miRNA display CGI


Results 1 - 20 of 29 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
7895 3' -55.1 NC_001973.1 + 105894 0.66 0.964368
Target:  5'- cGCCGAGCUggcgcucgcccgCCUCGucgauGCCGaaaaacucuucgUCCGcGUCGAg -3'
miRNA:   3'- -CGGCUUGA------------GGAGC-----UGGC------------AGGC-UAGCU- -5'
7895 3' -55.1 NC_001973.1 + 18625 0.66 0.964368
Target:  5'- -aCGAGCcgCCguUCGAgCCGUCCGA-CGGc -3'
miRNA:   3'- cgGCUUGa-GG--AGCU-GGCAGGCUaGCU- -5'
7895 3' -55.1 NC_001973.1 + 119111 0.66 0.961019
Target:  5'- aGCC--ACUCgUCGGCCGcgCUGGUCa- -3'
miRNA:   3'- -CGGcuUGAGgAGCUGGCa-GGCUAGcu -5'
7895 3' -55.1 NC_001973.1 + 25950 0.66 0.961019
Target:  5'- gGCCGAGucCUCCUCG-UCGUCUucGUCGu -3'
miRNA:   3'- -CGGCUU--GAGGAGCuGGCAGGc-UAGCu -5'
7895 3' -55.1 NC_001973.1 + 39766 0.66 0.959973
Target:  5'- aGCCGAagcugacguacacgACUCCgcggcgCGACuCGUCCaagaAUCGGg -3'
miRNA:   3'- -CGGCU--------------UGAGGa-----GCUG-GCAGGc---UAGCU- -5'
7895 3' -55.1 NC_001973.1 + 73623 0.66 0.957457
Target:  5'- uUCGGACggCUCG-CCGUCCGcgCGc -3'
miRNA:   3'- cGGCUUGagGAGCuGGCAGGCuaGCu -5'
7895 3' -55.1 NC_001973.1 + 80062 0.66 0.953679
Target:  5'- cGCCGGGucCUCCUCuuugcggcgcuuGGCCGUC--GUCGAg -3'
miRNA:   3'- -CGGCUU--GAGGAG------------CUGGCAGgcUAGCU- -5'
7895 3' -55.1 NC_001973.1 + 42522 0.66 0.953679
Target:  5'- aGCCGGACaagCCUC--CCGUCgGAgCGAc -3'
miRNA:   3'- -CGGCUUGa--GGAGcuGGCAGgCUaGCU- -5'
7895 3' -55.1 NC_001973.1 + 10137 0.66 0.953679
Target:  5'- aGCCGAAacUCUUGGCgguagGUCUGGUCGAg -3'
miRNA:   3'- -CGGCUUgaGGAGCUGg----CAGGCUAGCU- -5'
7895 3' -55.1 NC_001973.1 + 51685 0.66 0.949681
Target:  5'- cGCgCGAuCUCCUCGACCG-CCa----- -3'
miRNA:   3'- -CG-GCUuGAGGAGCUGGCaGGcuagcu -5'
7895 3' -55.1 NC_001973.1 + 71776 0.66 0.945892
Target:  5'- cGCCGAGCUCga-GGCCGgcggcgcccccgucgCCGcUCGAg -3'
miRNA:   3'- -CGGCUUGAGgagCUGGCa--------------GGCuAGCU- -5'
7895 3' -55.1 NC_001973.1 + 79697 0.66 0.94546
Target:  5'- uGCCGAuuuGCcggCUUUGGCgCGUCgGGUCGGc -3'
miRNA:   3'- -CGGCU---UGa--GGAGCUG-GCAGgCUAGCU- -5'
7895 3' -55.1 NC_001973.1 + 53873 0.67 0.931434
Target:  5'- cGCCGAGCgcggCGGCCGUggCCGcAUCGu -3'
miRNA:   3'- -CGGCUUGaggaGCUGGCA--GGC-UAGCu -5'
7895 3' -55.1 NC_001973.1 + 2690 0.67 0.925773
Target:  5'- gGCCGAcgcguaaaaucuuACgCgUCGGCCGgggUCGAUCGGg -3'
miRNA:   3'- -CGGCU-------------UGaGgAGCUGGCa--GGCUAGCU- -5'
7895 3' -55.1 NC_001973.1 + 158360 0.67 0.920385
Target:  5'- cGCCGGcucgucaacccgcGC-CCgcgcCGACuCGUCCGAUCGc -3'
miRNA:   3'- -CGGCU-------------UGaGGa---GCUG-GCAGGCUAGCu -5'
7895 3' -55.1 NC_001973.1 + 83340 0.68 0.915339
Target:  5'- cGCUGAACaUCCgcccCGACaCGcCCGAUCu- -3'
miRNA:   3'- -CGGCUUG-AGGa---GCUG-GCaGGCUAGcu -5'
7895 3' -55.1 NC_001973.1 + 95984 0.68 0.915339
Target:  5'- cGCUGGugUCCuUCGACagcgCCGaAUCGAu -3'
miRNA:   3'- -CGGCUugAGG-AGCUGgca-GGC-UAGCU- -5'
7895 3' -55.1 NC_001973.1 + 14417 0.69 0.877034
Target:  5'- cGUCaGGucCUCCaucguUCGACaCGUCCGAUCGGu -3'
miRNA:   3'- -CGG-CUu-GAGG-----AGCUG-GCAGGCUAGCU- -5'
7895 3' -55.1 NC_001973.1 + 99043 0.69 0.872772
Target:  5'- cGCCGGGCUCgaaUCGAgCCGUUCGuaaauuaaccguuugGUCGGu -3'
miRNA:   3'- -CGGCUUGAGg--AGCU-GGCAGGC---------------UAGCU- -5'
7895 3' -55.1 NC_001973.1 + 45867 0.69 0.854989
Target:  5'- gGCgCGcGCUCCUCGGCCGcggcgCUGcucGUCGAc -3'
miRNA:   3'- -CG-GCuUGAGGAGCUGGCa----GGC---UAGCU- -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.