miRNA display CGI


Results 1 - 20 of 29 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
2738 3' -55.7 NC_001491.2 + 33161 0.66 0.926468
Target:  5'- cUCGCGCGCcccaaGcAGAGCACgucCGUGGa -3'
miRNA:   3'- -AGCGUGCGcg---CuUCUCGUGau-GCGCU- -5'
2738 3' -55.7 NC_001491.2 + 52379 0.66 0.926468
Target:  5'- cUUGUACGCGCGAcaucugguAGAucuuuuGUugUACGaCGAg -3'
miRNA:   3'- -AGCGUGCGCGCU--------UCU------CGugAUGC-GCU- -5'
2738 3' -55.7 NC_001491.2 + 60081 0.66 0.926468
Target:  5'- -aGCGCGUGCGGuaGGUGCcGCGCa- -3'
miRNA:   3'- agCGUGCGCGCUucUCGUGaUGCGcu -5'
2738 3' -55.7 NC_001491.2 + 85076 0.66 0.926468
Target:  5'- aCGcCACGaauuguCGacaGAGGAGUGCUACGCGc -3'
miRNA:   3'- aGC-GUGC------GCg--CUUCUCGUGAUGCGCu -5'
2738 3' -55.7 NC_001491.2 + 9452 0.66 0.926468
Target:  5'- -aGCGCGCuCGAGGGGUucauCGCGGc -3'
miRNA:   3'- agCGUGCGcGCUUCUCGugauGCGCU- -5'
2738 3' -55.7 NC_001491.2 + 148964 0.66 0.921008
Target:  5'- -aGCGCG-GCGGAGGGC-CUGgGCc- -3'
miRNA:   3'- agCGUGCgCGCUUCUCGuGAUgCGcu -5'
2738 3' -55.7 NC_001491.2 + 139859 0.66 0.915308
Target:  5'- cUCGCGCcCGCaGAuguacGAGCGCgcgugUGCGCGGu -3'
miRNA:   3'- -AGCGUGcGCG-CUu----CUCGUG-----AUGCGCU- -5'
2738 3' -55.7 NC_001491.2 + 82291 0.66 0.915308
Target:  5'- -gGUgACGC-UGGAGAGCAUcACGCGAc -3'
miRNA:   3'- agCG-UGCGcGCUUCUCGUGaUGCGCU- -5'
2738 3' -55.7 NC_001491.2 + 84641 0.66 0.915308
Target:  5'- -aGCACGCGUcAGGAacgauuauguGCACcagcGCGCGAg -3'
miRNA:   3'- agCGUGCGCGcUUCU----------CGUGa---UGCGCU- -5'
2738 3' -55.7 NC_001491.2 + 15772 0.66 0.908764
Target:  5'- gUGCAaagucCGCGCGAGGucugggugcuuguGGCugUGCGgGGa -3'
miRNA:   3'- aGCGU-----GCGCGCUUC-------------UCGugAUGCgCU- -5'
2738 3' -55.7 NC_001491.2 + 123516 0.66 0.89679
Target:  5'- cCGCGgGCGCGcAGGuacgccgcGGCGgCUGCGUGGc -3'
miRNA:   3'- aGCGUgCGCGC-UUC--------UCGU-GAUGCGCU- -5'
2738 3' -55.7 NC_001491.2 + 67233 0.67 0.890152
Target:  5'- cCGCGCGCGCGggGA--ACUG-GUGu -3'
miRNA:   3'- aGCGUGCGCGCuuCUcgUGAUgCGCu -5'
2738 3' -55.7 NC_001491.2 + 137747 0.67 0.883287
Target:  5'- cCGCccgGCGgGCGgcGGGCGCc-CGCGGg -3'
miRNA:   3'- aGCG---UGCgCGCuuCUCGUGauGCGCU- -5'
2738 3' -55.7 NC_001491.2 + 38639 0.67 0.876199
Target:  5'- -gGUGCGCGCuuuccuGAAGAGCGaccCUAUGCGc -3'
miRNA:   3'- agCGUGCGCG------CUUCUCGU---GAUGCGCu -5'
2738 3' -55.7 NC_001491.2 + 95206 0.67 0.87403
Target:  5'- cUCGC-CGCGCGccGAaGCcaagaaauccaccaGCUGCGCGu -3'
miRNA:   3'- -AGCGuGCGCGCuuCU-CG--------------UGAUGCGCu -5'
2738 3' -55.7 NC_001491.2 + 114636 0.67 0.868893
Target:  5'- -gGCGC-CGCGcAGAGCcACcGCGCGGc -3'
miRNA:   3'- agCGUGcGCGCuUCUCG-UGaUGCGCU- -5'
2738 3' -55.7 NC_001491.2 + 57383 0.67 0.868893
Target:  5'- aCGCugGUGgGGgcuGAGCAggggcuggcUUGCGCGAg -3'
miRNA:   3'- aGCGugCGCgCUu--CUCGU---------GAUGCGCU- -5'
2738 3' -55.7 NC_001491.2 + 148586 0.67 0.861375
Target:  5'- -gGC-CGCGCGGu-GGCuCUGCGCGGc -3'
miRNA:   3'- agCGuGCGCGCUucUCGuGAUGCGCU- -5'
2738 3' -55.7 NC_001491.2 + 137677 0.68 0.845722
Target:  5'- -aGCGgGCGCG-GGAGCGCgcgaGCGCc- -3'
miRNA:   3'- agCGUgCGCGCuUCUCGUGa---UGCGcu -5'
2738 3' -55.7 NC_001491.2 + 125560 0.68 0.829294
Target:  5'- aUGCGCGCccCGAGGcGGCGCUcGCGCGc -3'
miRNA:   3'- aGCGUGCGc-GCUUC-UCGUGA-UGCGCu -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.