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
8105 3' -56.7 NC_001978.2 + 32261 0.66 0.538826
Target:  5'- -cCGUGCGCCaucccucaGCggugcGCGCGUC-CGUCg -3'
miRNA:   3'- aaGCGCGUGG--------CGaa---CGUGCAGuGCAG- -5'
8105 3' -56.7 NC_001978.2 + 8793 0.66 0.538826
Target:  5'- gUCGCGaagcuccauGCCGC--GCACGUCcgaccACGUCa -3'
miRNA:   3'- aAGCGCg--------UGGCGaaCGUGCAG-----UGCAG- -5'
8105 3' -56.7 NC_001978.2 + 17527 0.66 0.527934
Target:  5'- -aCGCGCA-CGCUUGCGCagauaCACGcCg -3'
miRNA:   3'- aaGCGCGUgGCGAACGUGca---GUGCaG- -5'
8105 3' -56.7 NC_001978.2 + 14604 0.66 0.524682
Target:  5'- cUCGCGCuucgugaaGCCGUacaccugaaggugaUugUGCGCGUCcgGCGUCg -3'
miRNA:   3'- aAGCGCG--------UGGCG--------------A--ACGUGCAG--UGCAG- -5'
8105 3' -56.7 NC_001978.2 + 24637 0.66 0.517124
Target:  5'- -gCGCGCACCGUgaGCGgGU-GCGUa -3'
miRNA:   3'- aaGCGCGUGGCGaaCGUgCAgUGCAg -5'
8105 3' -56.7 NC_001978.2 + 16678 0.66 0.506405
Target:  5'- -gCGCGCuuGCCGCUaUGCggucaACG-CAUGUCg -3'
miRNA:   3'- aaGCGCG--UGGCGA-ACG-----UGCaGUGCAG- -5'
8105 3' -56.7 NC_001978.2 + 3643 0.66 0.506405
Target:  5'- -aCGCGCACCGCguaGCGCuUCugACGg- -3'
miRNA:   3'- aaGCGCGUGGCGaa-CGUGcAG--UGCag -5'
8105 3' -56.7 NC_001978.2 + 15931 0.66 0.495781
Target:  5'- --gGaCGCACCGC--GUugGUaCACGUCg -3'
miRNA:   3'- aagC-GCGUGGCGaaCGugCA-GUGCAG- -5'
8105 3' -56.7 NC_001978.2 + 33191 0.68 0.42456
Target:  5'- -aCGUGCcaaCGCUUGCccaggACGUCACGcCa -3'
miRNA:   3'- aaGCGCGug-GCGAACG-----UGCAGUGCaG- -5'
8105 3' -56.7 NC_001978.2 + 12056 0.68 0.414888
Target:  5'- -gCGCGCgGCgGCUuccgGCACGUCuucaagacnACGUCg -3'
miRNA:   3'- aaGCGCG-UGgCGAa---CGUGCAG---------UGCAG- -5'
8105 3' -56.7 NC_001978.2 + 20759 0.68 0.412013
Target:  5'- -cCGCGCguucgacgguccggACCGCaaagagucccUUGC-CGUCGCGUCc -3'
miRNA:   3'- aaGCGCG--------------UGGCG----------AACGuGCAGUGCAG- -5'
8105 3' -56.7 NC_001978.2 + 14396 0.68 0.405353
Target:  5'- -cCGCGCGCUGg--GCACGguUUACGUCc -3'
miRNA:   3'- aaGCGCGUGGCgaaCGUGC--AGUGCAG- -5'
8105 3' -56.7 NC_001978.2 + 40754 0.68 0.395025
Target:  5'- aUCGCuuggcucGCAUgGCUUGcCGCGUUcgGCGUCa -3'
miRNA:   3'- aAGCG-------CGUGgCGAAC-GUGCAG--UGCAG- -5'
8105 3' -56.7 NC_001978.2 + 4970 0.68 0.386703
Target:  5'- cUCGCGCGCCucaaaGUUgGCGCucagagugGUCGCGUCc -3'
miRNA:   3'- aAGCGCGUGG-----CGAaCGUG--------CAGUGCAG- -5'
8105 3' -56.7 NC_001978.2 + 26074 0.68 0.386703
Target:  5'- gUCGCGCACCGUaccgGCGcCGuUCAggUGUCg -3'
miRNA:   3'- aAGCGCGUGGCGaa--CGU-GC-AGU--GCAG- -5'
8105 3' -56.7 NC_001978.2 + 21567 0.69 0.359809
Target:  5'- --aGCGCACgGggUGCACGUCGgcggaGUCg -3'
miRNA:   3'- aagCGCGUGgCgaACGUGCAGUg----CAG- -5'
8105 3' -56.7 NC_001978.2 + 5294 0.69 0.359809
Target:  5'- --aGCGUuCCGCgaucaUGCGCGguggCGCGUCg -3'
miRNA:   3'- aagCGCGuGGCGa----ACGUGCa---GUGCAG- -5'
8105 3' -56.7 NC_001978.2 + 433 0.69 0.351139
Target:  5'- gUCGCGCACCcgauGCUUcGCuAUGUCGaGUCg -3'
miRNA:   3'- aAGCGCGUGG----CGAA-CG-UGCAGUgCAG- -5'
8105 3' -56.7 NC_001978.2 + 32193 0.7 0.317961
Target:  5'- -gCGCGCACCGCUgagGgAUGgcgCACGg- -3'
miRNA:   3'- aaGCGCGUGGCGAa--CgUGCa--GUGCag -5'
8105 3' -56.7 NC_001978.2 + 8672 0.71 0.265695
Target:  5'- -aCGCGUAauugCGUgcGCACGUCugGUCa -3'
miRNA:   3'- aaGCGCGUg---GCGaaCGUGCAGugCAG- -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.