miRNA display CGI


Results 1 - 20 of 36 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
22399 5' -61 NC_005056.1 + 20 0.73 0.080521
Target:  5'- uGCGCGCUGGCGGUggugcugauuuuAUUuuuUCAGCGUCu -3'
miRNA:   3'- uCGCGUGGCCGCCG------------UAGu--GGUCGCAG- -5'
22399 5' -61 NC_005056.1 + 1159 0.66 0.288736
Target:  5'- cGGgGCGCUGGCGGuCAUuuuuuuugccgcaggUugCAGUGUUu -3'
miRNA:   3'- -UCgCGUGGCCGCC-GUA---------------GugGUCGCAG- -5'
22399 5' -61 NC_005056.1 + 1759 0.66 0.293152
Target:  5'- cAGCGCcggauGCUGGUacuGGCAcCGCCGGUGg- -3'
miRNA:   3'- -UCGCG-----UGGCCG---CCGUaGUGGUCGCag -5'
22399 5' -61 NC_005056.1 + 2093 0.66 0.255281
Target:  5'- cAGUuCACCGGaccagaacggauaGGCGUCgugcGCCAGCGUg -3'
miRNA:   3'- -UCGcGUGGCCg------------CCGUAG----UGGUCGCAg -5'
22399 5' -61 NC_005056.1 + 3976 0.67 0.218591
Target:  5'- aAGC-CACCGGCGGUggcgugacgcccugAugacgaacugcUgACCGGCGUCa -3'
miRNA:   3'- -UCGcGUGGCCGCCG--------------U-----------AgUGGUCGCAG- -5'
22399 5' -61 NC_005056.1 + 4033 0.68 0.208889
Target:  5'- gGGCGUcaccgccaccGCCGGUGGCuuugCugCGGCGc- -3'
miRNA:   3'- -UCGCG----------UGGCCGCCGua--GugGUCGCag -5'
22399 5' -61 NC_005056.1 + 4286 0.71 0.127227
Target:  5'- uGGUGuCACCGGCucCAUCGCCAGCa-- -3'
miRNA:   3'- -UCGC-GUGGCCGccGUAGUGGUCGcag -5'
22399 5' -61 NC_005056.1 + 4315 0.66 0.285821
Target:  5'- -cCGaCACCGcCGGUggCACCgAGCGUCa -3'
miRNA:   3'- ucGC-GUGGCcGCCGuaGUGG-UCGCAG- -5'
22399 5' -61 NC_005056.1 + 4367 0.71 0.116882
Target:  5'- cGGUGcCACCGGCGGUGUCggugguGCUGGCGa- -3'
miRNA:   3'- -UCGC-GUGGCCGCCGUAG------UGGUCGCag -5'
22399 5' -61 NC_005056.1 + 4655 0.66 0.278635
Target:  5'- cGCGCGCCGgggcuucauuGCGGUAuuUCugCAGCc-- -3'
miRNA:   3'- uCGCGUGGC----------CGCCGU--AGugGUCGcag -5'
22399 5' -61 NC_005056.1 + 4939 0.69 0.168097
Target:  5'- cGCGUACCGcCGGCAggUUACCGauGCGUUu -3'
miRNA:   3'- uCGCGUGGCcGCCGU--AGUGGU--CGCAG- -5'
22399 5' -61 NC_005056.1 + 5487 0.74 0.067642
Target:  5'- cAGCGCACCGGCaaUAUCGCCGGUaUCc -3'
miRNA:   3'- -UCGCGUGGCCGccGUAGUGGUCGcAG- -5'
22399 5' -61 NC_005056.1 + 5744 1.01 0.000481
Target:  5'- cAGCGC-CCGGCGGCAUCACCAGCGUCa -3'
miRNA:   3'- -UCGCGuGGCCGCCGUAGUGGUCGCAG- -5'
22399 5' -61 NC_005056.1 + 5911 0.67 0.25133
Target:  5'- -cCGCGCCagGGCGGCA-CGCCGGUcaGUg -3'
miRNA:   3'- ucGCGUGG--CCGCCGUaGUGGUCG--CAg -5'
22399 5' -61 NC_005056.1 + 5942 0.66 0.264697
Target:  5'- gGGCGCauucgguuguuaACUGGCuuucuuuuucgGGCGUCcacguuuuGCCGGUGUCa -3'
miRNA:   3'- -UCGCG------------UGGCCG-----------CCGUAG--------UGGUCGCAG- -5'
22399 5' -61 NC_005056.1 + 6319 0.69 0.163531
Target:  5'- gAGCGCGCCgugugugcgauGGCGaccGCGUCGCUuuaugAGCGUUa -3'
miRNA:   3'- -UCGCGUGG-----------CCGC---CGUAGUGG-----UCGCAG- -5'
22399 5' -61 NC_005056.1 + 6775 0.72 0.101368
Target:  5'- aGGUGCuuGCCGGUGGUgaacccAUCACCccGCGUCu -3'
miRNA:   3'- -UCGCG--UGGCCGCCG------UAGUGGu-CGCAG- -5'
22399 5' -61 NC_005056.1 + 6819 0.67 0.244858
Target:  5'- gGGCGCAuguugcUCGGUGGUuuugucucgaugGUUGCCGGUGUUg -3'
miRNA:   3'- -UCGCGU------GGCCGCCG------------UAGUGGUCGCAG- -5'
22399 5' -61 NC_005056.1 + 7459 0.71 0.110427
Target:  5'- uGGCGUACCgcuGGCGGCGU-ACCGGCu-- -3'
miRNA:   3'- -UCGCGUGG---CCGCCGUAgUGGUCGcag -5'
22399 5' -61 NC_005056.1 + 8260 0.66 0.271595
Target:  5'- cAGCGC-CCGGCcuGCAcagaCGCCAGUGa- -3'
miRNA:   3'- -UCGCGuGGCCGc-CGUa---GUGGUCGCag -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.