miRNA display CGI


Results 1 - 20 of 37 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
19702 3' -55.4 NC_004686.1 + 42914 1.1 0.000797
Target:  5'- cUCAGACGCUACUGCACACCACCGCAGg -3'
miRNA:   3'- -AGUCUGCGAUGACGUGUGGUGGCGUC- -5'
19702 3' -55.4 NC_004686.1 + 55397 0.68 0.596778
Target:  5'- -gAGGCGC-ACacCugACCGCCGCGGa -3'
miRNA:   3'- agUCUGCGaUGacGugUGGUGGCGUC- -5'
19702 3' -55.4 NC_004686.1 + 19951 0.67 0.652035
Target:  5'- gCAGACG-UAC-GCAUuuCCACUGCGGg -3'
miRNA:   3'- aGUCUGCgAUGaCGUGu-GGUGGCGUC- -5'
19702 3' -55.4 NC_004686.1 + 33079 0.66 0.67078
Target:  5'- aCAGAUGUUgaaucucagcaacgACUGCACACCAauguuuaCGCu- -3'
miRNA:   3'- aGUCUGCGA--------------UGACGUGUGGUg------GCGuc -5'
19702 3' -55.4 NC_004686.1 + 8772 0.66 0.674078
Target:  5'- cUCGGugGUggagaACUGCAC-CU-CCGCGGa -3'
miRNA:   3'- -AGUCugCGa----UGACGUGuGGuGGCGUC- -5'
19702 3' -55.4 NC_004686.1 + 32212 0.66 0.706815
Target:  5'- gCAG-UGCUGCUGCGCGuaguCCAaaaGCAGc -3'
miRNA:   3'- aGUCuGCGAUGACGUGU----GGUgg-CGUC- -5'
19702 3' -55.4 NC_004686.1 + 4550 0.66 0.71437
Target:  5'- gUCGGAUcaCUGCUGCugaaucugagcgggACACCGCCaaaGCGGa -3'
miRNA:   3'- -AGUCUGc-GAUGACG--------------UGUGGUGG---CGUC- -5'
19702 3' -55.4 NC_004686.1 + 6538 0.66 0.717595
Target:  5'- -aGGACGaacCUgGCACACCACagGCAGu -3'
miRNA:   3'- agUCUGCgauGA-CGUGUGGUGg-CGUC- -5'
19702 3' -55.4 NC_004686.1 + 15037 0.66 0.717595
Target:  5'- -aGGACGgUGCcaacaaggcGUACACCAUCGCAu -3'
miRNA:   3'- agUCUGCgAUGa--------CGUGUGGUGGCGUc -5'
19702 3' -55.4 NC_004686.1 + 12949 0.68 0.574822
Target:  5'- gCAGACGUggaagcagggUGCUcgGCGCGCCGCgcaaaGCAGa -3'
miRNA:   3'- aGUCUGCG----------AUGA--CGUGUGGUGg----CGUC- -5'
19702 3' -55.4 NC_004686.1 + 4689 0.68 0.553055
Target:  5'- cCAGGCGaagagGCUcGCAgACCgcGCCGCGGa -3'
miRNA:   3'- aGUCUGCga---UGA-CGUgUGG--UGGCGUC- -5'
19702 3' -55.4 NC_004686.1 + 15683 0.68 0.542263
Target:  5'- gCGGugGCccgGCUG-ACGCCGCagcaGCAGg -3'
miRNA:   3'- aGUCugCGa--UGACgUGUGGUGg---CGUC- -5'
19702 3' -55.4 NC_004686.1 + 38399 0.74 0.251479
Target:  5'- --cGAUGCcGCUGCuCAUCGCCGCGGg -3'
miRNA:   3'- aguCUGCGaUGACGuGUGGUGGCGUC- -5'
19702 3' -55.4 NC_004686.1 + 14011 0.73 0.300598
Target:  5'- -gAGAaaCGCaACgUGCACAUCACCGCGGa -3'
miRNA:   3'- agUCU--GCGaUG-ACGUGUGGUGGCGUC- -5'
19702 3' -55.4 NC_004686.1 + 39277 0.73 0.323814
Target:  5'- gCAGAUcgccgaacaGCUggGCUGC-CACCACCGCAc -3'
miRNA:   3'- aGUCUG---------CGA--UGACGuGUGGUGGCGUc -5'
19702 3' -55.4 NC_004686.1 + 12092 0.73 0.323814
Target:  5'- cCAGGCGgcuuCUGCUGCG-GCUACCGCGGc -3'
miRNA:   3'- aGUCUGC----GAUGACGUgUGGUGGCGUC- -5'
19702 3' -55.4 NC_004686.1 + 109 0.7 0.439254
Target:  5'- -gGGACGCUccguguGCguUGCGgAUCACCGCGGa -3'
miRNA:   3'- agUCUGCGA------UG--ACGUgUGGUGGCGUC- -5'
19702 3' -55.4 NC_004686.1 + 30458 0.7 0.479225
Target:  5'- aUCcaACGCaUACUGCGCACCgGCCGUg- -3'
miRNA:   3'- -AGucUGCG-AUGACGUGUGG-UGGCGuc -5'
19702 3' -55.4 NC_004686.1 + 15848 0.69 0.499869
Target:  5'- gUCAGuCGUUcGCcGacgACACCACCGCAGa -3'
miRNA:   3'- -AGUCuGCGA-UGaCg--UGUGGUGGCGUC- -5'
19702 3' -55.4 NC_004686.1 + 9762 0.69 0.531542
Target:  5'- uUCGGGCuugauucuGCUgccaacACUGC-CGCCACUGCGGu -3'
miRNA:   3'- -AGUCUG--------CGA------UGACGuGUGGUGGCGUC- -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.