miRNA display CGI


Results 1 - 20 of 22 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
3103 3' -60.1 NC_001493.1 + 106037 0.66 0.715584
Target:  5'- -cCCCCCGGGaccucgucUCCGUguaCcCGGUCGu- -3'
miRNA:   3'- auGGGGGCCC--------AGGCAa--GuGCCAGCua -5'
3103 3' -60.1 NC_001493.1 + 35508 0.66 0.715584
Target:  5'- -uUCCCCGGGacgaCGUcCACGGUCa-- -3'
miRNA:   3'- auGGGGGCCCag--GCAaGUGCCAGcua -5'
3103 3' -60.1 NC_001493.1 + 113444 0.66 0.694928
Target:  5'- gACCUugggaggggguugCCGGGUCCGUggCugGG-CGAc -3'
miRNA:   3'- aUGGG-------------GGCCCAGGCAa-GugCCaGCUa -5'
3103 3' -60.1 NC_001493.1 + 4567 0.66 0.676045
Target:  5'- cGCCCCCGGGUgugcccaaacCCGaaCACGGagaaGAg -3'
miRNA:   3'- aUGGGGGCCCA----------GGCaaGUGCCag--CUa -5'
3103 3' -60.1 NC_001493.1 + 120121 0.66 0.676045
Target:  5'- cGCCCCCGGGUgugcccaaacCCGaaCACGGagaaGAg -3'
miRNA:   3'- aUGGGGGCCCA----------GGCaaGUGCCag--CUa -5'
3103 3' -60.1 NC_001493.1 + 100200 0.67 0.645997
Target:  5'- aGCCCCUcgGGGUUCGguccCGCGGUCc-- -3'
miRNA:   3'- aUGGGGG--CCCAGGCaa--GUGCCAGcua -5'
3103 3' -60.1 NC_001493.1 + 91042 0.67 0.635949
Target:  5'- cACCCCCaGGGaCCGUugcuUCugGGauUCGGUc -3'
miRNA:   3'- aUGGGGG-CCCaGGCA----AGugCC--AGCUA- -5'
3103 3' -60.1 NC_001493.1 + 20521 0.67 0.632933
Target:  5'- gGCCCCCGGGcCuCGaUCAUGGgccgcauccuagccUCGAa -3'
miRNA:   3'- aUGGGGGCCCaG-GCaAGUGCC--------------AGCUa -5'
3103 3' -60.1 NC_001493.1 + 93500 0.67 0.624893
Target:  5'- aGCUCCCGGGUcgauacgagcgcaCCGguccgCGCGGUCa-- -3'
miRNA:   3'- aUGGGGGCCCA-------------GGCaa---GUGCCAGcua -5'
3103 3' -60.1 NC_001493.1 + 43638 0.67 0.615852
Target:  5'- cACgCCCUGGGUCCGUcUACGaGaUCGGc -3'
miRNA:   3'- aUG-GGGGCCCAGGCAaGUGC-C-AGCUa -5'
3103 3' -60.1 NC_001493.1 + 62818 0.67 0.615852
Target:  5'- cGCCCCCGuGGgcuucgCCGUcgcgacggUCACGGUgcCGGUc -3'
miRNA:   3'- aUGGGGGC-CCa-----GGCA--------AGUGCCA--GCUA- -5'
3103 3' -60.1 NC_001493.1 + 67354 0.68 0.565936
Target:  5'- aGCgCCCGG--CCGUUC-CGGUCGAg -3'
miRNA:   3'- aUGgGGGCCcaGGCAAGuGCCAGCUa -5'
3103 3' -60.1 NC_001493.1 + 41993 0.69 0.546239
Target:  5'- gGCUCCUGGGUCUGUUCgaaaucuccGCGGgUGAUc -3'
miRNA:   3'- aUGGGGGCCCAGGCAAG---------UGCCaGCUA- -5'
3103 3' -60.1 NC_001493.1 + 71699 0.69 0.498066
Target:  5'- aUACCaUCCGGGUCgCGaUCACGG-CGGUc -3'
miRNA:   3'- -AUGG-GGGCCCAG-GCaAGUGCCaGCUA- -5'
3103 3' -60.1 NC_001493.1 + 10616 0.7 0.479327
Target:  5'- gGCUcgaUCCGGGUCCuc-CGCGGUCGAg -3'
miRNA:   3'- aUGG---GGGCCCAGGcaaGUGCCAGCUa -5'
3103 3' -60.1 NC_001493.1 + 126170 0.7 0.479327
Target:  5'- gGCUcgaUCCGGGUCCuc-CGCGGUCGAg -3'
miRNA:   3'- aUGG---GGGCCCAGGcaaGUGCCAGCUa -5'
3103 3' -60.1 NC_001493.1 + 26229 0.72 0.351566
Target:  5'- gGCCgaaaCCCGGGcCCG-UCugGGUCGAc -3'
miRNA:   3'- aUGG----GGGCCCaGGCaAGugCCAGCUa -5'
3103 3' -60.1 NC_001493.1 + 103571 0.74 0.294002
Target:  5'- cAUgCCCGGGUCCGUggGgGGUCGGa -3'
miRNA:   3'- aUGgGGGCCCAGGCAagUgCCAGCUa -5'
3103 3' -60.1 NC_001493.1 + 128402 0.75 0.238336
Target:  5'- gACUCCCGGGUCgCGUcCGgGGUCGGg -3'
miRNA:   3'- aUGGGGGCCCAG-GCAaGUgCCAGCUa -5'
3103 3' -60.1 NC_001493.1 + 12848 0.75 0.238336
Target:  5'- gACUCCCGGGUCgCGUcCGgGGUCGGg -3'
miRNA:   3'- aUGGGGGCCCAG-GCAaGUgCCAGCUa -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.