miRNA display CGI


Results 1 - 20 of 22 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
23089 3' -53.8 NC_005178.1 + 18555 0.66 0.683322
Target:  5'- -uGGCGCGCucgaucacaaccCGCGccgaccGUGACcAGGCGCAg -3'
miRNA:   3'- cuCCGCGCG------------GCGC------UACUGuUUUGUGU- -5'
23089 3' -53.8 NC_005178.1 + 344 0.66 0.665019
Target:  5'- -cGGCGCuguGCCgguaGCGAUGGCGucaaacucggccuccAGGCGCAg -3'
miRNA:   3'- cuCCGCG---CGG----CGCUACUGU---------------UUUGUGU- -5'
23089 3' -53.8 NC_005178.1 + 33789 0.66 0.637418
Target:  5'- -uGGUGcCGCCcuugGCGAUGGCccGGCGCGu -3'
miRNA:   3'- cuCCGC-GCGG----CGCUACUGuuUUGUGU- -5'
23089 3' -53.8 NC_005178.1 + 14446 0.66 0.637418
Target:  5'- -uGG-GCGCCGgGGUGcCGGAGCugGu -3'
miRNA:   3'- cuCCgCGCGGCgCUACuGUUUUGugU- -5'
23089 3' -53.8 NC_005178.1 + 7356 0.67 0.625899
Target:  5'- aGGGGCGCgugaccaucGCCGCaGAUGACGcc-CGCc -3'
miRNA:   3'- -CUCCGCG---------CGGCG-CUACUGUuuuGUGu -5'
23089 3' -53.8 NC_005178.1 + 32072 0.67 0.625899
Target:  5'- -cGGCGCGCCacGCGGUaGACGguGAACu-- -3'
miRNA:   3'- cuCCGCGCGG--CGCUA-CUGU--UUUGugu -5'
23089 3' -53.8 NC_005178.1 + 8604 0.67 0.625899
Target:  5'- -uGGCGCaCgGCGAUGGCcgugccGGACGCGg -3'
miRNA:   3'- cuCCGCGcGgCGCUACUGu-----UUUGUGU- -5'
23089 3' -53.8 NC_005178.1 + 5494 0.67 0.61899
Target:  5'- -uGGCGCGCCGCuccaaccaacacGACAAGAC-CGu -3'
miRNA:   3'- cuCCGCGCGGCGcua---------CUGUUUUGuGU- -5'
23089 3' -53.8 NC_005178.1 + 27511 0.67 0.602891
Target:  5'- uGGGCGCugGCCaggagcGCGGUGAUuuuGCGCAg -3'
miRNA:   3'- cUCCGCG--CGG------CGCUACUGuuuUGUGU- -5'
23089 3' -53.8 NC_005178.1 + 13116 0.67 0.601742
Target:  5'- -cGGCGCGCCGCcuucggccagguuGAUGcccuUAuAGCGCAg -3'
miRNA:   3'- cuCCGCGCGGCG-------------CUACu---GUuUUGUGU- -5'
23089 3' -53.8 NC_005178.1 + 6437 0.68 0.534832
Target:  5'- cGGGCGgGCCGuCGGUGcCGAuGCugAc -3'
miRNA:   3'- cUCCGCgCGGC-GCUACuGUUuUGugU- -5'
23089 3' -53.8 NC_005178.1 + 14227 0.69 0.501791
Target:  5'- aGGGCGCcggcaaggGCCGCGucUGGCAAGucgGCACc -3'
miRNA:   3'- cUCCGCG--------CGGCGCu-ACUGUUU---UGUGu -5'
23089 3' -53.8 NC_005178.1 + 31148 0.69 0.501791
Target:  5'- -cGGCGCGCCuCGccgcGACAaucGAGCGCAg -3'
miRNA:   3'- cuCCGCGCGGcGCua--CUGU---UUUGUGU- -5'
23089 3' -53.8 NC_005178.1 + 24827 0.69 0.484536
Target:  5'- aAGGCGCGaccauugcgcuggaCGUGcUGACGGAGCACu -3'
miRNA:   3'- cUCCGCGCg-------------GCGCuACUGUUUUGUGu -5'
23089 3' -53.8 NC_005178.1 + 24393 0.7 0.446804
Target:  5'- uGGGCGUGCUGCGGgaaccgcucacgGAUGAAGCugGc -3'
miRNA:   3'- cUCCGCGCGGCGCUa-----------CUGUUUUGugU- -5'
23089 3' -53.8 NC_005178.1 + 12122 0.7 0.418618
Target:  5'- uGGGCGCGCCGCcugcGcCGAcGCACAg -3'
miRNA:   3'- cUCCGCGCGGCGcua-CuGUUuUGUGU- -5'
23089 3' -53.8 NC_005178.1 + 27814 0.72 0.308566
Target:  5'- aAGGCGCuggaagcuaaccauGCCGCGAUGACccAGCAg- -3'
miRNA:   3'- cUCCGCG--------------CGGCGCUACUGuuUUGUgu -5'
23089 3' -53.8 NC_005178.1 + 26614 0.73 0.28757
Target:  5'- gGAGGCGgGCCGCGccggaucGACucGGCGCGg -3'
miRNA:   3'- -CUCCGCgCGGCGCua-----CUGuuUUGUGU- -5'
23089 3' -53.8 NC_005178.1 + 16985 0.73 0.272754
Target:  5'- aGAGGUcaGCGCCGCGAccUGGCccuGGAGCugGg -3'
miRNA:   3'- -CUCCG--CGCGGCGCU--ACUG---UUUUGugU- -5'
23089 3' -53.8 NC_005178.1 + 6140 0.74 0.258557
Target:  5'- aAGGCgguaGCGCCGCGAaGGCu-AGCACAa -3'
miRNA:   3'- cUCCG----CGCGGCGCUaCUGuuUUGUGU- -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.