miRNA display CGI


Results 1 - 20 of 32 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
31820 5' -57.4 NC_006938.1 + 18889 1.1 0.000644
Target:  5'- uGGAGAACCUCUGCAAGGACCGGGCCAc -3'
miRNA:   3'- -CCUCUUGGAGACGUUCCUGGCCCGGU- -5'
31820 5' -57.4 NC_006938.1 + 21454 0.68 0.503607
Target:  5'- uGGAGAcggACCUCgGCGGGGACCacuGCUu -3'
miRNA:   3'- -CCUCU---UGGAGaCGUUCCUGGcc-CGGu -5'
31820 5' -57.4 NC_006938.1 + 28499 0.68 0.524116
Target:  5'- aGGAGcuCCUCcgugGCAAGcGCCGcucGGCCAa -3'
miRNA:   3'- -CCUCuuGGAGa---CGUUCcUGGC---CCGGU- -5'
31820 5' -57.4 NC_006938.1 + 34232 0.67 0.548084
Target:  5'- aGGAGAAguaccgcgugcucauCCUCgGCGAGGcggaggucaacgaGCCgcaGGGCCAg -3'
miRNA:   3'- -CCUCUU---------------GGAGaCGUUCC-------------UGG---CCCGGU- -5'
31820 5' -57.4 NC_006938.1 + 62635 0.67 0.566018
Target:  5'- cGGAGGACgUCaGCAuu-ACCGGGaCCAc -3'
miRNA:   3'- -CCUCUUGgAGaCGUuccUGGCCC-GGU- -5'
31820 5' -57.4 NC_006938.1 + 12213 0.67 0.586236
Target:  5'- -uGGAACCUgaGCAAGGGCUucauugaacucgaGGaGCCGa -3'
miRNA:   3'- ccUCUUGGAgaCGUUCCUGG-------------CC-CGGU- -5'
31820 5' -57.4 NC_006938.1 + 21750 0.66 0.65175
Target:  5'- -aAGAugCUCUGCGugcAGGGCCuGGaCCc -3'
miRNA:   3'- ccUCUugGAGACGU---UCCUGGcCC-GGu -5'
31820 5' -57.4 NC_006938.1 + 58462 0.66 0.65175
Target:  5'- cGGAG-ACCUUUGUc--GGCCuGGCCAg -3'
miRNA:   3'- -CCUCuUGGAGACGuucCUGGcCCGGU- -5'
31820 5' -57.4 NC_006938.1 + 40596 0.66 0.663557
Target:  5'- cGAGGACCUCaUGCGcuccccggagcuggcGGACCGGuGgCAg -3'
miRNA:   3'- cCUCUUGGAG-ACGUu--------------CCUGGCC-CgGU- -5'
31820 5' -57.4 NC_006938.1 + 51983 0.68 0.483453
Target:  5'- uGGAGGACCUC-GCAGaGACCGuGGaCGa -3'
miRNA:   3'- -CCUCUUGGAGaCGUUcCUGGC-CCgGU- -5'
31820 5' -57.4 NC_006938.1 + 29134 0.69 0.473522
Target:  5'- cGAGGACaucgaUCUGCAcaagaGGGGCCucGGCCGa -3'
miRNA:   3'- cCUCUUGg----AGACGU-----UCCUGGc-CCGGU- -5'
31820 5' -57.4 NC_006938.1 + 9383 0.78 0.130433
Target:  5'- cGAGAACCUCugggagaugaucaUGCGguccacguGGGACUGGGCCGa -3'
miRNA:   3'- cCUCUUGGAG-------------ACGU--------UCCUGGCCCGGU- -5'
31820 5' -57.4 NC_006938.1 + 17640 0.74 0.234146
Target:  5'- cGGAGccAACCUCgGCuacgaccuGGACUGGGCCu -3'
miRNA:   3'- -CCUC--UUGGAGaCGuu------CCUGGCCCGGu -5'
31820 5' -57.4 NC_006938.1 + 39908 0.74 0.240187
Target:  5'- cGGAGAcgcucGCUUCgGCucguGGGGCgGGGCCAc -3'
miRNA:   3'- -CCUCU-----UGGAGaCGu---UCCUGgCCCGGU- -5'
31820 5' -57.4 NC_006938.1 + 18254 0.72 0.300511
Target:  5'- cGAGGGCCaCUGCGAGGugaccgccgccCUGGGCCGc -3'
miRNA:   3'- cCUCUUGGaGACGUUCCu----------GGCCCGGU- -5'
31820 5' -57.4 NC_006938.1 + 61134 0.72 0.315412
Target:  5'- cGAGGACUUCaccUGgGAGGGCUGGGCg- -3'
miRNA:   3'- cCUCUUGGAG---ACgUUCCUGGCCCGgu -5'
31820 5' -57.4 NC_006938.1 + 6745 0.71 0.346865
Target:  5'- gGGAcGAGCuCUUUGCGAuGGGCCaGGGCUu -3'
miRNA:   3'- -CCU-CUUG-GAGACGUU-CCUGG-CCCGGu -5'
31820 5' -57.4 NC_006938.1 + 3889 0.69 0.444368
Target:  5'- -cAGGAgUUCUGgAAGGACCGGGgCu -3'
miRNA:   3'- ccUCUUgGAGACgUUCCUGGCCCgGu -5'
31820 5' -57.4 NC_006938.1 + 8792 0.69 0.463695
Target:  5'- gGGAGAGCUUCaGagaGGGGAU-GGGCCGu -3'
miRNA:   3'- -CCUCUUGGAGaCg--UUCCUGgCCCGGU- -5'
31820 5' -57.4 NC_006938.1 + 37146 0.78 0.12727
Target:  5'- -cGGGGCCUCUGgucccacggugaCAGGGGCCGGGUCAu -3'
miRNA:   3'- ccUCUUGGAGAC------------GUUCCUGGCCCGGU- -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.