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 + 109 0.7 0.439254
Target:  5'- -gGGACGCUccguguGCguUGCGgAUCACCGCGGa -3'
miRNA:   3'- agUCUGCGA------UG--ACGUgUGGUGGCGUC- -5'
19702 3' -55.4 NC_004686.1 + 2974 0.66 0.705733
Target:  5'- gUCGG-UGCUGCUGUGCgguuuugGCUGCCGguGu -3'
miRNA:   3'- -AGUCuGCGAUGACGUG-------UGGUGGCguC- -5'
19702 3' -55.4 NC_004686.1 + 3958 0.66 0.685045
Target:  5'- cCGGACGaguucuUGCgGUACACCACaGCGGu -3'
miRNA:   3'- aGUCUGCg-----AUGaCGUGUGGUGgCGUC- -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 + 4689 0.68 0.553055
Target:  5'- cCAGGCGaagagGCUcGCAgACCgcGCCGCGGa -3'
miRNA:   3'- aGUCUGCga---UGA-CGUgUGG--UGGCGUC- -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 + 8772 0.66 0.674078
Target:  5'- cUCGGugGUggagaACUGCAC-CU-CCGCGGa -3'
miRNA:   3'- -AGUCugCGa----UGACGUGuGGuGGCGUC- -5'
19702 3' -55.4 NC_004686.1 + 9474 0.69 0.499869
Target:  5'- -gGGACGCUGCcgUGUugACCAuauCCGCuGg -3'
miRNA:   3'- agUCUGCGAUG--ACGugUGGU---GGCGuC- -5'
19702 3' -55.4 NC_004686.1 + 9762 0.69 0.531542
Target:  5'- uUCGGGCuugauucuGCUgccaacACUGC-CGCCACUGCGGu -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 + 12949 0.68 0.574822
Target:  5'- gCAGACGUggaagcagggUGCUcgGCGCGCCGCgcaaaGCAGa -3'
miRNA:   3'- aGUCUGCG----------AUGA--CGUGUGGUGg----CGUC- -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 + 15037 0.66 0.717595
Target:  5'- -aGGACGgUGCcaacaaggcGUACACCAUCGCAu -3'
miRNA:   3'- agUCUGCgAUGa--------CGUGUGGUGGCGUc -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 + 15848 0.69 0.499869
Target:  5'- gUCAGuCGUUcGCcGacgACACCACCGCAGa -3'
miRNA:   3'- -AGUCuGCGA-UGaCg--UGUGGUGGCGUC- -5'
19702 3' -55.4 NC_004686.1 + 16403 0.66 0.695962
Target:  5'- gCGGcgcaACGCgguucgACUGCACcCCACCGUc- -3'
miRNA:   3'- aGUC----UGCGa-----UGACGUGuGGUGGCGuc -5'
19702 3' -55.4 NC_004686.1 + 17090 0.69 0.531542
Target:  5'- gCAGugGCUGCagGUcuuucgggaagGCACUgACCGCAGu -3'
miRNA:   3'- aGUCugCGAUGa-CG-----------UGUGG-UGGCGUC- -5'
19702 3' -55.4 NC_004686.1 + 18818 0.67 0.62881
Target:  5'- cUCGGAcaccucaCGCUGCUGCcuCAUCGCgGCGa -3'
miRNA:   3'- -AGUCU-------GCGAUGACGu-GUGGUGgCGUc -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 + 27100 0.67 0.629917
Target:  5'- --cGACGCUGCU-CACACCACaaCGUg- -3'
miRNA:   3'- aguCUGCGAUGAcGUGUGGUG--GCGuc -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.