miRNA display CGI


Results 1 - 20 of 27 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
11425 5' -58.1 NC_003085.1 + 40124 1.08 0.000471
Target:  5'- aCAGGCCGAUGAAGAAGAGGCGGGCCAu -3'
miRNA:   3'- -GUCCGGCUACUUCUUCUCCGCCCGGU- -5'
11425 5' -58.1 NC_003085.1 + 40484 0.76 0.121153
Target:  5'- cCGGGCCGGUGAAGuccgcGAGGCcGcGGCCc -3'
miRNA:   3'- -GUCCGGCUACUUCuu---CUCCG-C-CCGGu -5'
11425 5' -58.1 NC_003085.1 + 5017 0.74 0.16826
Target:  5'- gCAGGCCGA-GAAGAcgacgacgcccgaGGAGGUGGcGCUg -3'
miRNA:   3'- -GUCCGGCUaCUUCU-------------UCUCCGCC-CGGu -5'
11425 5' -58.1 NC_003085.1 + 25755 0.74 0.168718
Target:  5'- gGGGCCGucuUGAcGGAGGAGGCugcugcgcGGGCCc -3'
miRNA:   3'- gUCCGGCu--ACU-UCUUCUCCG--------CCCGGu -5'
11425 5' -58.1 NC_003085.1 + 1247 0.71 0.238462
Target:  5'- gGGGCUGcgGAGGcAGGuggccgaauccaAGGUGGGCCAc -3'
miRNA:   3'- gUCCGGCuaCUUC-UUC------------UCCGCCCGGU- -5'
11425 5' -58.1 NC_003085.1 + 18534 0.71 0.257654
Target:  5'- gCGGGCCGAUugcccaGAAgcacGAGGuGGCGGGCa- -3'
miRNA:   3'- -GUCCGGCUA------CUU----CUUCuCCGCCCGgu -5'
11425 5' -58.1 NC_003085.1 + 47152 0.71 0.257654
Target:  5'- -cGGCCGGUGGc---GAGGCaGGCCAg -3'
miRNA:   3'- guCCGGCUACUucuuCUCCGcCCGGU- -5'
11425 5' -58.1 NC_003085.1 + 23187 0.71 0.262311
Target:  5'- uCAGGCCGAgggccaggacccugUGAAGGcAGuGGCcGGGCUg -3'
miRNA:   3'- -GUCCGGCU--------------ACUUCU-UCuCCG-CCCGGu -5'
11425 5' -58.1 NC_003085.1 + 19346 0.71 0.264327
Target:  5'- -cGGCgGAUGGcguccguguAGAGGAGGC-GGCCGg -3'
miRNA:   3'- guCCGgCUACU---------UCUUCUCCGcCCGGU- -5'
11425 5' -58.1 NC_003085.1 + 5967 0.7 0.299801
Target:  5'- cCGGGCUGcUGGAGGc--GGUGGGCCGu -3'
miRNA:   3'- -GUCCGGCuACUUCUucuCCGCCCGGU- -5'
11425 5' -58.1 NC_003085.1 + 18876 0.7 0.314988
Target:  5'- aAGGCUGAUGGAGccG-GGCGaGGuCCAc -3'
miRNA:   3'- gUCCGGCUACUUCuuCuCCGC-CC-GGU- -5'
11425 5' -58.1 NC_003085.1 + 34483 0.69 0.322798
Target:  5'- aCAGGCC-AUGuccAGccucccGGAGGUGGGCCGc -3'
miRNA:   3'- -GUCCGGcUACu--UCu-----UCUCCGCCCGGU- -5'
11425 5' -58.1 NC_003085.1 + 40849 0.68 0.380568
Target:  5'- cCGGGCUGGccaaccUGGAGGccagcguggacaaGGAGGUGGGCa- -3'
miRNA:   3'- -GUCCGGCU------ACUUCU-------------UCUCCGCCCGgu -5'
11425 5' -58.1 NC_003085.1 + 11956 0.68 0.381454
Target:  5'- uGGGC--GUGAAGGAGGGGCGGcGUgAg -3'
miRNA:   3'- gUCCGgcUACUUCUUCUCCGCC-CGgU- -5'
11425 5' -58.1 NC_003085.1 + 7261 0.68 0.390394
Target:  5'- aCAGGCUcugGGUGAAGGAGAcguGGCGcaccGCCGc -3'
miRNA:   3'- -GUCCGG---CUACUUCUUCU---CCGCc---CGGU- -5'
11425 5' -58.1 NC_003085.1 + 4483 0.68 0.39947
Target:  5'- aGGGCaCGGUGAcGAAGcgcgcuGGCgacuGGGCCAa -3'
miRNA:   3'- gUCCG-GCUACUuCUUCu-----CCG----CCCGGU- -5'
11425 5' -58.1 NC_003085.1 + 9183 0.68 0.408679
Target:  5'- cCAGGCCGgcGcAGAcgagguuguagGGGGGCGGGaCGu -3'
miRNA:   3'- -GUCCGGCuaCuUCU-----------UCUCCGCCCgGU- -5'
11425 5' -58.1 NC_003085.1 + 20410 0.67 0.41708
Target:  5'- uCAGGCUGGUGGccaacugcugcuGGAcggcguuGGAGGCaucccccagcGGGCCGu -3'
miRNA:   3'- -GUCCGGCUACU------------UCU-------UCUCCG----------CCCGGU- -5'
11425 5' -58.1 NC_003085.1 + 43827 0.67 0.446803
Target:  5'- --aGCCGGUGuuGAGGucgcgcAGGCGGGCg- -3'
miRNA:   3'- gucCGGCUACuuCUUC------UCCGCCCGgu -5'
11425 5' -58.1 NC_003085.1 + 5462 0.66 0.480711
Target:  5'- gAGGcCCGAgugcgGGAGuuGGAGGCggacaacgcggcgugGGGCCGg -3'
miRNA:   3'- gUCC-GGCUa----CUUCu-UCUCCG---------------CCCGGU- -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.