miRNA display CGI


Results 1 - 20 of 40 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
23818 3' -61.8 NC_005261.1 + 412 0.66 0.661486
Target:  5'- cGGUCCUGGucccGCGAcGGGGugCCcacgGACc -3'
miRNA:   3'- -CCGGGACC----UGCU-CCCCugGGag--CUGa -5'
23818 3' -61.8 NC_005261.1 + 4550 0.66 0.678089
Target:  5'- gGGCCCUGGccuuggcuggauccGCGGGcGGGuccggcggggcGCCCccCGGCg -3'
miRNA:   3'- -CCGGGACC--------------UGCUC-CCC-----------UGGGa-GCUGa -5'
23818 3' -61.8 NC_005261.1 + 5541 0.66 0.632057
Target:  5'- cGGCgCgcagcGaGACGGGGGGcGCCCgagCGGCg -3'
miRNA:   3'- -CCGgGa----C-CUGCUCCCC-UGGGa--GCUGa -5'
23818 3' -61.8 NC_005261.1 + 14690 0.66 0.671263
Target:  5'- cGCUgaUGGugGCGAGGGGgggcGCCUUCGGCc -3'
miRNA:   3'- cCGGg-ACC--UGCUCCCC----UGGGAGCUGa -5'
23818 3' -61.8 NC_005261.1 + 14947 0.67 0.602626
Target:  5'- uGGCgCUGGaaGCGAGcGGGcguGCCUggggCGACUg -3'
miRNA:   3'- -CCGgGACC--UGCUC-CCC---UGGGa---GCUGA- -5'
23818 3' -61.8 NC_005261.1 + 17538 0.66 0.661486
Target:  5'- uGGCaaaCUGGGCGGcGcGGGCCCgccguUCGGCg -3'
miRNA:   3'- -CCGg--GACCUGCUcC-CCUGGG-----AGCUGa -5'
23818 3' -61.8 NC_005261.1 + 18669 0.7 0.409534
Target:  5'- gGGCCCcagcGGGCGAaGGGGCCC-CaGGCUg -3'
miRNA:   3'- -CCGGGa---CCUGCUcCCCUGGGaG-CUGA- -5'
23818 3' -61.8 NC_005261.1 + 19944 0.76 0.173903
Target:  5'- cGUCCUGGGCGGGgguGGGGCggCCUCGGCUg -3'
miRNA:   3'- cCGGGACCUGCUC---CCCUG--GGAGCUGA- -5'
23818 3' -61.8 NC_005261.1 + 21213 0.73 0.265743
Target:  5'- uGGCCCcGGccGCGAcGGcGGGCCCgUCGGCUg -3'
miRNA:   3'- -CCGGGaCC--UGCU-CC-CCUGGG-AGCUGA- -5'
23818 3' -61.8 NC_005261.1 + 22662 0.7 0.438363
Target:  5'- cGGCgCCUGGGCGGcgcccgagugccgccGGGGgacggGCCCggCGACg -3'
miRNA:   3'- -CCG-GGACCUGCU---------------CCCC-----UGGGa-GCUGa -5'
23818 3' -61.8 NC_005261.1 + 23165 0.66 0.664422
Target:  5'- gGGCCCggcaggcgcgccggGGGCGAcagcgagcgcgccGcGGGGCCCgcagCGGCg -3'
miRNA:   3'- -CCGGGa-------------CCUGCU-------------C-CCCUGGGa---GCUGa -5'
23818 3' -61.8 NC_005261.1 + 25332 0.68 0.50671
Target:  5'- aGCCCcGGcuUGGGGGGGCCCUCc--- -3'
miRNA:   3'- cCGGGaCCu-GCUCCCCUGGGAGcuga -5'
23818 3' -61.8 NC_005261.1 + 27650 0.66 0.622238
Target:  5'- cGCCgucgGGACGAGGGGcCCCUUu--- -3'
miRNA:   3'- cCGGga--CCUGCUCCCCuGGGAGcuga -5'
23818 3' -61.8 NC_005261.1 + 28522 0.72 0.339214
Target:  5'- cGGCCCggagggGGGCccgGAGGaGGACCCggcccugcUCGACg -3'
miRNA:   3'- -CCGGGa-----CCUG---CUCC-CCUGGG--------AGCUGa -5'
23818 3' -61.8 NC_005261.1 + 28746 0.66 0.622238
Target:  5'- aGGCCCcagaGGACGccgcggccGGGGGCgCCUgGGCc -3'
miRNA:   3'- -CCGGGa---CCUGCu-------CCCCUG-GGAgCUGa -5'
23818 3' -61.8 NC_005261.1 + 29125 0.69 0.497442
Target:  5'- aGCCCUGGcgcCGGGGGGcGCCC-CGcCg -3'
miRNA:   3'- cCGGGACCu--GCUCCCC-UGGGaGCuGa -5'
23818 3' -61.8 NC_005261.1 + 30799 0.67 0.563695
Target:  5'- aGGUgCUGGGgccggaggagcUGGGGGGGCCCgggGACg -3'
miRNA:   3'- -CCGgGACCU-----------GCUCCCCUGGGag-CUGa -5'
23818 3' -61.8 NC_005261.1 + 31568 0.66 0.68101
Target:  5'- gGGUCCUGGACGGGcgcgccGGACgugagcgcgCUCGGCg -3'
miRNA:   3'- -CCGGGACCUGCUCc-----CCUGg--------GAGCUGa -5'
23818 3' -61.8 NC_005261.1 + 33708 0.7 0.42635
Target:  5'- gGGCCCgcugcacgagGGGCGGuGGGGGCCUgccccucgcgCGGCg -3'
miRNA:   3'- -CCGGGa---------CCUGCU-CCCCUGGGa---------GCUGa -5'
23818 3' -61.8 NC_005261.1 + 35698 0.67 0.612425
Target:  5'- aGCCCcGGugGGccGGGGGCUCgguggCGGCc -3'
miRNA:   3'- cCGGGaCCugCU--CCCCUGGGa----GCUGa -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.