miRNA display CGI


Results 1 - 20 of 24 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
30812 3' -53.2 NC_006552.1 + 24678 0.66 0.852358
Target:  5'- aAGCGUUGCAACGccaCGuCCuUCGGCg -3'
miRNA:   3'- cUCGCGAUGUUGCaacGC-GGuAGCUG- -5'
30812 3' -53.2 NC_006552.1 + 16883 0.66 0.852358
Target:  5'- --cCGCUACggUGUUcaCGaCCAUCGACg -3'
miRNA:   3'- cucGCGAUGuuGCAAc-GC-GGUAGCUG- -5'
30812 3' -53.2 NC_006552.1 + 4923 0.66 0.841925
Target:  5'- uGAGCGCUGCcuguuucaugucGCGcUGCGCgGUCaGCu -3'
miRNA:   3'- -CUCGCGAUGu-----------UGCaACGCGgUAGcUG- -5'
30812 3' -53.2 NC_006552.1 + 17971 0.66 0.834788
Target:  5'- cGGCGUUGuacugagcCAACGcguccgGgGCCAUCGGCg -3'
miRNA:   3'- cUCGCGAU--------GUUGCaa----CgCGGUAGCUG- -5'
30812 3' -53.2 NC_006552.1 + 52129 0.66 0.834788
Target:  5'- cAGCGCUACccaguGGCGcgcccGCGUCGUUGAUa -3'
miRNA:   3'- cUCGCGAUG-----UUGCaa---CGCGGUAGCUG- -5'
30812 3' -53.2 NC_006552.1 + 26556 0.66 0.825671
Target:  5'- aGGCGCU-CGGCcugcGCGCCAUCGu- -3'
miRNA:   3'- cUCGCGAuGUUGcaa-CGCGGUAGCug -5'
30812 3' -53.2 NC_006552.1 + 4497 0.66 0.816345
Target:  5'- aGGCGC-ACcgAGCGgcUGCcaGCCAUCGGCg -3'
miRNA:   3'- cUCGCGaUG--UUGCa-ACG--CGGUAGCUG- -5'
30812 3' -53.2 NC_006552.1 + 62757 0.68 0.756611
Target:  5'- cGGGCGCUGCcGCGccUGCGag--CGACg -3'
miRNA:   3'- -CUCGCGAUGuUGCa-ACGCgguaGCUG- -5'
30812 3' -53.2 NC_006552.1 + 17359 0.68 0.742963
Target:  5'- -cGCGgaGCGACGgguUGCGCCgacugcguuugcugGUCGAUa -3'
miRNA:   3'- cuCGCgaUGUUGCa--ACGCGG--------------UAGCUG- -5'
30812 3' -53.2 NC_006552.1 + 26879 0.68 0.724828
Target:  5'- cAGCGCggcaucuucgGCGACGUUGUugaugccgGCCAgCGGCa -3'
miRNA:   3'- cUCGCGa---------UGUUGCAACG--------CGGUaGCUG- -5'
30812 3' -53.2 NC_006552.1 + 36205 0.68 0.714028
Target:  5'- ---gGCUGCGACGUUGgGCuCGUCG-Cu -3'
miRNA:   3'- cucgCGAUGUUGCAACgCG-GUAGCuG- -5'
30812 3' -53.2 NC_006552.1 + 41752 0.69 0.681181
Target:  5'- cAGCGa-ACAACGagcggGCGCCGUCgGACa -3'
miRNA:   3'- cUCGCgaUGUUGCaa---CGCGGUAG-CUG- -5'
30812 3' -53.2 NC_006552.1 + 8616 0.69 0.669012
Target:  5'- cAGCGCccaccggggacuuUGCAAUGUcGCGCCAaguuuccaacuUCGGCa -3'
miRNA:   3'- cUCGCG-------------AUGUUGCAaCGCGGU-----------AGCUG- -5'
30812 3' -53.2 NC_006552.1 + 50306 0.69 0.659024
Target:  5'- cGGGCGCUcacCGAaGUUGCGUCGgcaaUCGGCg -3'
miRNA:   3'- -CUCGCGAu--GUUgCAACGCGGU----AGCUG- -5'
30812 3' -53.2 NC_006552.1 + 59399 0.69 0.659024
Target:  5'- aGGGCGCgGCAGCGUcagGCGgUggCGGCg -3'
miRNA:   3'- -CUCGCGaUGUUGCAa--CGCgGuaGCUG- -5'
30812 3' -53.2 NC_006552.1 + 63189 0.7 0.625623
Target:  5'- gGAGCGCUGCAagGCGUUGUccugGCCGcaaCGGu -3'
miRNA:   3'- -CUCGCGAUGU--UGCAACG----CGGUa--GCUg -5'
30812 3' -53.2 NC_006552.1 + 31496 0.7 0.614487
Target:  5'- -cGCaGuCUGCGGCGUguaUGCGCCGguaUCGACc -3'
miRNA:   3'- cuCG-C-GAUGUUGCA---ACGCGGU---AGCUG- -5'
30812 3' -53.2 NC_006552.1 + 64741 0.7 0.600036
Target:  5'- cGGCGCUGCAGguggcgcucaacauCGUccaacGCGCCAcCGACg -3'
miRNA:   3'- cUCGCGAUGUU--------------GCAa----CGCGGUaGCUG- -5'
30812 3' -53.2 NC_006552.1 + 2059 0.7 0.600036
Target:  5'- uGAGCGCgcCGGCGUcgUGCGCgGccugcugaucgaacUCGACg -3'
miRNA:   3'- -CUCGCGauGUUGCA--ACGCGgU--------------AGCUG- -5'
30812 3' -53.2 NC_006552.1 + 7123 0.71 0.581212
Target:  5'- cGGCGCcgaACAAC-UUGCcccagGCCAUCGACa -3'
miRNA:   3'- cUCGCGa--UGUUGcAACG-----CGGUAGCUG- -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.