miRNA display CGI


Results 1 - 20 of 364 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
30998 3' -64.4 NC_006560.1 + 148535 0.65 0.557904
Target:  5'- gGCUGGGGUGcCGAUGgugucccCGGCGuuauaugcGCCGGg -3'
miRNA:   3'- -UGGCCCCGC-GCUAC-------GCCGCu-------CGGCUg -5'
30998 3' -64.4 NC_006560.1 + 99946 0.66 0.549366
Target:  5'- gACgGgaGGGCGCGGguacGCGGUGcGCCGuCg -3'
miRNA:   3'- -UGgC--CCCGCGCUa---CGCCGCuCGGCuG- -5'
30998 3' -64.4 NC_006560.1 + 146541 0.66 0.549366
Target:  5'- --gGGGGCGCGG-GCaGCGAGgCCcGCu -3'
miRNA:   3'- uggCCCCGCGCUaCGcCGCUC-GGcUG- -5'
30998 3' -64.4 NC_006560.1 + 146962 0.66 0.549366
Target:  5'- gGCCGGGG-GCcggGCcugGGCGGGUgGGCg -3'
miRNA:   3'- -UGGCCCCgCGcuaCG---CCGCUCGgCUG- -5'
30998 3' -64.4 NC_006560.1 + 10307 0.66 0.549366
Target:  5'- cGCCGGGGaccgccgcCGCGAcccGCGGC---CCGACg -3'
miRNA:   3'- -UGGCCCC--------GCGCUa--CGCCGcucGGCUG- -5'
30998 3' -64.4 NC_006560.1 + 31944 0.66 0.549366
Target:  5'- cGCgCGGGGgGCGGccggGCGG-GGGCgCGAg -3'
miRNA:   3'- -UG-GCCCCgCGCUa---CGCCgCUCG-GCUg -5'
30998 3' -64.4 NC_006560.1 + 73844 0.66 0.549366
Target:  5'- -gCGGGGCGCG-UGUacagcgccaaGGCGcuGCUGGCc -3'
miRNA:   3'- ugGCCCCGCGCuACG----------CCGCu-CGGCUG- -5'
30998 3' -64.4 NC_006560.1 + 107172 0.66 0.549366
Target:  5'- cACCGaGGCcuGCGAgggGCGGacccgggagauCGAGCCGAa -3'
miRNA:   3'- -UGGCcCCG--CGCUa--CGCC-----------GCUCGGCUg -5'
30998 3' -64.4 NC_006560.1 + 131298 0.66 0.549366
Target:  5'- cCCGGGGCuCGAggccCGGCuGGCCG-Cg -3'
miRNA:   3'- uGGCCCCGcGCUac--GCCGcUCGGCuG- -5'
30998 3' -64.4 NC_006560.1 + 133324 0.66 0.549366
Target:  5'- cGCCuGGuGGC-UGAUGgccuCGGCGAcGCCGACc -3'
miRNA:   3'- -UGG-CC-CCGcGCUAC----GCCGCU-CGGCUG- -5'
30998 3' -64.4 NC_006560.1 + 3253 0.66 0.549366
Target:  5'- gGCCcGGGCgGCGc-GCGGCGccAGCCGcCg -3'
miRNA:   3'- -UGGcCCCG-CGCuaCGCCGC--UCGGCuG- -5'
30998 3' -64.4 NC_006560.1 + 68421 0.66 0.54842
Target:  5'- uGCUGGaGGCgGCGGgacugcgcaccGCGGCcgcccugGGGCCGGCg -3'
miRNA:   3'- -UGGCC-CCG-CGCUa----------CGCCG-------CUCGGCUG- -5'
30998 3' -64.4 NC_006560.1 + 93310 0.66 0.54842
Target:  5'- aACgGGGGUGgGGggaaaauagcggcUGgGGCGGGuuGGCc -3'
miRNA:   3'- -UGgCCCCGCgCU-------------ACgCCGCUCggCUG- -5'
30998 3' -64.4 NC_006560.1 + 53608 0.66 0.546529
Target:  5'- gGCCGGGagaGCGuCGAcucccucggcgcccUGCGGCGGcucguuGCCGGg -3'
miRNA:   3'- -UGGCCC---CGC-GCU--------------ACGCCGCU------CGGCUg -5'
30998 3' -64.4 NC_006560.1 + 83210 0.66 0.546529
Target:  5'- cCCGGGGCGCcccccccgaagcggGCGGCGccCCGGg -3'
miRNA:   3'- uGGCCCCGCGcua-----------CGCCGCucGGCUg -5'
30998 3' -64.4 NC_006560.1 + 126667 0.66 0.539927
Target:  5'- cGCCGGcGGcCGCGA--UGGC--GCCGACg -3'
miRNA:   3'- -UGGCC-CC-GCGCUacGCCGcuCGGCUG- -5'
30998 3' -64.4 NC_006560.1 + 74332 0.66 0.539927
Target:  5'- cGCCGGcGGCcuggcuccCGAgacGCGGCGccuGGCCGAg -3'
miRNA:   3'- -UGGCC-CCGc-------GCUa--CGCCGC---UCGGCUg -5'
30998 3' -64.4 NC_006560.1 + 20200 0.66 0.539927
Target:  5'- cCCGGGGCuCGu--CGGcCGAGCCGuCc -3'
miRNA:   3'- uGGCCCCGcGCuacGCC-GCUCGGCuG- -5'
30998 3' -64.4 NC_006560.1 + 148469 0.66 0.539927
Target:  5'- uCUGGGGCgGCGGaGCGGagggaGAGCgCGGa -3'
miRNA:   3'- uGGCCCCG-CGCUaCGCCg----CUCG-GCUg -5'
30998 3' -64.4 NC_006560.1 + 142666 0.66 0.539927
Target:  5'- uCCGGGccGgGUGAgggGCGGCG-GCgGACc -3'
miRNA:   3'- uGGCCC--CgCGCUa--CGCCGCuCGgCUG- -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.