miRNA display CGI


Results 1 - 20 of 40 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
15683 3' -57.3 NC_004065.1 + 41497 0.66 0.928341
Target:  5'- gCGUCGGGaCGgggagcgcGCGGGCGGucccgccAGA-GUCg -3'
miRNA:   3'- aGCAGUCC-GU--------CGCCCGCCu------UCUaCAG- -5'
15683 3' -57.3 NC_004065.1 + 43257 0.66 0.928341
Target:  5'- cUGUUAguGGCGGCGGcGCGGcgucuGAGGUGa- -3'
miRNA:   3'- aGCAGU--CCGUCGCC-CGCC-----UUCUACag -5'
15683 3' -57.3 NC_004065.1 + 120563 0.66 0.923138
Target:  5'- -gGUCGGcGCgAGCGGGCGGGAc----- -3'
miRNA:   3'- agCAGUC-CG-UCGCCCGCCUUcuacag -5'
15683 3' -57.3 NC_004065.1 + 200556 0.66 0.923138
Target:  5'- gCGaCGGGCGGCagcgggaacacGGGUGGAgaaGGGUgGUCg -3'
miRNA:   3'- aGCaGUCCGUCG-----------CCCGCCU---UCUA-CAG- -5'
15683 3' -57.3 NC_004065.1 + 141250 0.66 0.91771
Target:  5'- gUC-UCAGGCAGCugccGGUGGccaccAGGAUGUUg -3'
miRNA:   3'- -AGcAGUCCGUCGc---CCGCC-----UUCUACAG- -5'
15683 3' -57.3 NC_004065.1 + 23603 0.66 0.91771
Target:  5'- -aGgCAGGCGGUGaGGCGGGcaggcGGGUGg- -3'
miRNA:   3'- agCaGUCCGUCGC-CCGCCU-----UCUACag -5'
15683 3' -57.3 NC_004065.1 + 17997 0.66 0.912059
Target:  5'- gUGUCGGGgAGC---UGGAGGGUGUCg -3'
miRNA:   3'- aGCAGUCCgUCGcccGCCUUCUACAG- -5'
15683 3' -57.3 NC_004065.1 + 10855 0.66 0.91032
Target:  5'- aCGcCAGGUAcGUGGGCGGGaucuacgggaacucAGGUGa- -3'
miRNA:   3'- aGCaGUCCGU-CGCCCGCCU--------------UCUACag -5'
15683 3' -57.3 NC_004065.1 + 86194 0.66 0.908562
Target:  5'- aUCG-CAGGCguaGGCcauguuaacguuauaGGGCaGggGGUGUCu -3'
miRNA:   3'- -AGCaGUCCG---UCG---------------CCCGcCuuCUACAG- -5'
15683 3' -57.3 NC_004065.1 + 136350 0.66 0.906186
Target:  5'- uUCGgcugCAguGGCAuGCGGcGCGaGAAGAUgGUCa -3'
miRNA:   3'- -AGCa---GU--CCGU-CGCC-CGC-CUUCUA-CAG- -5'
15683 3' -57.3 NC_004065.1 + 223219 0.67 0.900092
Target:  5'- gUCGUCGgcGGUAGCGGcGacgcggucuucUGGAAGAgGUCg -3'
miRNA:   3'- -AGCAGU--CCGUCGCC-C-----------GCCUUCUaCAG- -5'
15683 3' -57.3 NC_004065.1 + 200780 0.67 0.900092
Target:  5'- cUCGUCGcGCGGCGGugGCGGgcGAcggcGUCu -3'
miRNA:   3'- -AGCAGUcCGUCGCC--CGCCuuCUa---CAG- -5'
15683 3' -57.3 NC_004065.1 + 41625 0.67 0.899471
Target:  5'- aUGUCcgcucgaGGGC-GCGcGGCGGGAGAcgacgGUCg -3'
miRNA:   3'- aGCAG-------UCCGuCGC-CCGCCUUCUa----CAG- -5'
15683 3' -57.3 NC_004065.1 + 19094 0.67 0.887254
Target:  5'- cUCGUCAGuCGGUGGG-GGAGGAg--- -3'
miRNA:   3'- -AGCAGUCcGUCGCCCgCCUUCUacag -5'
15683 3' -57.3 NC_004065.1 + 121888 0.67 0.880516
Target:  5'- -gGUUAGcGCuacGCuGGGCGGGAGuuGUGUCu -3'
miRNA:   3'- agCAGUC-CGu--CG-CCCGCCUUC--UACAG- -5'
15683 3' -57.3 NC_004065.1 + 34628 0.67 0.880516
Target:  5'- cUCGcCucccGGCAGCcgagcGGCGGAGGGUGg- -3'
miRNA:   3'- -AGCaGu---CCGUCGc----CCGCCUUCUACag -5'
15683 3' -57.3 NC_004065.1 + 33202 0.67 0.879831
Target:  5'- aCGUCguacaugAGGUcGCGGGCG--AGGUGUCc -3'
miRNA:   3'- aGCAG-------UCCGuCGCCCGCcuUCUACAG- -5'
15683 3' -57.3 NC_004065.1 + 214192 0.67 0.873571
Target:  5'- aUCGaCGGG-AGCGGGgGGAccgGGGUGaUCa -3'
miRNA:   3'- -AGCaGUCCgUCGCCCgCCU---UCUAC-AG- -5'
15683 3' -57.3 NC_004065.1 + 52150 0.67 0.873571
Target:  5'- gCGUCAGGaAGCcGGCGauGgcGGUGUCg -3'
miRNA:   3'- aGCAGUCCgUCGcCCGC--CuuCUACAG- -5'
15683 3' -57.3 NC_004065.1 + 145704 0.67 0.866422
Target:  5'- ---aCGGGCGGgGGuaGGAGGAgagGUCg -3'
miRNA:   3'- agcaGUCCGUCgCCcgCCUUCUa--CAG- -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.