miRNA display CGI


Results 1 - 20 of 25 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
15926 3' -57 NC_004065.1 + 1829 0.76 0.453327
Target:  5'- --cCCGUGGugacggugauCGUGUugGUGUCCGGAa -3'
miRNA:   3'- uguGGCACCu---------GCACAugCGCAGGCCU- -5'
15926 3' -57 NC_004065.1 + 6672 0.66 0.944656
Target:  5'- cGCAUCGUGGGaagGUACGUGgCUGGu -3'
miRNA:   3'- -UGUGGCACCUgcaCAUGCGCaGGCCu -5'
15926 3' -57 NC_004065.1 + 208862 0.67 0.930923
Target:  5'- -aGCCGUucgagacggagaGGACG-GUGCGCGgugaCGGAc -3'
miRNA:   3'- ugUGGCA------------CCUGCaCAUGCGCag--GCCU- -5'
15926 3' -57 NC_004065.1 + 97813 0.67 0.930923
Target:  5'- uCACCGgcaGGuuGUGUACGCGg-UGGAa -3'
miRNA:   3'- uGUGGCa--CCugCACAUGCGCagGCCU- -5'
15926 3' -57 NC_004065.1 + 71541 0.67 0.925911
Target:  5'- uAUAUCGcgGGACGg--ACGUGUUCGGGg -3'
miRNA:   3'- -UGUGGCa-CCUGCacaUGCGCAGGCCU- -5'
15926 3' -57 NC_004065.1 + 109636 0.67 0.909569
Target:  5'- cCACCGUcgaGGGCGUccUGCGCGacUCCGGc -3'
miRNA:   3'- uGUGGCA---CCUGCAc-AUGCGC--AGGCCu -5'
15926 3' -57 NC_004065.1 + 91195 0.67 0.90841
Target:  5'- aGCGCCGUcGGCGU--GCGCGgcaucggcgccgCCGGAg -3'
miRNA:   3'- -UGUGGCAcCUGCAcaUGCGCa-----------GGCCU- -5'
15926 3' -57 NC_004065.1 + 152175 0.68 0.895101
Target:  5'- uGCACCGgGGAgcccacgcCGCGUCCGGAg -3'
miRNA:   3'- -UGUGGCaCCUgcacau--GCGCAGGCCU- -5'
15926 3' -57 NC_004065.1 + 72860 0.68 0.891294
Target:  5'- aACGCCGuUGGugGUGUACGacUCCa-- -3'
miRNA:   3'- -UGUGGC-ACCugCACAUGCgcAGGccu -5'
15926 3' -57 NC_004065.1 + 162650 0.73 0.651764
Target:  5'- gGCGCCcagccuaGGCGUGUcuagacucgaccGCGCGUCCGGAg -3'
miRNA:   3'- -UGUGGcac----CUGCACA------------UGCGCAGGCCU- -5'
15926 3' -57 NC_004065.1 + 223976 0.67 0.930923
Target:  5'- uACACCGUc--UGUGagcaACGUGUCCGGAc -3'
miRNA:   3'- -UGUGGCAccuGCACa---UGCGCAGGCCU- -5'
15926 3' -57 NC_004065.1 + 186394 0.68 0.884784
Target:  5'- gGCugCGuUGGugGUu--CGUGUCUGGAa -3'
miRNA:   3'- -UGugGC-ACCugCAcauGCGCAGGCCU- -5'
15926 3' -57 NC_004065.1 + 176491 0.7 0.80927
Target:  5'- gGCACCG-GGACG-GUGgGUGUCCugucucGGAc -3'
miRNA:   3'- -UGUGGCaCCUGCaCAUgCGCAGG------CCU- -5'
15926 3' -57 NC_004065.1 + 101419 0.7 0.783463
Target:  5'- -gACCGUGGggGCGgcugGCGCGUgCGGAu -3'
miRNA:   3'- ugUGGCACC--UGCaca-UGCGCAgGCCU- -5'
15926 3' -57 NC_004065.1 + 152284 0.71 0.756543
Target:  5'- cACACCGUGGuCGUGgcguUGCGCaggcggaacGUCgGGAu -3'
miRNA:   3'- -UGUGGCACCuGCAC----AUGCG---------CAGgCCU- -5'
15926 3' -57 NC_004065.1 + 107003 0.71 0.728722
Target:  5'- aGCGCCGUcGGACGUc-ACGCucgCCGGAg -3'
miRNA:   3'- -UGUGGCA-CCUGCAcaUGCGca-GGCCU- -5'
15926 3' -57 NC_004065.1 + 82607 0.73 0.612699
Target:  5'- gACGCCGUcgugcugcuGGACGcgGU-UGCGUCCGGGg -3'
miRNA:   3'- -UGUGGCA---------CCUGCa-CAuGCGCAGGCCU- -5'
15926 3' -57 NC_004065.1 + 33479 0.74 0.602949
Target:  5'- -gGCCGUGGGCGccUACGCG-CCGGc -3'
miRNA:   3'- ugUGGCACCUGCacAUGCGCaGGCCu -5'
15926 3' -57 NC_004065.1 + 168332 0.75 0.507488
Target:  5'- uACGCCGcGGACGUG-ACGCGcUgCGGAc -3'
miRNA:   3'- -UGUGGCaCCUGCACaUGCGC-AgGCCU- -5'
15926 3' -57 NC_004065.1 + 185469 0.66 0.95274
Target:  5'- ----gGUGGugGUgGUGCGgGUCgGGAg -3'
miRNA:   3'- uguggCACCugCA-CAUGCgCAGgCCU- -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.