miRNA display CGI


Results 1 - 20 of 35 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
3106 3' -59.9 NC_001493.1 + 102120 0.66 0.743525
Target:  5'- aGGGAuagaacgauGGGGCCGCCUUgGGCGGCu--- -3'
miRNA:   3'- -UCCU---------CCUCGGUGGGGgCUGCUGcaag -5'
3106 3' -59.9 NC_001493.1 + 101163 0.66 0.737807
Target:  5'- aGGGAGGcGUUGCCCCCuauccauugauuaugGACGugGa-- -3'
miRNA:   3'- -UCCUCCuCGGUGGGGG---------------CUGCugCaag -5'
3106 3' -59.9 NC_001493.1 + 119162 0.66 0.714637
Target:  5'- -uGGGGAaaagacccGCCGCCCCCG-CGAauaccgGUUCg -3'
miRNA:   3'- ucCUCCU--------CGGUGGGGGCuGCUg-----CAAG- -5'
3106 3' -59.9 NC_001493.1 + 3608 0.66 0.714637
Target:  5'- -uGGGGAaaagacccGCCGCCCCCG-CGAauaccgGUUCg -3'
miRNA:   3'- ucCUCCU--------CGGUGGGGGCuGCUg-----CAAG- -5'
3106 3' -59.9 NC_001493.1 + 89804 0.66 0.714637
Target:  5'- cAGG-GGAGCCcuagagaacGCCgCCGugcGCGACuGUUCg -3'
miRNA:   3'- -UCCuCCUCGG---------UGGgGGC---UGCUG-CAAG- -5'
3106 3' -59.9 NC_001493.1 + 93456 0.66 0.704861
Target:  5'- gGGGGGGAGCgACUCCuCGAucuccCGuuguUGUUCa -3'
miRNA:   3'- -UCCUCCUCGgUGGGG-GCU-----GCu---GCAAG- -5'
3106 3' -59.9 NC_001493.1 + 124669 0.66 0.704861
Target:  5'- cGGGAgccgcGGGGUCAUCCCCG-CGACc--- -3'
miRNA:   3'- -UCCU-----CCUCGGUGGGGGCuGCUGcaag -5'
3106 3' -59.9 NC_001493.1 + 9114 0.66 0.704861
Target:  5'- cGGGAgccgcGGGGUCAUCCCCG-CGACc--- -3'
miRNA:   3'- -UCCU-----CCUCGGUGGGGGCuGCUGcaag -5'
3106 3' -59.9 NC_001493.1 + 3797 0.66 0.704861
Target:  5'- -cGAGGAGCgCGCCCCUGuGCGAacCGg-- -3'
miRNA:   3'- ucCUCCUCG-GUGGGGGC-UGCU--GCaag -5'
3106 3' -59.9 NC_001493.1 + 119351 0.66 0.704861
Target:  5'- -cGAGGAGCgCGCCCCUGuGCGAacCGg-- -3'
miRNA:   3'- ucCUCCUCG-GUGGGGGC-UGCU--GCaag -5'
3106 3' -59.9 NC_001493.1 + 5959 0.66 0.704861
Target:  5'- cGGGGGAGCUACCacuCUCGAUG-CGg-- -3'
miRNA:   3'- uCCUCCUCGGUGG---GGGCUGCuGCaag -5'
3106 3' -59.9 NC_001493.1 + 121513 0.66 0.704861
Target:  5'- cGGGGGAGCUACCacuCUCGAUG-CGg-- -3'
miRNA:   3'- uCCUCCUCGGUGG---GGGCUGCuGCaag -5'
3106 3' -59.9 NC_001493.1 + 43733 0.67 0.685142
Target:  5'- uGGuGGGGuuGGCCACgagCCCCGAUGAcuccgcgauggcCGUUCg -3'
miRNA:   3'- -UC-CUCC--UCGGUG---GGGGCUGCU------------GCAAG- -5'
3106 3' -59.9 NC_001493.1 + 121598 0.67 0.655269
Target:  5'- cGGGGGAgcuGCCACUCUCGAUG-CGg-- -3'
miRNA:   3'- uCCUCCU---CGGUGGGGGCUGCuGCaag -5'
3106 3' -59.9 NC_001493.1 + 121399 0.67 0.655269
Target:  5'- cGGGGGAgcuGCCACUCUCGAUG-CGg-- -3'
miRNA:   3'- uCCUCCU---CGGUGGGGGCUGCuGCaag -5'
3106 3' -59.9 NC_001493.1 + 43675 0.67 0.655269
Target:  5'- -uGGGGAGCUACaCCCgGACGAUa--- -3'
miRNA:   3'- ucCUCCUCGGUG-GGGgCUGCUGcaag -5'
3106 3' -59.9 NC_001493.1 + 114706 0.67 0.655269
Target:  5'- aGGGAGGuuUgAUCCCgGACGAUGUg- -3'
miRNA:   3'- -UCCUCCucGgUGGGGgCUGCUGCAag -5'
3106 3' -59.9 NC_001493.1 + 5845 0.67 0.655269
Target:  5'- cGGGGGAgcuGCCACUCUCGAUG-CGg-- -3'
miRNA:   3'- uCCUCCU---CGGUGGGGGCUGCuGCaag -5'
3106 3' -59.9 NC_001493.1 + 6044 0.67 0.655269
Target:  5'- cGGGGGAgcuGCCACUCUCGAUG-CGg-- -3'
miRNA:   3'- uCCUCCU---CGGUGGGGGCUGCuGCaag -5'
3106 3' -59.9 NC_001493.1 + 88048 0.67 0.635251
Target:  5'- -cGAGGAGCCggaucuACCCCUGgaccugccccccGCGGCGUa- -3'
miRNA:   3'- ucCUCCUCGG------UGGGGGC------------UGCUGCAag -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.