miRNA display CGI


Results 1 - 20 of 25 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
22955 3' -60.6 NC_005137.2 + 33900 0.66 0.671713
Target:  5'- aCGGUGCGaCGCUAcaaccCGCaCGUugucgggUUGCCGGc -3'
miRNA:   3'- -GCCACGC-GCGGUc----GCG-GCA-------AACGGCU- -5'
22955 3' -60.6 NC_005137.2 + 70192 0.66 0.642738
Target:  5'- uCGGgGCGCaCCacguacgcGGUGCCGUgggaUUGCCGGc -3'
miRNA:   3'- -GCCaCGCGcGG--------UCGCGGCA----AACGGCU- -5'
22955 3' -60.6 NC_005137.2 + 11131 0.66 0.642738
Target:  5'- gCGGUuaGCGCCGaUGCCGaauUUUGCCu- -3'
miRNA:   3'- -GCCAcgCGCGGUcGCGGC---AAACGGcu -5'
22955 3' -60.6 NC_005137.2 + 19024 0.66 0.652747
Target:  5'- aGGUGCGCuUCAGCGuguucaCCGUUUcGCCc- -3'
miRNA:   3'- gCCACGCGcGGUCGC------GGCAAA-CGGcu -5'
22955 3' -60.6 NC_005137.2 + 91149 0.66 0.662739
Target:  5'- ---aGCGCGCCcGCGUCGUUgauguuuCCGAa -3'
miRNA:   3'- gccaCGCGCGGuCGCGGCAAac-----GGCU- -5'
22955 3' -60.6 NC_005137.2 + 99489 0.66 0.662739
Target:  5'- ---cGCGUaCCAcGCGCUGUUUGCCa- -3'
miRNA:   3'- gccaCGCGcGGU-CGCGGCAAACGGcu -5'
22955 3' -60.6 NC_005137.2 + 96781 0.66 0.672709
Target:  5'- ---gGUGCGUCAGCGCCGauugUGCUu- -3'
miRNA:   3'- gccaCGCGCGGUCGCGGCaa--ACGGcu -5'
22955 3' -60.6 NC_005137.2 + 96359 0.66 0.692544
Target:  5'- uGGUGCGUGCUuaCGCCGcgacgggGCCa- -3'
miRNA:   3'- gCCACGCGCGGucGCGGCaaa----CGGcu -5'
22955 3' -60.6 NC_005137.2 + 63011 0.66 0.682646
Target:  5'- uGGUGCgGCGCCGGCG-UGUcgGCa-- -3'
miRNA:   3'- gCCACG-CGCGGUCGCgGCAaaCGgcu -5'
22955 3' -60.6 NC_005137.2 + 13705 0.66 0.672709
Target:  5'- uGG-GCGCGaCC-GCGuuGUUgcuauuuuuUGCCGAc -3'
miRNA:   3'- gCCaCGCGC-GGuCGCggCAA---------ACGGCU- -5'
22955 3' -60.6 NC_005137.2 + 64708 0.66 0.672709
Target:  5'- gCGcGUGa-CGUCGGCGCCGUagGCCu- -3'
miRNA:   3'- -GC-CACgcGCGGUCGCGGCAaaCGGcu -5'
22955 3' -60.6 NC_005137.2 + 95486 0.66 0.652747
Target:  5'- uCGGaUGCGCGCCgcacgGGCGCaucgcugaCGUg-GCCGGu -3'
miRNA:   3'- -GCC-ACGCGCGG-----UCGCG--------GCAaaCGGCU- -5'
22955 3' -60.6 NC_005137.2 + 90716 0.67 0.626711
Target:  5'- uGGUGCGUGCCAGCaacgugaugauucacGUuaacaCGUUUGCgCGc -3'
miRNA:   3'- gCCACGCGCGGUCG---------------CG-----GCAAACG-GCu -5'
22955 3' -60.6 NC_005137.2 + 33134 0.68 0.571872
Target:  5'- -uGUGCGCGCacuugguCAGCGCCGggUGgCa- -3'
miRNA:   3'- gcCACGCGCG-------GUCGCGGCaaACgGcu -5'
22955 3' -60.6 NC_005137.2 + 78741 0.68 0.55316
Target:  5'- -aGUGCGCggucuGCCcgGGCGCCGUUUGUaaccaGAg -3'
miRNA:   3'- gcCACGCG-----CGG--UCGCGGCAAACGg----CU- -5'
22955 3' -60.6 NC_005137.2 + 67672 0.68 0.533667
Target:  5'- aGcGUGCGUuCCAGCGCgCGUgugUUGCCu- -3'
miRNA:   3'- gC-CACGCGcGGUCGCG-GCA---AACGGcu -5'
22955 3' -60.6 NC_005137.2 + 115415 0.68 0.562988
Target:  5'- aGGUcGCgGCGCCAGCGUCGccaugugUUcGUCGAc -3'
miRNA:   3'- gCCA-CG-CGCGGUCGCGGCa------AA-CGGCU- -5'
22955 3' -60.6 NC_005137.2 + 56552 0.69 0.514423
Target:  5'- aCGGUGCGCaaccaaGCCAauuuuuGCGCCGUUaUGggacCCGAc -3'
miRNA:   3'- -GCCACGCG------CGGU------CGCGGCAA-AC----GGCU- -5'
22955 3' -60.6 NC_005137.2 + 64308 0.69 0.495468
Target:  5'- gGGUGaCGCGCgCuGCGCCaaUUUGcCCGAg -3'
miRNA:   3'- gCCAC-GCGCG-GuCGCGGc-AAAC-GGCU- -5'
22955 3' -60.6 NC_005137.2 + 69169 0.7 0.431861
Target:  5'- cCGGaUGCGCGCCagaauGGCGUCGc-UGCCa- -3'
miRNA:   3'- -GCC-ACGCGCGG-----UCGCGGCaaACGGcu -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.