miRNA display CGI


Results 21 - 40 of 60 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
23337 5' -65.6 NC_005259.1 + 17372 0.67 0.28456
Target:  5'- gGCGCuGgUCGuGGUCGAcugcgacacuGCCGCCCa- -3'
miRNA:   3'- gCGCG-CgGGCuCCAGCU----------CGGCGGGca -5'
23337 5' -65.6 NC_005259.1 + 64113 0.67 0.280001
Target:  5'- cCGCGCGCuuGAucaaugccgccugacCGAGCgGCCCGUc -3'
miRNA:   3'- -GCGCGCGggCUcca------------GCUCGgCGGGCA- -5'
23337 5' -65.6 NC_005259.1 + 2152 0.67 0.27169
Target:  5'- gGUGCugGCCagCGGcGUCGAGCCGCCgGUu -3'
miRNA:   3'- gCGCG--CGG--GCUcCAGCUCGGCGGgCA- -5'
23337 5' -65.6 NC_005259.1 + 53226 0.67 0.265433
Target:  5'- cCGCGCccuGCuuGAGGuUCGcGCCGCCg-- -3'
miRNA:   3'- -GCGCG---CGggCUCC-AGCuCGGCGGgca -5'
23337 5' -65.6 NC_005259.1 + 36435 0.67 0.265433
Target:  5'- gCGCaGCGUcgCCGAGGUCGA-CCGCgUCGa -3'
miRNA:   3'- -GCG-CGCG--GGCUCCAGCUcGGCG-GGCa -5'
23337 5' -65.6 NC_005259.1 + 37552 0.67 0.259292
Target:  5'- uGCGUgugguGUCCGAuGUCGAcugcucGCCGCCCGc -3'
miRNA:   3'- gCGCG-----CGGGCUcCAGCU------CGGCGGGCa -5'
23337 5' -65.6 NC_005259.1 + 34887 0.67 0.259292
Target:  5'- gGgGUGCCuCGggcAGGaCGGGCCGCUCGg -3'
miRNA:   3'- gCgCGCGG-GC---UCCaGCUCGGCGGGCa -5'
23337 5' -65.6 NC_005259.1 + 22621 0.67 0.257473
Target:  5'- cCGC-CGCCCGaucaucuucgccgcGucGGUCGAcGCCGCCCa- -3'
miRNA:   3'- -GCGcGCGGGC--------------U--CCAGCU-CGGCGGGca -5'
23337 5' -65.6 NC_005259.1 + 25091 0.67 0.255664
Target:  5'- cCGCuGCGCCCGccccgagcaagggcaAGGUCGAccccGCCGaccucCCCGa -3'
miRNA:   3'- -GCG-CGCGGGC---------------UCCAGCU----CGGC-----GGGCa -5'
23337 5' -65.6 NC_005259.1 + 28955 0.67 0.253268
Target:  5'- uGCGcCGCaucgCCGAGGUCGGuGCCgaggccgcgagcGCCCGc -3'
miRNA:   3'- gCGC-GCG----GGCUCCAGCU-CGG------------CGGGCa -5'
23337 5' -65.6 NC_005259.1 + 62822 0.67 0.24736
Target:  5'- aGCGCcgcuuGCCCgcGAGGUCGAG-CGCgCGg -3'
miRNA:   3'- gCGCG-----CGGG--CUCCAGCUCgGCGgGCa -5'
23337 5' -65.6 NC_005259.1 + 53155 0.67 0.24736
Target:  5'- aGC-CGCuacgCCGAGGcCGAucucgccaccGCCGCCCGUc -3'
miRNA:   3'- gCGcGCG----GGCUCCaGCU----------CGGCGGGCA- -5'
23337 5' -65.6 NC_005259.1 + 49074 0.67 0.24736
Target:  5'- gGCGCaagggaucGCUCGAGGgugucauGGCCGCCCGc -3'
miRNA:   3'- gCGCG--------CGGGCUCCagc----UCGGCGGGCa -5'
23337 5' -65.6 NC_005259.1 + 33109 0.67 0.24736
Target:  5'- aGCGUGCCUGuAGGgccacgCGgcAGCCGCCgCGc -3'
miRNA:   3'- gCGCGCGGGC-UCCa-----GC--UCGGCGG-GCa -5'
23337 5' -65.6 NC_005259.1 + 6204 0.68 0.241566
Target:  5'- aGCGUGagCGGGGU-GAGCCGCCgCGc -3'
miRNA:   3'- gCGCGCggGCUCCAgCUCGGCGG-GCa -5'
23337 5' -65.6 NC_005259.1 + 14858 0.68 0.241566
Target:  5'- uCGUGCuCgCGAGGuUCGcGCUGCCCGa -3'
miRNA:   3'- -GCGCGcGgGCUCC-AGCuCGGCGGGCa -5'
23337 5' -65.6 NC_005259.1 + 22982 0.68 0.235886
Target:  5'- -uCGUGCCCGGuGUCGAcGCCGCCg-- -3'
miRNA:   3'- gcGCGCGGGCUcCAGCU-CGGCGGgca -5'
23337 5' -65.6 NC_005259.1 + 33590 0.68 0.230318
Target:  5'- uCGCGgGCCacCGAggcgcGGUCGAGCUGCaaCCGg -3'
miRNA:   3'- -GCGCgCGG--GCU-----CCAGCUCGGCG--GGCa -5'
23337 5' -65.6 NC_005259.1 + 31411 0.68 0.230318
Target:  5'- aGCGC-CCCGAGGUC--GCCGCUg-- -3'
miRNA:   3'- gCGCGcGGGCUCCAGcuCGGCGGgca -5'
23337 5' -65.6 NC_005259.1 + 64018 0.68 0.219516
Target:  5'- -cCGCGCCCGAGGcgcggCGAGgCCGgugaCCGg -3'
miRNA:   3'- gcGCGCGGGCUCCa----GCUC-GGCg---GGCa -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.