miRNA display CGI


Results 1 - 13 of 13 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
28215 5' -48.6 NC_005891.1 + 39437 0.66 0.938479
Target:  5'- gGGGCGAAguGGgGGCGGAGGccgauGCCaaggGGGCg -3'
miRNA:   3'- -CCUGUUU--UCaCCGUCUUC-----UGGg---UUCG- -5'
28215 5' -48.6 NC_005891.1 + 28097 0.66 0.926816
Target:  5'- uGGAUGGc-GUGGUgaGGGAGAaCCAAGCc -3'
miRNA:   3'- -CCUGUUuuCACCG--UCUUCUgGGUUCG- -5'
28215 5' -48.6 NC_005891.1 + 10838 0.66 0.926816
Target:  5'- cGGCGGcGGcGGCGGc-GGCUCAGGCg -3'
miRNA:   3'- cCUGUUuUCaCCGUCuuCUGGGUUCG- -5'
28215 5' -48.6 NC_005891.1 + 33023 0.67 0.913878
Target:  5'- -cGCGAAA---GCGGAAGACCCA-GCu -3'
miRNA:   3'- ccUGUUUUcacCGUCUUCUGGGUuCG- -5'
28215 5' -48.6 NC_005891.1 + 6871 0.67 0.890556
Target:  5'- -uACAAGAGUGGUAGccAAGGCCauaucggucauAGCg -3'
miRNA:   3'- ccUGUUUUCACCGUC--UUCUGGgu---------UCG- -5'
28215 5' -48.6 NC_005891.1 + 16520 0.68 0.884234
Target:  5'- gGGGCGAuAGGUGGaaucaAGAgcaaaaAGGCCgAGGCc -3'
miRNA:   3'- -CCUGUU-UUCACCg----UCU------UCUGGgUUCG- -5'
28215 5' -48.6 NC_005891.1 + 38865 0.68 0.867602
Target:  5'- uGGACGccAGAGUGGUGGugagcaaacaGGGACaCgAAGCa -3'
miRNA:   3'- -CCUGU--UUUCACCGUC----------UUCUG-GgUUCG- -5'
28215 5' -48.6 NC_005891.1 + 7527 0.68 0.858858
Target:  5'- gGGAC---GGUGGUAGAAGGaaacauguUCCAAGa -3'
miRNA:   3'- -CCUGuuuUCACCGUCUUCU--------GGGUUCg -5'
28215 5' -48.6 NC_005891.1 + 15191 0.68 0.849841
Target:  5'- uGGGCAAcGGcGGCGGuguuuuGGCCguGGCg -3'
miRNA:   3'- -CCUGUUuUCaCCGUCuu----CUGGguUCG- -5'
28215 5' -48.6 NC_005891.1 + 27757 0.69 0.831027
Target:  5'- gGGACGGGGacaGGCAGAuugucuuacacuGGACCCGcacugcAGCa -3'
miRNA:   3'- -CCUGUUUUca-CCGUCU------------UCUGGGU------UCG- -5'
28215 5' -48.6 NC_005891.1 + 30085 0.7 0.758237
Target:  5'- uGGAgCAAGGccGUGGUucAGAAGACgUAAGCu -3'
miRNA:   3'- -CCU-GUUUU--CACCG--UCUUCUGgGUUCG- -5'
28215 5' -48.6 NC_005891.1 + 11066 0.7 0.758237
Target:  5'- uGGACGGGAGguaaaGGCGGAAGaagcggauaccGCUCAgacGGCa -3'
miRNA:   3'- -CCUGUUUUCa----CCGUCUUC-----------UGGGU---UCG- -5'
28215 5' -48.6 NC_005891.1 + 6842 1.16 0.00106
Target:  5'- uGGACAAAAGUGGCAGAAGACCCAAGCg -3'
miRNA:   3'- -CCUGUUUUCACCGUCUUCUGGGUUCG- -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.