miRNA display CGI


Results 1 - 20 of 23 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
12661 3' -49.3 NC_003345.1 + 49157 0.66 0.989306
Target:  5'- cGGAGcaacguGGUCgGGAG-CGUCCUCGcuuAGAa -3'
miRNA:   3'- -CCUCu-----UCAG-CUUCaGCAGGAGU---UCUc -5'
12661 3' -49.3 NC_003345.1 + 73215 0.66 0.987763
Target:  5'- cGGGAAGccacaCGAGGUCGUUgUgAAGGGc -3'
miRNA:   3'- cCUCUUCa----GCUUCAGCAGgAgUUCUC- -5'
12661 3' -49.3 NC_003345.1 + 62023 0.66 0.987763
Target:  5'- cGGGGAAGaccgagacguUCGAGGaCGUUCUCGugacGAGc -3'
miRNA:   3'- -CCUCUUC----------AGCUUCaGCAGGAGUu---CUC- -5'
12661 3' -49.3 NC_003345.1 + 67145 0.66 0.986054
Target:  5'- cGGAcGGGUCGggGUCGUUCcCAc--- -3'
miRNA:   3'- -CCUcUUCAGCuuCAGCAGGaGUucuc -5'
12661 3' -49.3 NC_003345.1 + 33259 0.67 0.980755
Target:  5'- aGGGAAG-CGAGGUCGauuccgaccacguucUCCUUGAGGc -3'
miRNA:   3'- cCUCUUCaGCUUCAGC---------------AGGAGUUCUc -5'
12661 3' -49.3 NC_003345.1 + 73083 0.67 0.977343
Target:  5'- cGAGAacGGUcgccauagCGAGGUCGUCCuucccaUCGGGGGc -3'
miRNA:   3'- cCUCU--UCA--------GCUUCAGCAGG------AGUUCUC- -5'
12661 3' -49.3 NC_003345.1 + 51776 0.67 0.977343
Target:  5'- --cGAAGUCGggGUCaaCCUCGAa-- -3'
miRNA:   3'- ccuCUUCAGCuuCAGcaGGAGUUcuc -5'
12661 3' -49.3 NC_003345.1 + 8526 0.67 0.974646
Target:  5'- cGAGGuGGUgcuUGAGGUCGUCCaccaCGAGAGc -3'
miRNA:   3'- cCUCU-UCA---GCUUCAGCAGGa---GUUCUC- -5'
12661 3' -49.3 NC_003345.1 + 20586 0.67 0.974646
Target:  5'- aGAGAGGccauccgcUCGAAcGUCGUCagCGAGAGa -3'
miRNA:   3'- cCUCUUC--------AGCUU-CAGCAGgaGUUCUC- -5'
12661 3' -49.3 NC_003345.1 + 27916 0.67 0.971723
Target:  5'- cGGAGgcGUuguucucgUGAGcGUCGgaccCCUCAGGAGa -3'
miRNA:   3'- -CCUCuuCA--------GCUU-CAGCa---GGAGUUCUC- -5'
12661 3' -49.3 NC_003345.1 + 27134 0.68 0.965164
Target:  5'- cGAGAAGuUCGAGGUCGccgcgcugaagUCUCAGGuAGa -3'
miRNA:   3'- cCUCUUC-AGCUUCAGCa----------GGAGUUC-UC- -5'
12661 3' -49.3 NC_003345.1 + 42953 0.68 0.965164
Target:  5'- aGuGAAGUCGcGGUUGUCCUCu---- -3'
miRNA:   3'- cCuCUUCAGCuUCAGCAGGAGuucuc -5'
12661 3' -49.3 NC_003345.1 + 26130 0.68 0.961513
Target:  5'- aGGcaauGUCGAAGUCGUgCUgGAGAa -3'
miRNA:   3'- -CCucuuCAGCUUCAGCAgGAgUUCUc -5'
12661 3' -49.3 NC_003345.1 + 32152 0.68 0.948993
Target:  5'- gGGAGAGGUCGc-GUCGUUCUUcucgaagucguGGGAa -3'
miRNA:   3'- -CCUCUUCAGCuuCAGCAGGAG-----------UUCUc -5'
12661 3' -49.3 NC_003345.1 + 26556 0.69 0.928482
Target:  5'- cGAGAGGUCG----CGUUCUCAAGAa -3'
miRNA:   3'- cCUCUUCAGCuucaGCAGGAGUUCUc -5'
12661 3' -49.3 NC_003345.1 + 31103 0.7 0.916548
Target:  5'- cGGGGAAcggauguucgucGUCGggGuggagacacauuUCGUCC-CGAGAGg -3'
miRNA:   3'- -CCUCUU------------CAGCuuC------------AGCAGGaGUUCUC- -5'
12661 3' -49.3 NC_003345.1 + 41193 0.7 0.916548
Target:  5'- ----cGGUCGAGGUCGUCCUUGAu-- -3'
miRNA:   3'- ccucuUCAGCUUCAGCAGGAGUUcuc -5'
12661 3' -49.3 NC_003345.1 + 70099 0.7 0.896561
Target:  5'- aGAGAAGUUugccAGcUCGUCCUCAccgAGAGg -3'
miRNA:   3'- cCUCUUCAGcu--UC-AGCAGGAGU---UCUC- -5'
12661 3' -49.3 NC_003345.1 + 2558 0.72 0.840739
Target:  5'- cGGAGAAGUCGAAGUCGa---UGAGAc -3'
miRNA:   3'- -CCUCUUCAGCUUCAGCaggaGUUCUc -5'
12661 3' -49.3 NC_003345.1 + 19533 0.72 0.83181
Target:  5'- cGAGc-GUCGGAGuuUCGUCaCUCGGGAGg -3'
miRNA:   3'- cCUCuuCAGCUUC--AGCAG-GAGUUCUC- -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.