miRNA display CGI


Results 1 - 18 of 18 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
22573 5' -57.4 NC_005091.1 + 17865 0.66 0.662852
Target:  5'- cGGCcgGGACCUGUgCGAGaUCGGCc- -3'
miRNA:   3'- -CCGcgUCUGGGCAgGCUCaAGUCGcu -5'
22573 5' -57.4 NC_005091.1 + 34563 0.66 0.662852
Target:  5'- cGGCGaAGugCUGgcgacugCCGAGUgggaccgcgCGGCGAa -3'
miRNA:   3'- -CCGCgUCugGGCa------GGCUCAa--------GUCGCU- -5'
22573 5' -57.4 NC_005091.1 + 741 0.66 0.652155
Target:  5'- cGCGUAGauuuccgcgauGCCCGgucgauucUCCGcGUUCAGCGc -3'
miRNA:   3'- cCGCGUC-----------UGGGC--------AGGCuCAAGUCGCu -5'
22573 5' -57.4 NC_005091.1 + 3380 0.66 0.652155
Target:  5'- cGCGCAGcuuCUCG-CCGAGUUCuucGCa- -3'
miRNA:   3'- cCGCGUCu--GGGCaGGCUCAAGu--CGcu -5'
22573 5' -57.4 NC_005091.1 + 29707 0.66 0.648942
Target:  5'- cGCGCAGcguacggcccucccGCUCGcccgcaCCGAGaUCGGCGAg -3'
miRNA:   3'- cCGCGUC--------------UGGGCa-----GGCUCaAGUCGCU- -5'
22573 5' -57.4 NC_005091.1 + 29445 0.66 0.630717
Target:  5'- uGCGCGucGAuuuagucgUCUGUCCcGGUUCGGCGAa -3'
miRNA:   3'- cCGCGU--CU--------GGGCAGGcUCAAGUCGCU- -5'
22573 5' -57.4 NC_005091.1 + 19545 0.67 0.598591
Target:  5'- cGcCGCAGGCCg--UCGuGUUCGGCGAu -3'
miRNA:   3'- cC-GCGUCUGGgcaGGCuCAAGUCGCU- -5'
22573 5' -57.4 NC_005091.1 + 10377 0.67 0.577295
Target:  5'- cGGCGCGGAUaCCG-CC---UUCGGCGAc -3'
miRNA:   3'- -CCGCGUCUG-GGCaGGcucAAGUCGCU- -5'
22573 5' -57.4 NC_005091.1 + 18324 0.67 0.545691
Target:  5'- cGCGCGGACCUgcuuGUCCucG-UCGGUGAu -3'
miRNA:   3'- cCGCGUCUGGG----CAGGcuCaAGUCGCU- -5'
22573 5' -57.4 NC_005091.1 + 35567 0.68 0.514663
Target:  5'- aGCGCAGugUCuuucaauagGUUCGAGUUCAG-GAa -3'
miRNA:   3'- cCGCGUCugGG---------CAGGCUCAAGUCgCU- -5'
22573 5' -57.4 NC_005091.1 + 24813 0.68 0.484376
Target:  5'- uGCGCAGGCCg--CCGAGgaagccguucUUCAGCGu -3'
miRNA:   3'- cCGCGUCUGGgcaGGCUC----------AAGUCGCu -5'
22573 5' -57.4 NC_005091.1 + 42650 0.69 0.47447
Target:  5'- cGGCGCGGACaagCGUCUuc--UCGGCGAg -3'
miRNA:   3'- -CCGCGUCUGg--GCAGGcucaAGUCGCU- -5'
22573 5' -57.4 NC_005091.1 + 40882 0.69 0.449204
Target:  5'- cGUGCAGAgcgcccagucguuguCgCCGUCCG-GUUCGGCGc -3'
miRNA:   3'- cCGCGUCU---------------G-GGCAGGCuCAAGUCGCu -5'
22573 5' -57.4 NC_005091.1 + 2813 0.69 0.445382
Target:  5'- cGCGagAGAUaUCGUCCGGGUcaUCGGCGAa -3'
miRNA:   3'- cCGCg-UCUG-GGCAGGCUCA--AGUCGCU- -5'
22573 5' -57.4 NC_005091.1 + 43651 0.7 0.426554
Target:  5'- aGGUGCAgaaGACCUGUCCGGcGcUUCucGCGAu -3'
miRNA:   3'- -CCGCGU---CUGGGCAGGCU-C-AAGu-CGCU- -5'
22573 5' -57.4 NC_005091.1 + 13953 0.7 0.381632
Target:  5'- cGGUGCGGACUCGggggUCGAGUgauacGCGAu -3'
miRNA:   3'- -CCGCGUCUGGGCa---GGCUCAagu--CGCU- -5'
22573 5' -57.4 NC_005091.1 + 32178 0.74 0.247555
Target:  5'- cGGCGCGGACCCGgCCGg---CGGCa- -3'
miRNA:   3'- -CCGCGUCUGGGCaGGCucaaGUCGcu -5'
22573 5' -57.4 NC_005091.1 + 17566 1.11 0.000524
Target:  5'- cGGCGCAGACCCGUCCGAGUUCAGCGAa -3'
miRNA:   3'- -CCGCGUCUGGGCAGGCUCAAGUCGCU- -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.