miRNA display CGI


Results 1 - 20 of 40 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
24097 3' -61.2 NC_005262.1 + 21177 0.66 0.488513
Target:  5'- -aUCAugccGUUCGGCAG-CGAGauaaGGCCGg -3'
miRNA:   3'- gcAGUc---CGAGCCGUCaGCUCg---CCGGC- -5'
24097 3' -61.2 NC_005262.1 + 7524 0.66 0.478838
Target:  5'- uCGggCAGGUUCGGCGGcgCGucGGCGcGCuCGa -3'
miRNA:   3'- -GCa-GUCCGAGCCGUCa-GC--UCGC-CG-GC- -5'
24097 3' -61.2 NC_005262.1 + 2787 0.66 0.478838
Target:  5'- aCGUCucGGCgagCGGCuugaugacGGUCGGcaCGGCCGa -3'
miRNA:   3'- -GCAGu-CCGa--GCCG--------UCAGCUc-GCCGGC- -5'
24097 3' -61.2 NC_005262.1 + 19108 0.66 0.478838
Target:  5'- cCGUCAccaacGGCUUGucGCGGUCGGGCaGCa- -3'
miRNA:   3'- -GCAGU-----CCGAGC--CGUCAGCUCGcCGgc -5'
24097 3' -61.2 NC_005262.1 + 35595 0.66 0.466404
Target:  5'- uCGgcgCGGGCUCGGCacagauggcguugcAGUCGucCGGCa- -3'
miRNA:   3'- -GCa--GUCCGAGCCG--------------UCAGCucGCCGgc -5'
24097 3' -61.2 NC_005262.1 + 29739 0.66 0.459779
Target:  5'- aGUcCGGGUUCuGGUcGUCGAGCaacuGCCGa -3'
miRNA:   3'- gCA-GUCCGAG-CCGuCAGCUCGc---CGGC- -5'
24097 3' -61.2 NC_005262.1 + 63294 0.66 0.459779
Target:  5'- cCGgcugCuGGCUCGGC-GUCGAcguggaacacGCGcGCCGc -3'
miRNA:   3'- -GCa---GuCCGAGCCGuCAGCU----------CGC-CGGC- -5'
24097 3' -61.2 NC_005262.1 + 21335 0.66 0.450401
Target:  5'- aCGUcCAGGa--GGCGaUCGAgGCGGCCa -3'
miRNA:   3'- -GCA-GUCCgagCCGUcAGCU-CGCCGGc -5'
24097 3' -61.2 NC_005262.1 + 5294 0.66 0.449469
Target:  5'- gGUCGaucacgcGGUcgaGGCGGUCgGAGCuGGCCGg -3'
miRNA:   3'- gCAGU-------CCGag-CCGUCAG-CUCG-CCGGC- -5'
24097 3' -61.2 NC_005262.1 + 36448 0.66 0.441129
Target:  5'- gGUCGGGUUCucgGGCaucuugaugaGGUCGAGCagguGGUCGu -3'
miRNA:   3'- gCAGUCCGAG---CCG----------UCAGCUCG----CCGGC- -5'
24097 3' -61.2 NC_005262.1 + 37284 0.66 0.441129
Target:  5'- uGUCGGGCUCGGUcaUCcAGCGcuGCUGc -3'
miRNA:   3'- gCAGUCCGAGCCGucAGcUCGC--CGGC- -5'
24097 3' -61.2 NC_005262.1 + 17352 0.66 0.441129
Target:  5'- -uUCGGGUcCGGCg--CGGGCGGCgCGg -3'
miRNA:   3'- gcAGUCCGaGCCGucaGCUCGCCG-GC- -5'
24097 3' -61.2 NC_005262.1 + 13661 0.66 0.431967
Target:  5'- -cUCAGGCucgcuccacUCGGuCAG-CGAGCgcucGGCCGg -3'
miRNA:   3'- gcAGUCCG---------AGCC-GUCaGCUCG----CCGGC- -5'
24097 3' -61.2 NC_005262.1 + 6549 0.67 0.422917
Target:  5'- --aCGGGCuUCGGCGuGUugccgccgaCGAGCGGCgCGa -3'
miRNA:   3'- gcaGUCCG-AGCCGU-CA---------GCUCGCCG-GC- -5'
24097 3' -61.2 NC_005262.1 + 41556 0.67 0.422917
Target:  5'- gCG-CAGGC-CGGCcGgcgUGGGCGGCgCGg -3'
miRNA:   3'- -GCaGUCCGaGCCGuCa--GCUCGCCG-GC- -5'
24097 3' -61.2 NC_005262.1 + 14018 0.67 0.413981
Target:  5'- gCGUCcGGCgCGGCAGcggccggagccUCGGGCGcgggcgccGCCGg -3'
miRNA:   3'- -GCAGuCCGaGCCGUC-----------AGCUCGC--------CGGC- -5'
24097 3' -61.2 NC_005262.1 + 12254 0.67 0.405163
Target:  5'- gCGUCGauGGUcgGGCAccuGUCGAucGCGGCCGg -3'
miRNA:   3'- -GCAGU--CCGagCCGU---CAGCU--CGCCGGC- -5'
24097 3' -61.2 NC_005262.1 + 32710 0.67 0.402541
Target:  5'- uGUCGGGCcgCGGCucgcccuucaggucGG-CGAGCGcGUCGg -3'
miRNA:   3'- gCAGUCCGa-GCCG--------------UCaGCUCGC-CGGC- -5'
24097 3' -61.2 NC_005262.1 + 8886 0.67 0.396464
Target:  5'- gCGUCAGGUgCGaGCcGUCGAacuggcGCGGCgCGa -3'
miRNA:   3'- -GCAGUCCGaGC-CGuCAGCU------CGCCG-GC- -5'
24097 3' -61.2 NC_005262.1 + 45882 0.67 0.379431
Target:  5'- gCGUCGGcGCcgaUCGGCGGcucgccgaaaUCGGGCGGUg- -3'
miRNA:   3'- -GCAGUC-CG---AGCCGUC----------AGCUCGCCGgc -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.