miRNA display CGI


Results 1 - 20 of 39 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
7996 3' -55.3 NC_001973.1 + 133510 0.66 0.940154
Target:  5'- cGCUCGGcuugUCggGCAGCagagGCGaggGCCGCGc- -3'
miRNA:   3'- -CGAGCC----AGa-CGUCG----UGCa--UGGCGUag -5'
7996 3' -55.3 NC_001973.1 + 4879 0.66 0.935325
Target:  5'- uGCUCGuacaaggGCAGCGCGUacGCCGgGUUc -3'
miRNA:   3'- -CGAGCcaga---CGUCGUGCA--UGGCgUAG- -5'
7996 3' -55.3 NC_001973.1 + 63915 0.66 0.930257
Target:  5'- aGCUCGaG-CUGgAGCugagcgacuGCGUGCCGCugAUCc -3'
miRNA:   3'- -CGAGC-CaGACgUCG---------UGCAUGGCG--UAG- -5'
7996 3' -55.3 NC_001973.1 + 24177 0.66 0.924947
Target:  5'- cGCUgCGG-CcGCGGCGCGUca-GCGUCa -3'
miRNA:   3'- -CGA-GCCaGaCGUCGUGCAuggCGUAG- -5'
7996 3' -55.3 NC_001973.1 + 105764 0.66 0.924947
Target:  5'- cCUCuGGg--GCAGCACG-ACCGCGc- -3'
miRNA:   3'- cGAG-CCagaCGUCGUGCaUGGCGUag -5'
7996 3' -55.3 NC_001973.1 + 136787 0.66 0.924402
Target:  5'- aCUCGGUCucgacgggaaagaUGUAGCGCGUcacgaACCuGCAg- -3'
miRNA:   3'- cGAGCCAG-------------ACGUCGUGCA-----UGG-CGUag -5'
7996 3' -55.3 NC_001973.1 + 160383 0.66 0.919396
Target:  5'- aGCUCGaGcUCgGCGGaCGCGUAagauuuuaCGCGUCg -3'
miRNA:   3'- -CGAGC-C-AGaCGUC-GUGCAUg-------GCGUAG- -5'
7996 3' -55.3 NC_001973.1 + 123432 0.66 0.913604
Target:  5'- uGCacgCGGUCgucaGCGGCACGcACCG-GUCc -3'
miRNA:   3'- -CGa--GCCAGa---CGUCGUGCaUGGCgUAG- -5'
7996 3' -55.3 NC_001973.1 + 16513 0.66 0.913604
Target:  5'- cGCUCGaGcUCgGCGGaCGCGUAagauuuuaCGCGUCg -3'
miRNA:   3'- -CGAGC-C-AGaCGUC-GUGCAUg-------GCGUAG- -5'
7996 3' -55.3 NC_001973.1 + 4238 0.67 0.901306
Target:  5'- cGCUCGuuugcGUgaGCGGCGCGUacgcgaacaGCCGC-UCu -3'
miRNA:   3'- -CGAGC-----CAgaCGUCGUGCA---------UGGCGuAG- -5'
7996 3' -55.3 NC_001973.1 + 48083 0.67 0.888069
Target:  5'- cGUUCacgCUGCGGUACGUGCuCGCcgCc -3'
miRNA:   3'- -CGAGccaGACGUCGUGCAUG-GCGuaG- -5'
7996 3' -55.3 NC_001973.1 + 85145 0.67 0.888069
Target:  5'- cGCUCGGcguUCUGCuGCGCGc-CCGacugGUCg -3'
miRNA:   3'- -CGAGCC---AGACGuCGUGCauGGCg---UAG- -5'
7996 3' -55.3 NC_001973.1 + 33893 0.67 0.881107
Target:  5'- -gUUGGUCUuuuugaGCGGCACGgGCCaCGUCa -3'
miRNA:   3'- cgAGCCAGA------CGUCGUGCaUGGcGUAG- -5'
7996 3' -55.3 NC_001973.1 + 102887 0.67 0.873922
Target:  5'- -aUUGGUCgGaCAGCGCGcggagGCCaGCAUCg -3'
miRNA:   3'- cgAGCCAGaC-GUCGUGCa----UGG-CGUAG- -5'
7996 3' -55.3 NC_001973.1 + 90413 0.68 0.865766
Target:  5'- uGCgaaacggCGGUgUGCAGCGCGUGCgacuuuaggccuuCGCGc- -3'
miRNA:   3'- -CGa------GCCAgACGUCGUGCAUG-------------GCGUag -5'
7996 3' -55.3 NC_001973.1 + 137861 0.68 0.843057
Target:  5'- aGCUC--UUUGCucAGCGCGgucaggGCCGCGUCg -3'
miRNA:   3'- -CGAGccAGACG--UCGUGCa-----UGGCGUAG- -5'
7996 3' -55.3 NC_001973.1 + 10045 0.68 0.834841
Target:  5'- uGUUCuGGUg-GC-GCACGUGCCGCAg- -3'
miRNA:   3'- -CGAG-CCAgaCGuCGUGCAUGGCGUag -5'
7996 3' -55.3 NC_001973.1 + 3710 0.69 0.826439
Target:  5'- cGC-CGGUCgcgaccgcGCGGCACGUgcagGCCGUAc- -3'
miRNA:   3'- -CGaGCCAGa-------CGUCGUGCA----UGGCGUag -5'
7996 3' -55.3 NC_001973.1 + 137201 0.69 0.809108
Target:  5'- cGCggcgCGaGUCgcgcgGCGGCGCGU-CCGCAg- -3'
miRNA:   3'- -CGa---GC-CAGa----CGUCGUGCAuGGCGUag -5'
7996 3' -55.3 NC_001973.1 + 87594 0.69 0.800196
Target:  5'- aGCUCGGUCUGCAcGC-CGcccaugCGCAUg -3'
miRNA:   3'- -CGAGCCAGACGU-CGuGCaug---GCGUAg -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.