miRNA display CGI


Results 1 - 20 of 48 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
12943 5' -62.3 NC_003387.1 + 29485 1.1 0.000191
Target:  5'- aGGGCACGGCCCGCGAGAUGGGCGUCGa -3'
miRNA:   3'- -CCCGUGCCGGGCGCUCUACCCGCAGC- -5'
12943 5' -62.3 NC_003387.1 + 43122 0.84 0.018181
Target:  5'- cGGCGCGGCgCCGCGGuGGUGGGCGUUc -3'
miRNA:   3'- cCCGUGCCG-GGCGCU-CUACCCGCAGc -5'
12943 5' -62.3 NC_003387.1 + 14171 0.78 0.051051
Target:  5'- cGGGC-CGGgCCGCGGGcgugaGGGCGUCGu -3'
miRNA:   3'- -CCCGuGCCgGGCGCUCua---CCCGCAGC- -5'
12943 5' -62.3 NC_003387.1 + 4138 0.77 0.061909
Target:  5'- cGGGCuuuugGGUCgGCGAGgcGGGCGUCGa -3'
miRNA:   3'- -CCCGug---CCGGgCGCUCuaCCCGCAGC- -5'
12943 5' -62.3 NC_003387.1 + 1840 0.75 0.098327
Target:  5'- aGGGCuGCGGCCUGUuuGAGAacGGCGUCa -3'
miRNA:   3'- -CCCG-UGCCGGGCG--CUCUacCCGCAGc -5'
12943 5' -62.3 NC_003387.1 + 49316 0.74 0.100196
Target:  5'- aGGGCACGGCCC-CGAGcAUGaucgcgcgcaagcuGaGCGUCGg -3'
miRNA:   3'- -CCCGUGCCGGGcGCUC-UAC--------------C-CGCAGC- -5'
12943 5' -62.3 NC_003387.1 + 31021 0.74 0.112434
Target:  5'- cGGCGCGGgCCGCGcucgccgaggcGGccaGGGCGUCGg -3'
miRNA:   3'- cCCGUGCCgGGCGC-----------UCua-CCCGCAGC- -5'
12943 5' -62.3 NC_003387.1 + 45421 0.72 0.146479
Target:  5'- aGGUACGGCCCcgGCGAGuuaccgccGGGCGUg- -3'
miRNA:   3'- cCCGUGCCGGG--CGCUCua------CCCGCAgc -5'
12943 5' -62.3 NC_003387.1 + 2907 0.71 0.184898
Target:  5'- cGGGCGCGGCaggCCGCGGGcgaGGCucucGUCGa -3'
miRNA:   3'- -CCCGUGCCG---GGCGCUCuacCCG----CAGC- -5'
12943 5' -62.3 NC_003387.1 + 4967 0.7 0.193088
Target:  5'- aGGCgGCGGCCCGCaaguacauguggagGAGAUGGccGCGUgGu -3'
miRNA:   3'- cCCG-UGCCGGGCG--------------CUCUACC--CGCAgC- -5'
12943 5' -62.3 NC_003387.1 + 31164 0.7 0.194566
Target:  5'- uGGGcCACGGUCUGCacGAcGAcgcGGGCGUCGc -3'
miRNA:   3'- -CCC-GUGCCGGGCG--CU-CUa--CCCGCAGC- -5'
12943 5' -62.3 NC_003387.1 + 23417 0.7 0.194566
Target:  5'- uGGCGCucguGCCCGCGgucgccggGGAacaGGGCGUCGa -3'
miRNA:   3'- cCCGUGc---CGGGCGC--------UCUa--CCCGCAGC- -5'
12943 5' -62.3 NC_003387.1 + 47957 0.7 0.199564
Target:  5'- uGGGcCGCGaaGCaCCGCGAGcUGGGCGgcaaCGg -3'
miRNA:   3'- -CCC-GUGC--CG-GGCGCUCuACCCGCa---GC- -5'
12943 5' -62.3 NC_003387.1 + 52332 0.7 0.215232
Target:  5'- gGGGUGCGagugcaCUCGaCGAGAUGGGCG-CGg -3'
miRNA:   3'- -CCCGUGCc-----GGGC-GCUCUACCCGCaGC- -5'
12943 5' -62.3 NC_003387.1 + 49940 0.7 0.220685
Target:  5'- -aGCAaacgcccugaGGCCCGCGAGGacucgGGGCGUUu -3'
miRNA:   3'- ccCGUg---------CCGGGCGCUCUa----CCCGCAGc -5'
12943 5' -62.3 NC_003387.1 + 20473 0.69 0.226255
Target:  5'- cGGCGCGGCguuCCGCG-GGUGGG-GUUu -3'
miRNA:   3'- cCCGUGCCG---GGCGCuCUACCCgCAGc -5'
12943 5' -62.3 NC_003387.1 + 26159 0.69 0.243682
Target:  5'- cGGCACcGCCCGCaa---GGGCGUCa -3'
miRNA:   3'- cCCGUGcCGGGCGcucuaCCCGCAGc -5'
12943 5' -62.3 NC_003387.1 + 19441 0.69 0.249735
Target:  5'- aGGGCGuuaaGGCCgUGCGGGcgcgugucaguGUGGGCGcCGa -3'
miRNA:   3'- -CCCGUg---CCGG-GCGCUC-----------UACCCGCaGC- -5'
12943 5' -62.3 NC_003387.1 + 48180 0.69 0.262211
Target:  5'- aGGCGCaGGCCCGCaAGGUGcccgcaccGGCGgCGg -3'
miRNA:   3'- cCCGUG-CCGGGCGcUCUAC--------CCGCaGC- -5'
12943 5' -62.3 NC_003387.1 + 14103 0.69 0.262848
Target:  5'- -aGCGCGGCCUGCGGgccgaacagcgccucGAUcaccggcacgcucaGGGUGUCGa -3'
miRNA:   3'- ccCGUGCCGGGCGCU---------------CUA--------------CCCGCAGC- -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.