miRNA display CGI


Results 1 - 20 of 52 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
23423 3' -60.7 NC_005259.1 + 944 0.66 0.515237
Target:  5'- -aGCGGaaaaguCGGGCAgCUcgCGCaACGGCu -3'
miRNA:   3'- cgCGCC------GCCCGUaGGuaGCGcUGCCG- -5'
23423 3' -60.7 NC_005259.1 + 2038 0.68 0.386352
Target:  5'- aGUGCGGUGGGCGgucaCCGgcacCGagacACGGCg -3'
miRNA:   3'- -CGCGCCGCCCGUa---GGUa---GCgc--UGCCG- -5'
23423 3' -60.7 NC_005259.1 + 3100 0.78 0.096084
Target:  5'- aGCGaUGaGCGGGCggCCAUUGCG-CGGCa -3'
miRNA:   3'- -CGC-GC-CGCCCGuaGGUAGCGCuGCCG- -5'
23423 3' -60.7 NC_005259.1 + 4450 0.67 0.467854
Target:  5'- cGUGCGaGUGGGCAgcguaugggccaaggCCAUCG--GCGGUg -3'
miRNA:   3'- -CGCGC-CGCCCGUa--------------GGUAGCgcUGCCG- -5'
23423 3' -60.7 NC_005259.1 + 5721 0.68 0.412186
Target:  5'- aGCGCcggacGGCGGcCAUUC-UCGCGgccaaGCGGCg -3'
miRNA:   3'- -CGCG-----CCGCCcGUAGGuAGCGC-----UGCCG- -5'
23423 3' -60.7 NC_005259.1 + 8959 0.68 0.404324
Target:  5'- cCGUGGaCGGGCAccgugCCGggacguaggugccagCgGCGACGGCa -3'
miRNA:   3'- cGCGCC-GCCCGUa----GGUa--------------G-CGCUGCCG- -5'
23423 3' -60.7 NC_005259.1 + 9126 0.68 0.421032
Target:  5'- cGCGCcccGGUacGGGCAgCCGUgcucgugccCGuCGACGGCa -3'
miRNA:   3'- -CGCG---CCG--CCCGUaGGUA---------GC-GCUGCCG- -5'
23423 3' -60.7 NC_005259.1 + 13220 0.7 0.308276
Target:  5'- -aGCGGUGGGCcucgaccggCCAcCGUGAgGGCc -3'
miRNA:   3'- cgCGCCGCCCGua-------GGUaGCGCUgCCG- -5'
23423 3' -60.7 NC_005259.1 + 14567 0.66 0.545188
Target:  5'- aGCGgGGaCcGGCGaacaCCAUCGCGcUGGCc -3'
miRNA:   3'- -CGCgCC-GcCCGUa---GGUAGCGCuGCCG- -5'
23423 3' -60.7 NC_005259.1 + 15588 0.66 0.495643
Target:  5'- aGCGCGaCGGGCcgCaugaGCuACGGCa -3'
miRNA:   3'- -CGCGCcGCCCGuaGguagCGcUGCCG- -5'
23423 3' -60.7 NC_005259.1 + 17538 0.66 0.505399
Target:  5'- aGCGaCGGCGGGCAUuucuacuucaCCGUgCcCGACGa- -3'
miRNA:   3'- -CGC-GCCGCCCGUA----------GGUA-GcGCUGCcg -5'
23423 3' -60.7 NC_005259.1 + 18780 0.66 0.505399
Target:  5'- uCGCGGUGGGCAa-----GCGGUGGCa -3'
miRNA:   3'- cGCGCCGCCCGUagguagCGCUGCCG- -5'
23423 3' -60.7 NC_005259.1 + 20348 0.73 0.204228
Target:  5'- gGCG-GGCGGuacuacGCGUCCAccucgUGCGACGGUg -3'
miRNA:   3'- -CGCgCCGCC------CGUAGGUa----GCGCUGCCG- -5'
23423 3' -60.7 NC_005259.1 + 23288 0.71 0.261161
Target:  5'- gGCGCGGUgguuGGGUaucgggGUCCggCGCGGuCGGUg -3'
miRNA:   3'- -CGCGCCG----CCCG------UAGGuaGCGCU-GCCG- -5'
23423 3' -60.7 NC_005259.1 + 23595 0.77 0.112722
Target:  5'- aGCGUGGCacGGCAguucCCcgCGUGGCGGCa -3'
miRNA:   3'- -CGCGCCGc-CCGUa---GGuaGCGCUGCCG- -5'
23423 3' -60.7 NC_005259.1 + 25500 0.67 0.439062
Target:  5'- cGCGCGuGaGGGCAaaaaggcccUCgaccguggCAUCGCGugGGUg -3'
miRNA:   3'- -CGCGC-CgCCCGU---------AG--------GUAGCGCugCCG- -5'
23423 3' -60.7 NC_005259.1 + 26412 0.71 0.281265
Target:  5'- gGCGCGGCGGuGCcgCCGUagaacgcaccgccgaGCgGGCGGg -3'
miRNA:   3'- -CGCGCCGCC-CGuaGGUAg--------------CG-CUGCCg -5'
23423 3' -60.7 NC_005259.1 + 27392 0.68 0.394844
Target:  5'- -gGCGGC-GGUGUCgGcaGCGGCGGCa -3'
miRNA:   3'- cgCGCCGcCCGUAGgUagCGCUGCCG- -5'
23423 3' -60.7 NC_005259.1 + 29129 0.66 0.505399
Target:  5'- aGCGCGGC-GGUAUUCGccUCGCucaccgcgcuCGGCu -3'
miRNA:   3'- -CGCGCCGcCCGUAGGU--AGCGcu--------GCCG- -5'
23423 3' -60.7 NC_005259.1 + 29964 0.66 0.505399
Target:  5'- gGUGgGGCGGGCGgugaCCGUccaacggacccCGC-ACGGUg -3'
miRNA:   3'- -CGCgCCGCCCGUa---GGUA-----------GCGcUGCCG- -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.