miRNA display CGI


Results 21 - 38 of 38 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
31806 3' -55.3 NC_006938.1 + 30309 0.68 0.644194
Target:  5'- gGGACAgUCCCAUCA--UCGCcGGAGCu -3'
miRNA:   3'- -CCUGUaGGGGUGGUucAGCG-UCUCGu -5'
31806 3' -55.3 NC_006938.1 + 37297 0.68 0.633274
Target:  5'- cGGcCGUCCaCCACUggGgaccggucCGUGGAGCAu -3'
miRNA:   3'- -CCuGUAGG-GGUGGuuCa-------GCGUCUCGU- -5'
31806 3' -55.3 NC_006938.1 + 63483 0.68 0.633274
Target:  5'- -aACGUCCCCAUCGAGU---GGGGCGg -3'
miRNA:   3'- ccUGUAGGGGUGGUUCAgcgUCUCGU- -5'
31806 3' -55.3 NC_006938.1 + 53407 0.68 0.622353
Target:  5'- uGGACAgcagugCCCuCACCGAGaccgaccugCGCGGuGGCAa -3'
miRNA:   3'- -CCUGUa-----GGG-GUGGUUCa--------GCGUC-UCGU- -5'
31806 3' -55.3 NC_006938.1 + 56998 0.68 0.600546
Target:  5'- gGGACGUUCagCAUCGgcGGUCaGCAGGGCGc -3'
miRNA:   3'- -CCUGUAGGg-GUGGU--UCAG-CGUCUCGU- -5'
31806 3' -55.3 NC_006938.1 + 44109 0.69 0.594022
Target:  5'- --cCAUUCCCGCCgAGGccagaccgaugaacaUCGCGGAGCGg -3'
miRNA:   3'- ccuGUAGGGGUGG-UUC---------------AGCGUCUCGU- -5'
31806 3' -55.3 NC_006938.1 + 22269 0.69 0.589679
Target:  5'- aGGGCuUCgCCUGCCAGgccGUCGCcgGGAGCGc -3'
miRNA:   3'- -CCUGuAG-GGGUGGUU---CAGCG--UCUCGU- -5'
31806 3' -55.3 NC_006938.1 + 46304 0.69 0.568056
Target:  5'- aGGA---CCCCAcgaucgauCCAAGUgGCAGGGCGg -3'
miRNA:   3'- -CCUguaGGGGU--------GGUUCAgCGUCUCGU- -5'
31806 3' -55.3 NC_006938.1 + 10212 0.69 0.546639
Target:  5'- uGGACGUUCUCAC--AGUCGCccAGGGCu -3'
miRNA:   3'- -CCUGUAGGGGUGguUCAGCG--UCUCGu -5'
31806 3' -55.3 NC_006938.1 + 8078 0.69 0.536025
Target:  5'- cGGGCGggagCUggGCCGGGUCGCcGAGCAc -3'
miRNA:   3'- -CCUGUa---GGggUGGUUCAGCGuCUCGU- -5'
31806 3' -55.3 NC_006938.1 + 60129 0.7 0.525485
Target:  5'- uGugAUCUCCGCUAgacAGgugggCGCGGGGCAg -3'
miRNA:   3'- cCugUAGGGGUGGU---UCa----GCGUCUCGU- -5'
31806 3' -55.3 NC_006938.1 + 35489 0.7 0.525485
Target:  5'- cGGGCAUCCCUgggAUCuGGUCGuCAGucGGCAu -3'
miRNA:   3'- -CCUGUAGGGG---UGGuUCAGC-GUC--UCGU- -5'
31806 3' -55.3 NC_006938.1 + 41090 0.7 0.524435
Target:  5'- cGACAUCCCCcgaacucACCAGaUCGuCGGGGCc -3'
miRNA:   3'- cCUGUAGGGG-------UGGUUcAGC-GUCUCGu -5'
31806 3' -55.3 NC_006938.1 + 10646 0.7 0.494363
Target:  5'- -uACGUCCCCGCCGAGUaugUGaCGGAGg- -3'
miRNA:   3'- ccUGUAGGGGUGGUUCA---GC-GUCUCgu -5'
31806 3' -55.3 NC_006938.1 + 32820 0.7 0.49334
Target:  5'- cGACAaCCCCGCCAAGcuggccgcguggcUCG-AGGGCAg -3'
miRNA:   3'- cCUGUaGGGGUGGUUC-------------AGCgUCUCGU- -5'
31806 3' -55.3 NC_006938.1 + 22491 0.71 0.444487
Target:  5'- aGGGCcgUCUCGCUcuGGGUCGCGGGGUu -3'
miRNA:   3'- -CCUGuaGGGGUGG--UUCAGCGUCUCGu -5'
31806 3' -55.3 NC_006938.1 + 1618 0.73 0.328638
Target:  5'- aGGCAUCCuacuccuCCGCCAAGUCGguGaAGCc -3'
miRNA:   3'- cCUGUAGG-------GGUGGUUCAGCguC-UCGu -5'
31806 3' -55.3 NC_006938.1 + 12022 1.11 0.000908
Target:  5'- aGGACAUCCCCACCAAGUCGCAGAGCAc -3'
miRNA:   3'- -CCUGUAGGGGUGGUUCAGCGUCUCGU- -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.