miRNA display CGI


Results 1 - 20 of 23 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
31883 3' -55.6 NC_006938.1 + 3891 0.66 0.742878
Target:  5'- cCAUgAUGCgacGCGAGACCgcgugcCGGGCGa -3'
miRNA:   3'- -GUAgUGCGagcUGUUCUGGa-----GCCCGC- -5'
31883 3' -55.6 NC_006938.1 + 1558 0.66 0.732553
Target:  5'- uCGUCACGUaCGcCAAccACCUCGGcGCGg -3'
miRNA:   3'- -GUAGUGCGaGCuGUUc-UGGAGCC-CGC- -5'
31883 3' -55.6 NC_006938.1 + 55408 0.67 0.711622
Target:  5'- --gCGCGCUCGccGCAGGcgGCCU-GGGCu -3'
miRNA:   3'- guaGUGCGAGC--UGUUC--UGGAgCCCGc -5'
31883 3' -55.6 NC_006938.1 + 42289 0.67 0.690389
Target:  5'- aGUgGgGCUCGACGcGGACCgaaccaGGGCa -3'
miRNA:   3'- gUAgUgCGAGCUGU-UCUGGag----CCCGc -5'
31883 3' -55.6 NC_006938.1 + 56426 0.67 0.668938
Target:  5'- --gCGCaGUUCGAC--GACCUUGGGCu -3'
miRNA:   3'- guaGUG-CGAGCUGuuCUGGAGCCCGc -5'
31883 3' -55.6 NC_006938.1 + 46133 0.67 0.662474
Target:  5'- aCAUCACGCUgaucauguuugucaaCgGACGGGACUUCGGcucGCa -3'
miRNA:   3'- -GUAGUGCGA---------------G-CUGUUCUGGAGCC---CGc -5'
31883 3' -55.6 NC_006938.1 + 18505 0.67 0.658158
Target:  5'- gCAUCuaccggcCGgaCGACGGuGGCCUCuGGGCGg -3'
miRNA:   3'- -GUAGu------GCgaGCUGUU-CUGGAG-CCCGC- -5'
31883 3' -55.6 NC_006938.1 + 28871 0.68 0.651678
Target:  5'- gCAUCACGgUcucugggucgaggucCGGCAcGAgCUCGGGCa -3'
miRNA:   3'- -GUAGUGCgA---------------GCUGUuCUgGAGCCCGc -5'
31883 3' -55.6 NC_006938.1 + 24109 0.68 0.647354
Target:  5'- -cUC-CGCUCgGACGAGAuCCUcuacgaccgcacCGGGCGa -3'
miRNA:   3'- guAGuGCGAG-CUGUUCU-GGA------------GCCCGC- -5'
31883 3' -55.6 NC_006938.1 + 4395 0.68 0.633291
Target:  5'- -uUCACGCgCGACAucGACCUgcucaccgcugcccUGGGCa -3'
miRNA:   3'- guAGUGCGaGCUGUu-CUGGA--------------GCCCGc -5'
31883 3' -55.6 NC_006938.1 + 50114 0.69 0.593322
Target:  5'- -cUCGCGUUCcagaGGCGGGGCCacccacaCGGGCGa -3'
miRNA:   3'- guAGUGCGAG----CUGUUCUGGa------GCCCGC- -5'
31883 3' -55.6 NC_006938.1 + 12886 0.69 0.582575
Target:  5'- ---gGCGCUCGcCGGGGCCUCucccgccuccuuGGGCu -3'
miRNA:   3'- guagUGCGAGCuGUUCUGGAG------------CCCGc -5'
31883 3' -55.6 NC_006938.1 + 25430 0.69 0.561211
Target:  5'- gCGUCACGCgcagaccCGGCucGGACCagucgaccguUCGGGCa -3'
miRNA:   3'- -GUAGUGCGa------GCUGu-UCUGG----------AGCCCGc -5'
31883 3' -55.6 NC_006938.1 + 20175 0.7 0.529593
Target:  5'- gAUCAUGUUCGACGAGGCCggugucGCGa -3'
miRNA:   3'- gUAGUGCGAGCUGUUCUGGagcc--CGC- -5'
31883 3' -55.6 NC_006938.1 + 57699 0.7 0.498653
Target:  5'- aGUCACGCUUGACAAcggcacGACCUuccUGGuGCa -3'
miRNA:   3'- gUAGUGCGAGCUGUU------CUGGA---GCC-CGc -5'
31883 3' -55.6 NC_006938.1 + 58570 0.7 0.488518
Target:  5'- gCAUCggugggGCGCUCGugGAuGGCCU-GGGCa -3'
miRNA:   3'- -GUAG------UGCGAGCugUU-CUGGAgCCCGc -5'
31883 3' -55.6 NC_006938.1 + 26487 0.71 0.47848
Target:  5'- ---uGCGCaCGugGAuGAUCUCGGGCGg -3'
miRNA:   3'- guagUGCGaGCugUU-CUGGAGCCCGC- -5'
31883 3' -55.6 NC_006938.1 + 13874 0.71 0.458717
Target:  5'- uCAUgAUGCUCGACGAcGACCUCGaGUu -3'
miRNA:   3'- -GUAgUGCGAGCUGUU-CUGGAGCcCGc -5'
31883 3' -55.6 NC_006938.1 + 48178 0.72 0.411312
Target:  5'- ---gACGCUCGGCAAGcCCaaucccaCGGGCGa -3'
miRNA:   3'- guagUGCGAGCUGUUCuGGa------GCCCGC- -5'
31883 3' -55.6 NC_006938.1 + 25750 0.73 0.364516
Target:  5'- uGUCuCGCUCGGCGuGACCcacgccggaacgggUCGGGCa -3'
miRNA:   3'- gUAGuGCGAGCUGUuCUGG--------------AGCCCGc -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.