miRNA display CGI


Results 1 - 20 of 28 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
27556 3' -59.9 NC_005882.1 + 9546 0.66 0.366529
Target:  5'- cGCcAGCGCGccaaucgcagCGGCuuucaccucaagcGACGCGGACCGGu -3'
miRNA:   3'- -UGcUCGCGCa---------GCCG-------------CUGUGCCUGGUU- -5'
27556 3' -59.9 NC_005882.1 + 34482 0.66 0.35879
Target:  5'- aGCGGGC-CGUCGGCucgguCGuCGGAUCGAu -3'
miRNA:   3'- -UGCUCGcGCAGCCGcu---GU-GCCUGGUU- -5'
27556 3' -59.9 NC_005882.1 + 12319 0.66 0.342004
Target:  5'- cGCGAucaGCGCGUgacggcugcCGGCGGCGCcGAUCGg -3'
miRNA:   3'- -UGCU---CGCGCA---------GCCGCUGUGcCUGGUu -5'
27556 3' -59.9 NC_005882.1 + 22783 0.66 0.342004
Target:  5'- aACGAGCcCGUCacguuugacGCGGCaACGGGCCGu -3'
miRNA:   3'- -UGCUCGcGCAGc--------CGCUG-UGCCUGGUu -5'
27556 3' -59.9 NC_005882.1 + 15278 0.67 0.317903
Target:  5'- uACGAGCggGCGUCGaccgggagcgccGUGAgcaGCGGGCCGAg -3'
miRNA:   3'- -UGCUCG--CGCAGC------------CGCUg--UGCCUGGUU- -5'
27556 3' -59.9 NC_005882.1 + 26946 0.67 0.317903
Target:  5'- gGCGGGCGCGgcCGGCaaguuCGCGG-CCGu -3'
miRNA:   3'- -UGCUCGCGCa-GCCGcu---GUGCCuGGUu -5'
27556 3' -59.9 NC_005882.1 + 12039 0.67 0.302559
Target:  5'- uGCGuuGCGCGUCaGCucGGCGCGGuacGCCAGc -3'
miRNA:   3'- -UGCu-CGCGCAGcCG--CUGUGCC---UGGUU- -5'
27556 3' -59.9 NC_005882.1 + 19603 0.67 0.301807
Target:  5'- cGCGccuGCGCGUCGGCGagcugcugcuugaGCugGGugUu- -3'
miRNA:   3'- -UGCu--CGCGCAGCCGC-------------UGugCCugGuu -5'
27556 3' -59.9 NC_005882.1 + 23425 0.67 0.287791
Target:  5'- aGC-AGCuCGUCGGCGuCACGGGCg-- -3'
miRNA:   3'- -UGcUCGcGCAGCCGCuGUGCCUGguu -5'
27556 3' -59.9 NC_005882.1 + 3260 0.67 0.287791
Target:  5'- cGCGAGCGUGcgggCGGCGuCACuGuCCAGc -3'
miRNA:   3'- -UGCUCGCGCa---GCCGCuGUGcCuGGUU- -5'
27556 3' -59.9 NC_005882.1 + 23236 0.67 0.287791
Target:  5'- cCGGGCGCGggcCGGCGgGCAC-GAUCAAc -3'
miRNA:   3'- uGCUCGCGCa--GCCGC-UGUGcCUGGUU- -5'
27556 3' -59.9 NC_005882.1 + 12237 0.68 0.280622
Target:  5'- -gGAGCGCaucaCGGCGGC-CGGugCAu -3'
miRNA:   3'- ugCUCGCGca--GCCGCUGuGCCugGUu -5'
27556 3' -59.9 NC_005882.1 + 17153 0.68 0.273596
Target:  5'- aGCGccuGCGCGUCGGCauucaggucgcGCGCGGACa-- -3'
miRNA:   3'- -UGCu--CGCGCAGCCGc----------UGUGCCUGguu -5'
27556 3' -59.9 NC_005882.1 + 18284 0.68 0.266031
Target:  5'- gACGAuucacauGCGCGUCGGCGGCAagaaGGcguaCAAg -3'
miRNA:   3'- -UGCU-------CGCGCAGCCGCUGUg---CCug--GUU- -5'
27556 3' -59.9 NC_005882.1 + 29736 0.68 0.246898
Target:  5'- gACGAGCgGCGacacgcugCGGCuuuccGCACGGGCCGg -3'
miRNA:   3'- -UGCUCG-CGCa-------GCCGc----UGUGCCUGGUu -5'
27556 3' -59.9 NC_005882.1 + 1768 0.69 0.230727
Target:  5'- gACGGGauucggcguauucaGCGUgGGCG-CGCGGGCCGc -3'
miRNA:   3'- -UGCUCg-------------CGCAgCCGCuGUGCCUGGUu -5'
27556 3' -59.9 NC_005882.1 + 21742 0.69 0.22832
Target:  5'- cGCGcGCGcCGUCGccaguuCGACGCGGACCu- -3'
miRNA:   3'- -UGCuCGC-GCAGCc-----GCUGUGCCUGGuu -5'
27556 3' -59.9 NC_005882.1 + 22739 0.69 0.224749
Target:  5'- uCGAGCGCuugcgggaucgugaaGcCGGCGAgcUGCGGGCCGAa -3'
miRNA:   3'- uGCUCGCG---------------CaGCCGCU--GUGCCUGGUU- -5'
27556 3' -59.9 NC_005882.1 + 3221 0.69 0.216601
Target:  5'- cGCGcAGCaCGUCGGaCGACuucgcgagguACGGGCCGAu -3'
miRNA:   3'- -UGC-UCGcGCAGCC-GCUG----------UGCCUGGUU- -5'
27556 3' -59.9 NC_005882.1 + 31963 0.69 0.216601
Target:  5'- gACGA--GCGUCGGCGGcCGCuGACCGAu -3'
miRNA:   3'- -UGCUcgCGCAGCCGCU-GUGcCUGGUU- -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.