miRNA display CGI


Results 1 - 20 of 55 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
28105 3' -57.8 NC_005887.1 + 1140 0.71 0.267254
Target:  5'- aAGCCGCGCGugcGCGugaaGGAuCUGACGg-- -3'
miRNA:   3'- -UCGGCGCGC---UGCug--CCU-GACUGCaua -5'
28105 3' -57.8 NC_005887.1 + 1453 0.67 0.461861
Target:  5'- gGGCCcaugaugaacgaGCGCGACGcGCGGGacagGAUGUAg -3'
miRNA:   3'- -UCGG------------CGCGCUGC-UGCCUga--CUGCAUa -5'
28105 3' -57.8 NC_005887.1 + 2244 0.67 0.442102
Target:  5'- aAGUCGuCGCGACGAgcaUGGGCgcGCGUAa -3'
miRNA:   3'- -UCGGC-GCGCUGCU---GCCUGacUGCAUa -5'
28105 3' -57.8 NC_005887.1 + 2719 1.06 0.000666
Target:  5'- gAGCCGCGCGACGACGGACUGACGUAUg -3'
miRNA:   3'- -UCGGCGCGCUGCUGCCUGACUGCAUA- -5'
28105 3' -57.8 NC_005887.1 + 3065 0.7 0.309271
Target:  5'- uGGCCgcagGCGCGuuGACGGACgaagaagcgacgGACGUGg -3'
miRNA:   3'- -UCGG----CGCGCugCUGCCUGa-----------CUGCAUa -5'
28105 3' -57.8 NC_005887.1 + 4676 0.67 0.432404
Target:  5'- cGCUGCGCaGACGGCgaGGGuCUGAUGg-- -3'
miRNA:   3'- uCGGCGCG-CUGCUG--CCU-GACUGCaua -5'
28105 3' -57.8 NC_005887.1 + 5391 0.67 0.451922
Target:  5'- aAGCCaGCGCGAccggugaacCGGCGGGC-GGCGc-- -3'
miRNA:   3'- -UCGG-CGCGCU---------GCUGCCUGaCUGCaua -5'
28105 3' -57.8 NC_005887.1 + 7376 0.7 0.288385
Target:  5'- uGUCG-GCGGCGACGGAC-GGCGa-- -3'
miRNA:   3'- uCGGCgCGCUGCUGCCUGaCUGCaua -5'
28105 3' -57.8 NC_005887.1 + 7901 0.73 0.189899
Target:  5'- aGGCCG-GCGACGAucugcaguaaCGGACUGACa--- -3'
miRNA:   3'- -UCGGCgCGCUGCU----------GCCUGACUGcaua -5'
28105 3' -57.8 NC_005887.1 + 10101 0.66 0.471913
Target:  5'- cGGCC-CGCGcCGACGGccagcugaucgGCUGcACGUAc -3'
miRNA:   3'- -UCGGcGCGCuGCUGCC-----------UGAC-UGCAUa -5'
28105 3' -57.8 NC_005887.1 + 12198 0.7 0.274155
Target:  5'- uGgCGCGCGACGGCGGcCUGcuCGUc- -3'
miRNA:   3'- uCgGCGCGCUGCUGCCuGACu-GCAua -5'
28105 3' -57.8 NC_005887.1 + 12600 0.69 0.359549
Target:  5'- cGGCCGCGaCGcuCGGCGuGCUGACGc-- -3'
miRNA:   3'- -UCGGCGC-GCu-GCUGCcUGACUGCaua -5'
28105 3' -57.8 NC_005887.1 + 13394 0.69 0.342725
Target:  5'- aGGCCG-GCG-CGGCGGACgucGGCGg-- -3'
miRNA:   3'- -UCGGCgCGCuGCUGCCUGa--CUGCaua -5'
28105 3' -57.8 NC_005887.1 + 14093 0.67 0.42283
Target:  5'- aGGCUGCGcCGGCGGCGcGCcGGCGg-- -3'
miRNA:   3'- -UCGGCGC-GCUGCUGCcUGaCUGCaua -5'
28105 3' -57.8 NC_005887.1 + 14696 0.66 0.482075
Target:  5'- gGGCuCGuCGCGGCgGGCGGGCcgGGCGc-- -3'
miRNA:   3'- -UCG-GC-GCGCUG-CUGCCUGa-CUGCaua -5'
28105 3' -57.8 NC_005887.1 + 14823 0.7 0.295714
Target:  5'- cGGCCGCGacgcuGAUGGCGGGCacguucgcgGGCGUGc -3'
miRNA:   3'- -UCGGCGCg----CUGCUGCCUGa--------CUGCAUa -5'
28105 3' -57.8 NC_005887.1 + 15494 0.71 0.241678
Target:  5'- uGGCCGCGCGucaGAUGGACgccggccaguuuccgGACGUc- -3'
miRNA:   3'- -UCGGCGCGCug-CUGCCUGa--------------CUGCAua -5'
28105 3' -57.8 NC_005887.1 + 15693 0.66 0.521599
Target:  5'- cGCCGCGCGGC--CGGAUgauuccgccgccGGCGUGa -3'
miRNA:   3'- uCGGCGCGCUGcuGCCUGa-----------CUGCAUa -5'
28105 3' -57.8 NC_005887.1 + 15746 0.7 0.281199
Target:  5'- cGGCCGCGCGGCGGUGaGCUGGuCGa-- -3'
miRNA:   3'- -UCGGCGCGCUGCUGCcUGACU-GCaua -5'
28105 3' -57.8 NC_005887.1 + 16201 0.66 0.513168
Target:  5'- aGGCCGCGCuGCGAcCGGAC--ACGc-- -3'
miRNA:   3'- -UCGGCGCGcUGCU-GCCUGacUGCaua -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.