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
28531 5' -54.4 NC_005946.1 + 69601 0.65 0.932933
Target:  5'- aGGAggGCCUGAGCUGUGaugcuguaggcuuUCCuagccaGGCCa -3'
miRNA:   3'- -CCUggUGGACUUGACGC-------------AGGug----CUGG- -5'
28531 5' -54.4 NC_005946.1 + 19428 0.66 0.922147
Target:  5'- cGGCgCuCCUGAggcaagaguacggACcgGCGUUCACGGCCc -3'
miRNA:   3'- cCUG-GuGGACU-------------UGa-CGCAGGUGCUGG- -5'
28531 5' -54.4 NC_005946.1 + 63790 0.66 0.916969
Target:  5'- gGGACCaggaGCUUGcACaUGUuugCCACGGCCa -3'
miRNA:   3'- -CCUGG----UGGACuUG-ACGca-GGUGCUGG- -5'
28531 5' -54.4 NC_005946.1 + 91803 0.66 0.916969
Target:  5'- gGGuGCCcCCUGucuGCUuccuuuuuaccGUGaUCCACGACCa -3'
miRNA:   3'- -CC-UGGuGGACu--UGA-----------CGC-AGGUGCUGG- -5'
28531 5' -54.4 NC_005946.1 + 98380 0.66 0.916969
Target:  5'- gGGAuCUACCgcaaGGGCUGgcUCCAgGACCg -3'
miRNA:   3'- -CCU-GGUGGa---CUUGACgcAGGUgCUGG- -5'
28531 5' -54.4 NC_005946.1 + 59457 0.66 0.915791
Target:  5'- gGGACacaaugucccugGCCUGGucguuguugacGCUgGCGUCCAUGGCg -3'
miRNA:   3'- -CCUGg-----------UGGACU-----------UGA-CGCAGGUGCUGg -5'
28531 5' -54.4 NC_005946.1 + 76695 0.66 0.91098
Target:  5'- cGuCCACCUGG--UGgGUCCAgcaUGACCc -3'
miRNA:   3'- cCuGGUGGACUugACgCAGGU---GCUGG- -5'
28531 5' -54.4 NC_005946.1 + 74657 0.66 0.91098
Target:  5'- uGGACCuaaaguCCgacaGGAgaGCGUCCcugAUGGCCu -3'
miRNA:   3'- -CCUGGu-----GGa---CUUgaCGCAGG---UGCUGG- -5'
28531 5' -54.4 NC_005946.1 + 8429 0.66 0.904745
Target:  5'- --cCCGCCaUGGGCUugcgguuggugGCGUgCAUGACCu -3'
miRNA:   3'- ccuGGUGG-ACUUGA-----------CGCAgGUGCUGG- -5'
28531 5' -54.4 NC_005946.1 + 58187 0.66 0.904745
Target:  5'- aGGACCcCCUacAACacUGUCCACGAUCa -3'
miRNA:   3'- -CCUGGuGGAc-UUGacGCAGGUGCUGG- -5'
28531 5' -54.4 NC_005946.1 + 10707 0.66 0.904745
Target:  5'- --cCCACCgUGGcuguGCUGgGUCUgACGGCCa -3'
miRNA:   3'- ccuGGUGG-ACU----UGACgCAGG-UGCUGG- -5'
28531 5' -54.4 NC_005946.1 + 93935 0.67 0.88459
Target:  5'- cGACCGCCagccucaGAGagugGCGUCCgACGAUCc -3'
miRNA:   3'- cCUGGUGGa------CUUga--CGCAGG-UGCUGG- -5'
28531 5' -54.4 NC_005946.1 + 20368 0.67 0.883171
Target:  5'- cGACCagACCgUGAGCaggcuggagaagGUGUCCGCGGCg -3'
miRNA:   3'- cCUGG--UGG-ACUUGa-----------CGCAGGUGCUGg -5'
28531 5' -54.4 NC_005946.1 + 88631 0.67 0.869984
Target:  5'- aGGCCuuCCUGGgaGCgGUGUgCAUGGCCg -3'
miRNA:   3'- cCUGGu-GGACU--UGaCGCAgGUGCUGG- -5'
28531 5' -54.4 NC_005946.1 + 104400 0.68 0.862345
Target:  5'- aGGcCCugUUGucuACUcccacgGCGUCCGCGGCg -3'
miRNA:   3'- -CCuGGugGACu--UGA------CGCAGGUGCUGg -5'
28531 5' -54.4 NC_005946.1 + 17624 0.68 0.854489
Target:  5'- cGGCgGCCUGGuaaaACUGCuG-CUugGACCu -3'
miRNA:   3'- cCUGgUGGACU----UGACG-CaGGugCUGG- -5'
28531 5' -54.4 NC_005946.1 + 62965 0.68 0.854489
Target:  5'- gGGugC-CCUGAAggGCGUCCGCa--- -3'
miRNA:   3'- -CCugGuGGACUUgaCGCAGGUGcugg -5'
28531 5' -54.4 NC_005946.1 + 22191 0.68 0.854489
Target:  5'- cGGCUACCcucgGGcugGCUGCccuggCCGCGGCCg -3'
miRNA:   3'- cCUGGUGGa---CU---UGACGca---GGUGCUGG- -5'
28531 5' -54.4 NC_005946.1 + 102124 0.68 0.829694
Target:  5'- uGGugUcCCUGGACaUGuUGUCCACGuaguCCg -3'
miRNA:   3'- -CCugGuGGACUUG-AC-GCAGGUGCu---GG- -5'
28531 5' -54.4 NC_005946.1 + 60325 0.69 0.812216
Target:  5'- -uACCGCCUGGACcgccgUGuCGUCCuuguaGACCc -3'
miRNA:   3'- ccUGGUGGACUUG-----AC-GCAGGug---CUGG- -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.