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
18630 3' -65.7 NC_004682.1 + 12967 0.66 0.245721
Target:  5'- cGCgGCGCguucucgGGgUACCUCGGCCagCCGa- -3'
miRNA:   3'- -UGgCGCGa------CCgAUGGGGCCGG--GGCac -5'
18630 3' -65.7 NC_004682.1 + 9695 0.66 0.245721
Target:  5'- uGCCGCGUacaccgGGCUGCCCCcGUacuaCCUGUc -3'
miRNA:   3'- -UGGCGCGa-----CCGAUGGGGcCG----GGGCAc -5'
18630 3' -65.7 NC_004682.1 + 23741 0.66 0.228263
Target:  5'- cACCGUuugaGC-GGCcagACCUCGGCCCC-UGg -3'
miRNA:   3'- -UGGCG----CGaCCGa--UGGGGCCGGGGcAC- -5'
18630 3' -65.7 NC_004682.1 + 35102 0.66 0.211866
Target:  5'- uCCGCGCUgaccGGCgcacACCgCCGGCCaCCa-- -3'
miRNA:   3'- uGGCGCGA----CCGa---UGG-GGCCGG-GGcac -5'
18630 3' -65.7 NC_004682.1 + 5076 0.66 0.209758
Target:  5'- cGCCGCaCcGGCUGCuCCCGcacccgcaccgacCCCCGUGg -3'
miRNA:   3'- -UGGCGcGaCCGAUG-GGGCc------------GGGGCAC- -5'
18630 3' -65.7 NC_004682.1 + 8367 0.67 0.20663
Target:  5'- gGCCGCagGgaGGCcgACCCCGGCCagCCa-- -3'
miRNA:   3'- -UGGCG--CgaCCGa-UGGGGCCGG--GGcac -5'
18630 3' -65.7 NC_004682.1 + 22549 0.67 0.201506
Target:  5'- -gCGCGUUGGgUgucgaaggacACgCCGGCCCCGa- -3'
miRNA:   3'- ugGCGCGACCgA----------UGgGGCCGGGGCac -5'
18630 3' -65.7 NC_004682.1 + 47765 0.67 0.201506
Target:  5'- aGCCGgGCUGGCUcGCgCCC-GUUCCGUu -3'
miRNA:   3'- -UGGCgCGACCGA-UG-GGGcCGGGGCAc -5'
18630 3' -65.7 NC_004682.1 + 40147 0.67 0.191589
Target:  5'- gGCCgGCGUUGGUgGCCCCgagguacacaGGCCCuCGg- -3'
miRNA:   3'- -UGG-CGCGACCGaUGGGG----------CCGGG-GCac -5'
18630 3' -65.7 NC_004682.1 + 8912 0.68 0.173034
Target:  5'- uGCuCGCGCaugucGGCUAuCCCCGGCUCUa-- -3'
miRNA:   3'- -UG-GCGCGa----CCGAU-GGGGCCGGGGcac -5'
18630 3' -65.7 NC_004682.1 + 42991 0.68 0.156099
Target:  5'- uGCCGCGCucgcccuugaUGGagACCUCGGuCCCCGg- -3'
miRNA:   3'- -UGGCGCG----------ACCgaUGGGGCC-GGGGCac -5'
18630 3' -65.7 NC_004682.1 + 7349 0.69 0.144397
Target:  5'- aGCCGCGCUcucGCUcgcggaACUCugCGGCCCCGUa -3'
miRNA:   3'- -UGGCGCGAc--CGA------UGGG--GCCGGGGCAc -5'
18630 3' -65.7 NC_004682.1 + 19736 0.7 0.123368
Target:  5'- aGCC-CGCUGaGCcguacauCCCCGGCauCCCGUGg -3'
miRNA:   3'- -UGGcGCGAC-CGau-----GGGGCCG--GGGCAC- -5'
18630 3' -65.7 NC_004682.1 + 32982 0.7 0.123043
Target:  5'- gUCGCGCUGGCgUGCUCCaggacgcucucauGGCCCaCGUc -3'
miRNA:   3'- uGGCGCGACCG-AUGGGG-------------CCGGG-GCAc -5'
18630 3' -65.7 NC_004682.1 + 21464 0.7 0.120152
Target:  5'- cGCCGUGguucCUGGggACCUCcccacaGGCCCCGUGg -3'
miRNA:   3'- -UGGCGC----GACCgaUGGGG------CCGGGGCAC- -5'
18630 3' -65.7 NC_004682.1 + 47603 0.72 0.08721
Target:  5'- -aCGCGCUGGCga--CCGGCCUCGg- -3'
miRNA:   3'- ugGCGCGACCGauggGGCCGGGGCac -5'
18630 3' -65.7 NC_004682.1 + 1841 0.72 0.08489
Target:  5'- uCCGgGCgucugcucgGGCU-CCCCGGCCCCa-- -3'
miRNA:   3'- uGGCgCGa--------CCGAuGGGGCCGGGGcac -5'
18630 3' -65.7 NC_004682.1 + 38344 0.74 0.05645
Target:  5'- cACCGUGUUGGCgaacugcaGCCCCGGCucgucCCCGUc -3'
miRNA:   3'- -UGGCGCGACCGa-------UGGGGCCG-----GGGCAc -5'
18630 3' -65.7 NC_004682.1 + 13573 0.79 0.023287
Target:  5'- cACCGgGCUGGUUgaccACCCaCGGCCaCCGUGg -3'
miRNA:   3'- -UGGCgCGACCGA----UGGG-GCCGG-GGCAC- -5'
18630 3' -65.7 NC_004682.1 + 5272 0.81 0.017081
Target:  5'- cGCCGCGCUggGGCUGCUgcucacgCCGGCCCCGg- -3'
miRNA:   3'- -UGGCGCGA--CCGAUGG-------GGCCGGGGCac -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.