miRNA display CGI


Results 1 - 20 of 21 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
18590 3' -53.9 NC_004682.1 + 3130 0.66 0.764555
Target:  5'- gGUCGAucacUGGCGcaGGCGGCGCagcagccgCCAAc -3'
miRNA:   3'- gCAGCU----ACUGU--UCGCCGUGgua-----GGUU- -5'
18590 3' -53.9 NC_004682.1 + 6701 0.66 0.763509
Target:  5'- -cUCGAUGACcggcucgaaGGGCuggagaaGGCACCGUUCGAg -3'
miRNA:   3'- gcAGCUACUG---------UUCG-------CCGUGGUAGGUU- -5'
18590 3' -53.9 NC_004682.1 + 12315 0.66 0.754037
Target:  5'- aCGUCGcgGACAAcguggucaaCGGCACCGUUg-- -3'
miRNA:   3'- -GCAGCuaCUGUUc--------GCCGUGGUAGguu -5'
18590 3' -53.9 NC_004682.1 + 45345 0.66 0.754037
Target:  5'- gCGUUGAUGucCGGGCGcucgACCGUCCAGu -3'
miRNA:   3'- -GCAGCUACu-GUUCGCcg--UGGUAGGUU- -5'
18590 3' -53.9 NC_004682.1 + 5637 0.66 0.754037
Target:  5'- gGUCGGUGACGAccuGCuGCAacUUAUCCGAg -3'
miRNA:   3'- gCAGCUACUGUU---CGcCGU--GGUAGGUU- -5'
18590 3' -53.9 NC_004682.1 + 35406 0.66 0.743388
Target:  5'- -cUCGAUGACGAa-GGCACCGgcCCAGu -3'
miRNA:   3'- gcAGCUACUGUUcgCCGUGGUa-GGUU- -5'
18590 3' -53.9 NC_004682.1 + 29439 0.66 0.721747
Target:  5'- aCGUCGAUGcCcu-CGGUcauGCCGUCCGAu -3'
miRNA:   3'- -GCAGCUACuGuucGCCG---UGGUAGGUU- -5'
18590 3' -53.9 NC_004682.1 + 31034 0.67 0.677442
Target:  5'- -uUCGGUGaACGAGUaguccGGgACCGUCCAGa -3'
miRNA:   3'- gcAGCUAC-UGUUCG-----CCgUGGUAGGUU- -5'
18590 3' -53.9 NC_004682.1 + 37840 0.67 0.677442
Target:  5'- gGUCGGUGACcuuGGUGGC-CagGUCCGGg -3'
miRNA:   3'- gCAGCUACUGu--UCGCCGuGg-UAGGUU- -5'
18590 3' -53.9 NC_004682.1 + 4894 0.67 0.654969
Target:  5'- -cUCGGUGAgcccgcgcuacuCGGGCGGCACCAcguaCCAc -3'
miRNA:   3'- gcAGCUACU------------GUUCGCCGUGGUa---GGUu -5'
18590 3' -53.9 NC_004682.1 + 13288 0.67 0.651589
Target:  5'- gCGUCGAgGACGaagagaccggcgagAGCGaGCACCAcugcgUCCAc -3'
miRNA:   3'- -GCAGCUaCUGU--------------UCGC-CGUGGU-----AGGUu -5'
18590 3' -53.9 NC_004682.1 + 17182 0.68 0.643694
Target:  5'- gGUCGuguUGACcuucaaGGGCGGCACCggGUUCGAc -3'
miRNA:   3'- gCAGCu--ACUG------UUCGCCGUGG--UAGGUU- -5'
18590 3' -53.9 NC_004682.1 + 3271 0.68 0.632408
Target:  5'- --cCGGUGGC-GGCGGUGCCAgCCAu -3'
miRNA:   3'- gcaGCUACUGuUCGCCGUGGUaGGUu -5'
18590 3' -53.9 NC_004682.1 + 46482 0.68 0.621122
Target:  5'- -uUCGGUGAC-GGCGGuCACCAgcgCCu- -3'
miRNA:   3'- gcAGCUACUGuUCGCC-GUGGUa--GGuu -5'
18590 3' -53.9 NC_004682.1 + 12970 0.68 0.621122
Target:  5'- uGUCGGcggaUGAuCAAGCGGCG-CAUCCc- -3'
miRNA:   3'- gCAGCU----ACU-GUUCGCCGUgGUAGGuu -5'
18590 3' -53.9 NC_004682.1 + 37140 0.69 0.553958
Target:  5'- aGUCGAUG-CGGGCGGUGCg--CCGAg -3'
miRNA:   3'- gCAGCUACuGUUCGCCGUGguaGGUU- -5'
18590 3' -53.9 NC_004682.1 + 18396 0.7 0.496498
Target:  5'- uCGcCGAUGGCAugaagagcacgcagGGCaGCAUCGUCCAGa -3'
miRNA:   3'- -GCaGCUACUGU--------------UCGcCGUGGUAGGUU- -5'
18590 3' -53.9 NC_004682.1 + 19910 0.71 0.447894
Target:  5'- uCGUCGGcgauccGACGGGCGGCACguuCGUCCu- -3'
miRNA:   3'- -GCAGCUa-----CUGUUCGCCGUG---GUAGGuu -5'
18590 3' -53.9 NC_004682.1 + 7271 0.72 0.371688
Target:  5'- gGUCGAUGACAA-CGGCAacuaCGUCUAc -3'
miRNA:   3'- gCAGCUACUGUUcGCCGUg---GUAGGUu -5'
18590 3' -53.9 NC_004682.1 + 29052 0.74 0.297127
Target:  5'- -cUCGAUGAgGaguAGCGGCucaGCCAUCCAGa -3'
miRNA:   3'- gcAGCUACUgU---UCGCCG---UGGUAGGUU- -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.