miRNA display CGI


Results 1 - 20 of 80 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
12774 5' -61 NC_003387.1 + 51624 1.1 0.000262
Target:  5'- aCCCGCGCUCGCGGGCACCGAACAGGAu -3'
miRNA:   3'- -GGGCGCGAGCGCCCGUGGCUUGUCCU- -5'
12774 5' -61 NC_003387.1 + 47642 0.76 0.088246
Target:  5'- gCCCGCGaCUaGCGGGCcUCGGGCAGGu -3'
miRNA:   3'- -GGGCGC-GAgCGCCCGuGGCUUGUCCu -5'
12774 5' -61 NC_003387.1 + 40499 0.76 0.094986
Target:  5'- gCUGCGCUgGCGaccgccgguggcccGGCACCGAGCAGcGAc -3'
miRNA:   3'- gGGCGCGAgCGC--------------CCGUGGCUUGUC-CU- -5'
12774 5' -61 NC_003387.1 + 50681 0.74 0.126767
Target:  5'- aCCGCggccaGCUCgGCGacggcggccgucggcGGCACCGAGCAGGGc -3'
miRNA:   3'- gGGCG-----CGAG-CGC---------------CCGUGGCUUGUCCU- -5'
12774 5' -61 NC_003387.1 + 29439 0.73 0.151027
Target:  5'- gCCCGCGCggucgcuauccUCGCGaucgagaacGGCGCCagcGAGCAGGGc -3'
miRNA:   3'- -GGGCGCG-----------AGCGC---------CCGUGG---CUUGUCCU- -5'
12774 5' -61 NC_003387.1 + 9107 0.72 0.172138
Target:  5'- gCUCGCGCU--CGGGCACuaugugcuCGAACGGGAu -3'
miRNA:   3'- -GGGCGCGAgcGCCCGUG--------GCUUGUCCU- -5'
12774 5' -61 NC_003387.1 + 4530 0.72 0.172138
Target:  5'- gCCGcCGCcggUGCGGGCACCuuGCGGGc -3'
miRNA:   3'- gGGC-GCGa--GCGCCCGUGGcuUGUCCu -5'
12774 5' -61 NC_003387.1 + 51578 0.72 0.181297
Target:  5'- aCCGCGCaugcaCGCaGGCGCCGAGCAc-- -3'
miRNA:   3'- gGGCGCGa----GCGcCCGUGGCUUGUccu -5'
12774 5' -61 NC_003387.1 + 23421 0.71 0.206101
Target:  5'- gCUCGUGCcCGCGGuCGCCGGggaACAGGGc -3'
miRNA:   3'- -GGGCGCGaGCGCCcGUGGCU---UGUCCU- -5'
12774 5' -61 NC_003387.1 + 19238 0.71 0.206101
Target:  5'- -aCGCGaUCGCGGGCGCCGAccgccuCGGcGAc -3'
miRNA:   3'- ggGCGCgAGCGCCCGUGGCUu-----GUC-CU- -5'
12774 5' -61 NC_003387.1 + 33400 0.71 0.211402
Target:  5'- gCCGCGCUCGUcgcuguacucGGucaCGCCGAGCuGGAu -3'
miRNA:   3'- gGGCGCGAGCG----------CCc--GUGGCUUGuCCU- -5'
12774 5' -61 NC_003387.1 + 20955 0.71 0.215726
Target:  5'- uUCGCGCggUGCGGGCucggcgaccaggUCGAGCAGGGa -3'
miRNA:   3'- gGGCGCGa-GCGCCCGu-----------GGCUUGUCCU- -5'
12774 5' -61 NC_003387.1 + 2708 0.71 0.222355
Target:  5'- gUUGUGCUcggcgaCGCGGGCGgCGGGCAGGc -3'
miRNA:   3'- gGGCGCGA------GCGCCCGUgGCUUGUCCu -5'
12774 5' -61 NC_003387.1 + 13538 0.7 0.22687
Target:  5'- gCCUGgGCUCGCuguucaagggccuGGGCAgcCCGAucgacggGCAGGAc -3'
miRNA:   3'- -GGGCgCGAGCG-------------CCCGU--GGCU-------UGUCCU- -5'
12774 5' -61 NC_003387.1 + 45591 0.7 0.233788
Target:  5'- gCCGgGcCUCGCGuGGCugaucgACCGGcuGCAGGAg -3'
miRNA:   3'- gGGCgC-GAGCGC-CCG------UGGCU--UGUCCU- -5'
12774 5' -61 NC_003387.1 + 39212 0.7 0.239687
Target:  5'- cCCCGCGgUCgggcagugggaGCGGGUACCGGcgcCGGGc -3'
miRNA:   3'- -GGGCGCgAG-----------CGCCCGUGGCUu--GUCCu -5'
12774 5' -61 NC_003387.1 + 1401 0.7 0.2575
Target:  5'- gUCGCGCUCgaaguuguGCGaGGCGCCGccgccgacgagcuGGCAGGGc -3'
miRNA:   3'- gGGCGCGAG--------CGC-CCGUGGC-------------UUGUCCU- -5'
12774 5' -61 NC_003387.1 + 30171 0.7 0.258133
Target:  5'- gCCCGCGCgaUCGCcucGGGCaaggagcagucGCCGAGCcGGu -3'
miRNA:   3'- -GGGCGCG--AGCG---CCCG-----------UGGCUUGuCCu -5'
12774 5' -61 NC_003387.1 + 8530 0.7 0.258133
Target:  5'- aCCG-GCUCGCGGGUAguuaguugcCCGcGCGGGc -3'
miRNA:   3'- gGGCgCGAGCGCCCGU---------GGCuUGUCCu -5'
12774 5' -61 NC_003387.1 + 22676 0.7 0.258133
Target:  5'- -gCGCGCUCGUGGGCGgUGucGACGGcGGc -3'
miRNA:   3'- ggGCGCGAGCGCCCGUgGC--UUGUC-CU- -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.