGUUUGCC---CUGC- -5'
13115 3' -55.6 NC_003401.1 + 125700 0.69 0.776196
Target:  5'- -gGCgGCCAucAGCGCccugggAAGCGGGGCa -3'
miRNA:   3'- agCGgUGGUcuUCGCG------UUUGCCCUGc -5'
13115 3' -55.6 NC_003401.1 + 58055 0.69 0.776196
Target:  5'- aCcCCACCAGGGaaGCAAAaCGGGACu -3'
miRNA:   3'- aGcGGUGGUCUUcgCGUUU-GCCCUGc -5'
13115 3' -55.6 NC_003401.1 + 49678 0.69 0.785525
Target:  5'- aCGCCACCuGAcuCGCAa--GGGACc -3'
miRNA:   3'- aGCGGUGGuCUucGCGUuugCCCUGc -5'
13115 3' -55.6 NC_003401.1 + 30183 0.69 0.785525
Target:  5'- gCGCCGCUAGAuaCGCAccCGGGAa- -3'
miRNA:   3'- aGCGGUGGUCUucGCGUuuGCCCUgc -5'
13115 3' -55.6 NC_003401.1 + 32100 0.68 0.803754
Target:  5'- cCGUCAgaugcgggaUCGGAAGCcUAGAUGGGACGa -3'
miRNA:   3'- aGCGGU---------GGUCUUCGcGUUUGCCCUGC- -5'
13115 3' -55.6 NC_003401.1 + 56474 0.68 0.812636
Target:  5'- aCGCC-CgGGAGGUgGCAcucACGGGACa -3'
miRNA:   3'- aGCGGuGgUCUUCG-CGUu--UGCCCUGc -5'
13115 3' -55.6 NC_003401.1 + 68956 0.68 0.812636
Target:  5'- gUCGUgACUGGAAGUaCuAGCGGGAUGa -3'
miRNA:   3'- -AGCGgUGGUCUUCGcGuUUGCCCUGC- -5'
13115 3' -55.6 NC_003401.1 + 104938 0.69 0.747461
Target:  5'- aCGCCGCggggCAGAGGcCGCA-ACGuGGAUGg -3'
miRNA:   3'- aGCGGUG----GUCUUC-GCGUuUGC-CCUGC- -5'
13115 3' -55.6 NC_003401.1 + 28161 0.69 0.737664
Target:  5'- gCGCgACgGGcGGUGCGuacGAUGGGACGg -3'
miRNA:   3'- aGCGgUGgUCuUCGCGU---UUGCCCUGC- -5'
13115 3' -55.6 NC_003401.1 + 95030 0.7 0.7178
Target:  5'- gCGCCACCucuGGCGCAAACaGGuGCc -3'
miRNA:   3'- aGCGGUGGucuUCGCGUUUGcCC-UGc -5'
13115 3' -55.6 NC_003401.1 + 132653 0.76 0.377536
Target:  5'- gCGCCGCCGGGAGgGgGGcCGGGGCc -3'
miRNA:   3'- aGCGGUGGUCUUCgCgUUuGCCCUGc -5'
13115 3' -55.6 NC_003401.1 + 105837 0.73 0.514223
Target:  5'- gCGCCuugGCCAGgcGCGCGGcggcAUGGGGCu -3'
miRNA:   3'- aGCGG---UGGUCuuCGCGUU----UGCCCUGc -5'
13115 3' -55.6 NC_003401.1 + 126120 0.73 0.514223
Target:  5'- -aGCCACugCAGggGCGUuuccucuGACGGGAUGc -3'
miRNA:   3'- agCGGUG--GUCuuCGCGu------UUGCCCUGC- -5'
13115 3' -55.6 NC_003401.1 + 107725 0.72 0.615472
Target:  5'- -gGCCACCGGGGcaaCGCu--CGGGGCGg -3'
miRNA:   3'- agCGGUGGUCUUc--GCGuuuGCCCUGC- -5'
13115 3' -55.6 NC_003401.1 + 57913 0.72 0.615472
Target:  5'- gUCGUgACCcgucuuGAGGCGCAuuUGGGACu -3'
miRNA:   3'- -AGCGgUGGu-----CUUCGCGUuuGCCCUGc -5'
13115 3' -55.6 NC_003401.1 + 119844 0.71 0.636101
Target:  5'- cCGCCACCAGGgacgGGgGCAGACcgccGGugGc -3'
miRNA:   3'- aGCGGUGGUCU----UCgCGUUUGc---CCugC- -5'
13115 3' -55.6 NC_003401.1 + 14235 0.71 0.677253
Target:  5'- cCGCCugccuccgaacGCCAGggGC--AGGCGGGAUGa -3'
miRNA:   3'- aGCGG-----------UGGUCuuCGcgUUUGCCCUGC- -5'
13115 3' -55.6 NC_003401.1 + 132235 0.7 0.697638
Target:  5'- cCGCCGCCGGGccgcGGCcgccaucuuGCGccCGGGGCGa -3'
miRNA:   3'- aGCGGUGGUCU----UCG---------CGUuuGCCCUGC- -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.