miRNA display CGI


Results 1 - 20 of 21 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
12523 3' -52.5 NC_003345.1 + 987 0.66 0.93823
Target:  5'- -gUACgGAACCGGGGAUUAacCGCCu--- -3'
miRNA:   3'- cgAUG-CUUGGCCUCUGAU--GCGGcauc -5'
12523 3' -52.5 NC_003345.1 + 27172 0.66 0.933028
Target:  5'- cGgUGCGAaguaGCCGGAGuGCU-UGCCGUc- -3'
miRNA:   3'- -CgAUGCU----UGGCCUC-UGAuGCGGCAuc -5'
12523 3' -52.5 NC_003345.1 + 57122 0.66 0.932493
Target:  5'- --aGCGAgaagaauACCGGAG-CUGacCGUCGUAGa -3'
miRNA:   3'- cgaUGCU-------UGGCCUCuGAU--GCGGCAUC- -5'
12523 3' -52.5 NC_003345.1 + 24377 0.66 0.927558
Target:  5'- -gUACGAACCGuuGGCUACGUCc--- -3'
miRNA:   3'- cgAUGCUUGGCcuCUGAUGCGGcauc -5'
12523 3' -52.5 NC_003345.1 + 6903 0.66 0.915813
Target:  5'- uGCUgaGCGAuuacACCGGAgGACU-CGCUgGUAGc -3'
miRNA:   3'- -CGA--UGCU----UGGCCU-CUGAuGCGG-CAUC- -5'
12523 3' -52.5 NC_003345.1 + 49757 0.66 0.915813
Target:  5'- -gUACGAAUUGGAGACggcuaaaGCCGa-- -3'
miRNA:   3'- cgAUGCUUGGCCUCUGaug----CGGCauc -5'
12523 3' -52.5 NC_003345.1 + 4147 0.68 0.874272
Target:  5'- -gUGgGAcACCGGAGACUGCcucUCGUGGa -3'
miRNA:   3'- cgAUgCU-UGGCCUCUGAUGc--GGCAUC- -5'
12523 3' -52.5 NC_003345.1 + 29947 0.68 0.874272
Target:  5'- aGCUACGGACuCGGAacaauCUACGaCGUAc -3'
miRNA:   3'- -CGAUGCUUG-GCCUcu---GAUGCgGCAUc -5'
12523 3' -52.5 NC_003345.1 + 51628 0.68 0.850158
Target:  5'- cGCUucgaccgaACGAugGCCGGAGAaaGCGUCGUc- -3'
miRNA:   3'- -CGA--------UGCU--UGGCCUCUgaUGCGGCAuc -5'
12523 3' -52.5 NC_003345.1 + 20326 0.68 0.850158
Target:  5'- aGCgGCGGccccACCGGAGGgaGCGUCGUc- -3'
miRNA:   3'- -CGaUGCU----UGGCCUCUgaUGCGGCAuc -5'
12523 3' -52.5 NC_003345.1 + 20986 0.68 0.83296
Target:  5'- aGCUACG-GCauaGGuauUUGCGCCGUAGg -3'
miRNA:   3'- -CGAUGCuUGg--CCucuGAUGCGGCAUC- -5'
12523 3' -52.5 NC_003345.1 + 59028 0.69 0.805651
Target:  5'- aGCUACGAcgCGaGGGACagcaAUGCCGUGGu -3'
miRNA:   3'- -CGAUGCUugGC-CUCUGa---UGCGGCAUC- -5'
12523 3' -52.5 NC_003345.1 + 29542 0.69 0.802829
Target:  5'- --aACGAcgACCGGguucccgauagcgaAGACUACGCCGa-- -3'
miRNA:   3'- cgaUGCU--UGGCC--------------UCUGAUGCGGCauc -5'
12523 3' -52.5 NC_003345.1 + 42648 0.71 0.726885
Target:  5'- cCUGCGggUCGGGGACguuccucguggaaGCCGUAa -3'
miRNA:   3'- cGAUGCuuGGCCUCUGaug----------CGGCAUc -5'
12523 3' -52.5 NC_003345.1 + 46995 0.73 0.564689
Target:  5'- -gUACGAcCCGGAGACUGacuacgaggaGCCGUAc -3'
miRNA:   3'- cgAUGCUuGGCCUCUGAUg---------CGGCAUc -5'
12523 3' -52.5 NC_003345.1 + 218 0.74 0.543465
Target:  5'- aGCUACGAACaggcaGGcAGGCaggUACGCgCGUAGg -3'
miRNA:   3'- -CGAUGCUUGg----CC-UCUG---AUGCG-GCAUC- -5'
12523 3' -52.5 NC_003345.1 + 77505 0.74 0.543465
Target:  5'- aGCUACGAACaggcaGGcAGGCaggUACGCgCGUAGg -3'
miRNA:   3'- -CGAUGCUUGg----CC-UCUG---AUGCG-GCAUC- -5'
12523 3' -52.5 NC_003345.1 + 29096 0.74 0.522509
Target:  5'- --aGCGGGCCGGuGuCUAUGUCGUAGu -3'
miRNA:   3'- cgaUGCUUGGCCuCuGAUGCGGCAUC- -5'
12523 3' -52.5 NC_003345.1 + 23726 0.74 0.512148
Target:  5'- aGCUcugACGAcGCCGGAGACgAUGCCGa-- -3'
miRNA:   3'- -CGA---UGCU-UGGCCUCUGaUGCGGCauc -5'
12523 3' -52.5 NC_003345.1 + 51334 0.79 0.298005
Target:  5'- uCUcCGGGCCGGAGGCUccaGCGCCGgUAGa -3'
miRNA:   3'- cGAuGCUUGGCCUCUGA---UGCGGC-AUC- -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.