miRNA display CGI


Results 1 - 19 of 19 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
13355 3' -65.4 NC_003409.1 + 107518 0.66 0.494921
Target:  5'- gGgGCUGGCGCUGUauuccAUCGGCgUUGGAg -3'
miRNA:   3'- -CgCGACCGCGGCGcc---UGGCCG-GACCU- -5'
13355 3' -65.4 NC_003409.1 + 90321 0.66 0.485899
Target:  5'- gGUGCUGGacuGCCGcCGGcguccagacGCCGGCCa--- -3'
miRNA:   3'- -CGCGACCg--CGGC-GCC---------UGGCCGGaccu -5'
13355 3' -65.4 NC_003409.1 + 111991 0.66 0.476955
Target:  5'- gGCG-UGGUGCCGgaugcaGGGCCuGGCCUcGAa -3'
miRNA:   3'- -CGCgACCGCGGCg-----CCUGG-CCGGAcCU- -5'
13355 3' -65.4 NC_003409.1 + 50066 0.66 0.45932
Target:  5'- aCGgaGGCGUC-CGGuACUGGCgUGGGc -3'
miRNA:   3'- cGCgaCCGCGGcGCC-UGGCCGgACCU- -5'
13355 3' -65.4 NC_003409.1 + 109086 0.67 0.416818
Target:  5'- aGCGUUGucCGuaGCGGGCCccguGCCUGGAc -3'
miRNA:   3'- -CGCGACc-GCggCGCCUGGc---CGGACCU- -5'
13355 3' -65.4 NC_003409.1 + 116585 0.67 0.392499
Target:  5'- aCGCUGGCGCuuCGCGccCCGGgCgGGAc -3'
miRNA:   3'- cGCGACCGCG--GCGCcuGGCCgGaCCU- -5'
13355 3' -65.4 NC_003409.1 + 131101 0.67 0.392499
Target:  5'- aGCuGCUGGUgGCCcuggguguaGUGGGCCGGUC-GGAa -3'
miRNA:   3'- -CG-CGACCG-CGG---------CGCCUGGCCGGaCCU- -5'
13355 3' -65.4 NC_003409.1 + 132922 0.68 0.383815
Target:  5'- aGUGCUcugccacCGCCGCcuucacggcauccGGACCGGCCgcgGGAu -3'
miRNA:   3'- -CGCGAcc-----GCGGCG-------------CCUGGCCGGa--CCU- -5'
13355 3' -65.4 NC_003409.1 + 109377 0.68 0.376806
Target:  5'- gGCGCUGGCcCCGCGcGACCuGaCCUa-- -3'
miRNA:   3'- -CGCGACCGcGGCGC-CUGGcC-GGAccu -5'
13355 3' -65.4 NC_003409.1 + 120387 0.68 0.354074
Target:  5'- uUGCUGGCGCuCaCGGcCCGugugccagccGCCUGGAc -3'
miRNA:   3'- cGCGACCGCG-GcGCCuGGC----------CGGACCU- -5'
13355 3' -65.4 NC_003409.1 + 43785 0.69 0.325299
Target:  5'- -aGCUGGCguagGCCGCGGGCCcGGacaUGGc -3'
miRNA:   3'- cgCGACCG----CGGCGCCUGG-CCgg-ACCu -5'
13355 3' -65.4 NC_003409.1 + 16632 0.69 0.324602
Target:  5'- aCGCUGGCcCCGCGcGGCCGccagguaGUCUGGc -3'
miRNA:   3'- cGCGACCGcGGCGC-CUGGC-------CGGACCu -5'
13355 3' -65.4 NC_003409.1 + 131074 0.69 0.311577
Target:  5'- gGCGCUGGCGUa----GCUGGCCUGGc -3'
miRNA:   3'- -CGCGACCGCGgcgccUGGCCGGACCu -5'
13355 3' -65.4 NC_003409.1 + 46769 0.7 0.261108
Target:  5'- aGUGCUGGUGgCGgGGGCCccagcaaGCCUGGc -3'
miRNA:   3'- -CGCGACCGCgGCgCCUGGc------CGGACCu -5'
13355 3' -65.4 NC_003409.1 + 131783 0.7 0.261107
Target:  5'- -gGCUGGCGaCCGUGGACgGGUUcagagGGGg -3'
miRNA:   3'- cgCGACCGC-GGCGCCUGgCCGGa----CCU- -5'
13355 3' -65.4 NC_003409.1 + 118478 0.71 0.243972
Target:  5'- gGUGCggGGUGCgGgGGACCGcGCCgGGGu -3'
miRNA:   3'- -CGCGa-CCGCGgCgCCUGGC-CGGaCCU- -5'
13355 3' -65.4 NC_003409.1 + 60838 0.71 0.233075
Target:  5'- cCGgUGGaCGCCGCGGGCCcGGUUagUGGGa -3'
miRNA:   3'- cGCgACC-GCGGCGCCUGG-CCGG--ACCU- -5'
13355 3' -65.4 NC_003409.1 + 45900 0.73 0.17604
Target:  5'- gGCGCuaaUGGCGCC-CGGGgUGGCCUGa- -3'
miRNA:   3'- -CGCG---ACCGCGGcGCCUgGCCGGACcu -5'
13355 3' -65.4 NC_003409.1 + 133183 1.09 0.000384
Target:  5'- gGCGCUGGCGCCGCGGACCGGCCUGGAg -3'
miRNA:   3'- -CGCGACCGCGGCGCCUGGCCGGACCU- -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.