miRNA display CGI


Results 1 - 20 of 20 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
28422 3' -56.4 NC_005946.1 + 21011 0.66 0.817688
Target:  5'- gUUCCCGCAAgguGGAGGAgCAGUg---- -3'
miRNA:   3'- aGAGGGCGUU---UCUCCUgGUCGgacag -5'
28422 3' -56.4 NC_005946.1 + 55935 0.66 0.817688
Target:  5'- aCUCCCcugaggagaGUGAGGuGGgccACCAGCCUGg- -3'
miRNA:   3'- aGAGGG---------CGUUUCuCC---UGGUCGGACag -5'
28422 3' -56.4 NC_005946.1 + 49410 0.66 0.79955
Target:  5'- -gUCCuCGUAGacgGGAGGACC-GCC-GUCg -3'
miRNA:   3'- agAGG-GCGUU---UCUCCUGGuCGGaCAG- -5'
28422 3' -56.4 NC_005946.1 + 25831 0.67 0.771161
Target:  5'- --cCCCGUGAGGAGGAggCAGCCcagaguUGUCc -3'
miRNA:   3'- agaGGGCGUUUCUCCUg-GUCGG------ACAG- -5'
28422 3' -56.4 NC_005946.1 + 101200 0.67 0.741587
Target:  5'- ---aCUGCuacAAGAGGG-CGGCCUGUCa -3'
miRNA:   3'- agagGGCGu--UUCUCCUgGUCGGACAG- -5'
28422 3' -56.4 NC_005946.1 + 26825 0.67 0.731513
Target:  5'- cCUgCCCGCcGGGuggauggacAGGACCAuggccucccuguGCCUGUCu -3'
miRNA:   3'- aGA-GGGCGuUUC---------UCCUGGU------------CGGACAG- -5'
28422 3' -56.4 NC_005946.1 + 90577 0.67 0.731513
Target:  5'- --aCCUGCAuGGGGGACUGGCCcacaccacGUCg -3'
miRNA:   3'- agaGGGCGUuUCUCCUGGUCGGa-------CAG- -5'
28422 3' -56.4 NC_005946.1 + 86257 0.68 0.711101
Target:  5'- aUCUCCCGCAucGAGGAaccCCAGggagcucaccaUCUG-Ca -3'
miRNA:   3'- -AGAGGGCGUuuCUCCU---GGUC-----------GGACaG- -5'
28422 3' -56.4 NC_005946.1 + 68131 0.68 0.700782
Target:  5'- --cCCCaaaugcCGAAGAGGACCAGCUuaugGUCc -3'
miRNA:   3'- agaGGGc-----GUUUCUCCUGGUCGGa---CAG- -5'
28422 3' -56.4 NC_005946.1 + 60351 0.68 0.696637
Target:  5'- aCUCCCGCucccacaGAAGAccacuuuaccgccuGGACC-GCCgUGUCg -3'
miRNA:   3'- aGAGGGCG-------UUUCU--------------CCUGGuCGG-ACAG- -5'
28422 3' -56.4 NC_005946.1 + 99252 0.68 0.658994
Target:  5'- gCUCCUGuCAAAGAgaucGGcCCAGCUccUGUCg -3'
miRNA:   3'- aGAGGGC-GUUUCU----CCuGGUCGG--ACAG- -5'
28422 3' -56.4 NC_005946.1 + 3105 0.69 0.637925
Target:  5'- aCUCCUGUggGugucgcuguGAGGACCaagaggggGGCCUGUg -3'
miRNA:   3'- aGAGGGCGuuU---------CUCCUGG--------UCGGACAg -5'
28422 3' -56.4 NC_005946.1 + 8715 0.69 0.616835
Target:  5'- gUC-CCCGU-GAGAGGGCCuccacucggagGGCCUGUg -3'
miRNA:   3'- -AGaGGGCGuUUCUCCUGG-----------UCGGACAg -5'
28422 3' -56.4 NC_005946.1 + 28663 0.69 0.606305
Target:  5'- --aCCagGCcAGGGGGGCCgucAGCCUGUCg -3'
miRNA:   3'- agaGGg-CGuUUCUCCUGG---UCGGACAG- -5'
28422 3' -56.4 NC_005946.1 + 22568 0.7 0.595795
Target:  5'- --gCCCGUc--GAGGACCAGUCUGa- -3'
miRNA:   3'- agaGGGCGuuuCUCCUGGUCGGACag -5'
28422 3' -56.4 NC_005946.1 + 87151 0.7 0.595795
Target:  5'- aUCUCCCGCAccuggucugAGGAGGgacggcguugaGCUcggucgugAGCCUGUUg -3'
miRNA:   3'- -AGAGGGCGU---------UUCUCC-----------UGG--------UCGGACAG- -5'
28422 3' -56.4 NC_005946.1 + 77167 0.75 0.310958
Target:  5'- gUCUCCCcaaGCucauAGAGAGGGCUccugaAGCCUGUCc -3'
miRNA:   3'- -AGAGGG---CG----UUUCUCCUGG-----UCGGACAG- -5'
28422 3' -56.4 NC_005946.1 + 76457 0.75 0.296507
Target:  5'- --aCCCGCGAgaaucAGAGGuCCGGCCgGUCa -3'
miRNA:   3'- agaGGGCGUU-----UCUCCuGGUCGGaCAG- -5'
28422 3' -56.4 NC_005946.1 + 61262 0.82 0.108607
Target:  5'- uUCgacgCCUGC-GAGAGGACCGGCCUGUg -3'
miRNA:   3'- -AGa---GGGCGuUUCUCCUGGUCGGACAg -5'
28422 3' -56.4 NC_005946.1 + 80391 1.09 0.001558
Target:  5'- gUCUCCCGCAAAGAGGACCAGCCUGUCc -3'
miRNA:   3'- -AGAGGGCGUUUCUCCUGGUCGGACAG- -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.