miRNA display CGI


Results 1 - 20 of 72 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
23946 3' -56.2 NC_005262.1 + 27054 0.66 0.721042
Target:  5'- aUCGucGUGCGCA-GAAcugcgcccGCGGCGCCAg -3'
miRNA:   3'- gAGC--UACGCGUgCUUca------CGCCGUGGU- -5'
23946 3' -56.2 NC_005262.1 + 56095 0.66 0.721042
Target:  5'- --aGAUGCaGCuCGAGGagGCGGCGCa- -3'
miRNA:   3'- gagCUACG-CGuGCUUCa-CGCCGUGgu -5'
23946 3' -56.2 NC_005262.1 + 63592 0.66 0.721042
Target:  5'- gCUCG-UGCGCGCGc--UGCGGaucguCACCGg -3'
miRNA:   3'- -GAGCuACGCGUGCuucACGCC-----GUGGU- -5'
23946 3' -56.2 NC_005262.1 + 44708 0.66 0.721042
Target:  5'- aUCGccGCGCGCGAGGaaaUGCaGCucgGCCGc -3'
miRNA:   3'- gAGCuaCGCGUGCUUC---ACGcCG---UGGU- -5'
23946 3' -56.2 NC_005262.1 + 13146 0.66 0.721042
Target:  5'- -cCGccGCGCGCGcuGcGCGGCACa- -3'
miRNA:   3'- gaGCuaCGCGUGCuuCaCGCCGUGgu -5'
23946 3' -56.2 NC_005262.1 + 27930 0.66 0.714712
Target:  5'- --aGGUGCGCGCGucgcgcGcacaaacaucugggcGGUcGCGGCGCCGa -3'
miRNA:   3'- gagCUACGCGUGC------U---------------UCA-CGCCGUGGU- -5'
23946 3' -56.2 NC_005262.1 + 30722 0.66 0.714712
Target:  5'- -cCGAaGCGCACGAGGagaagcugaugaagaUGuCGGcCGCCGa -3'
miRNA:   3'- gaGCUaCGCGUGCUUC---------------AC-GCC-GUGGU- -5'
23946 3' -56.2 NC_005262.1 + 61638 0.66 0.710475
Target:  5'- gCUCGAggGCGaggAgGAAGUGCuGUACCGc -3'
miRNA:   3'- -GAGCUa-CGCg--UgCUUCACGcCGUGGU- -5'
23946 3' -56.2 NC_005262.1 + 1445 0.66 0.710475
Target:  5'- uUCGAcgGUGUAgGGcugcauGGUGCGGCACa- -3'
miRNA:   3'- gAGCUa-CGCGUgCU------UCACGCCGUGgu -5'
23946 3' -56.2 NC_005262.1 + 42300 0.66 0.709414
Target:  5'- gCUCGGUGCGCcacugguacgcAUGGccgaugccccagcAGUaGCGGCACgCAa -3'
miRNA:   3'- -GAGCUACGCG-----------UGCU-------------UCA-CGCCGUG-GU- -5'
23946 3' -56.2 NC_005262.1 + 4551 0.66 0.709414
Target:  5'- aUCGugcGCGCGCGGcgcaucucgcgccAGcgGCGGCGCUg -3'
miRNA:   3'- gAGCua-CGCGUGCU-------------UCa-CGCCGUGGu -5'
23946 3' -56.2 NC_005262.1 + 13234 0.66 0.704098
Target:  5'- gCUCGGgcUGCGguUGAacgGGUGCGcgagccugcucaucaGCACCAg -3'
miRNA:   3'- -GAGCU--ACGCguGCU---UCACGC---------------CGUGGU- -5'
23946 3' -56.2 NC_005262.1 + 11372 0.66 0.699833
Target:  5'- -aCGAUgaaGCGCACGAcGUucgcgcGCGGCuCCAc -3'
miRNA:   3'- gaGCUA---CGCGUGCUuCA------CGCCGuGGU- -5'
23946 3' -56.2 NC_005262.1 + 60624 0.66 0.699833
Target:  5'- -aCGccAUGCGCACGcuggcGAGcgGCGaGCACCGc -3'
miRNA:   3'- gaGC--UACGCGUGC-----UUCa-CGC-CGUGGU- -5'
23946 3' -56.2 NC_005262.1 + 62028 0.66 0.693416
Target:  5'- aUCGccGCGCGCGAuccuccuccucgaUGCGGCGCa- -3'
miRNA:   3'- gAGCuaCGCGUGCUuc-----------ACGCCGUGgu -5'
23946 3' -56.2 NC_005262.1 + 33136 0.66 0.689127
Target:  5'- aUCGAaugcauucUGCGU-CGuAAGgGCGGCACCGu -3'
miRNA:   3'- gAGCU--------ACGCGuGC-UUCaCGCCGUGGU- -5'
23946 3' -56.2 NC_005262.1 + 14043 0.66 0.678367
Target:  5'- cCUCGGgcgcggGCGCcgccgGCGucGGUGCGGCuucgGCCGc -3'
miRNA:   3'- -GAGCUa-----CGCG-----UGCu-UCACGCCG----UGGU- -5'
23946 3' -56.2 NC_005262.1 + 21235 0.66 0.678367
Target:  5'- gUCGAccUGaacgGCACGAAG-GCGGCGauCCGa -3'
miRNA:   3'- gAGCU--ACg---CGUGCUUCaCGCCGU--GGU- -5'
23946 3' -56.2 NC_005262.1 + 57544 0.66 0.67621
Target:  5'- aUCGAggcggcaaagaccgUGCGCGCGgcGggcuucagcaucucgGCGGgCACCAa -3'
miRNA:   3'- gAGCU--------------ACGCGUGCuuCa--------------CGCC-GUGGU- -5'
23946 3' -56.2 NC_005262.1 + 6096 0.66 0.667565
Target:  5'- uCUCGGUGaucCGCACGuugcGGaacgGCGGCACa- -3'
miRNA:   3'- -GAGCUAC---GCGUGCu---UCa---CGCCGUGgu -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.