miRNA display CGI


Results 1 - 20 of 24 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
11568 3' -55.2 NC_003085.1 + 37931 0.66 0.703726
Target:  5'- gACGUcUGGCCGGccaGCGCaGGCAgCGc -3'
miRNA:   3'- gUGCAuACUGGUCa--UGCGcCCGUgGU- -5'
11568 3' -55.2 NC_003085.1 + 37132 0.66 0.703726
Target:  5'- uCACGccgGGCaCGGcgACgGCGGGCACCc -3'
miRNA:   3'- -GUGCauaCUG-GUCa-UG-CGCCCGUGGu -5'
11568 3' -55.2 NC_003085.1 + 29842 0.66 0.681817
Target:  5'- cCGCcag-GGCCAGUGCGCacgaggugGGGCGCg- -3'
miRNA:   3'- -GUGcauaCUGGUCAUGCG--------CCCGUGgu -5'
11568 3' -55.2 NC_003085.1 + 40771 0.66 0.681817
Target:  5'- -uCGUGUGGCUgacGUugGCGgacGGCACCc -3'
miRNA:   3'- guGCAUACUGGu--CAugCGC---CCGUGGu -5'
11568 3' -55.2 NC_003085.1 + 5984 0.66 0.681817
Target:  5'- gCACGUGcuuGCCAGUugGCucgccuacggcuGGGCGCgGa -3'
miRNA:   3'- -GUGCAUac-UGGUCAugCG------------CCCGUGgU- -5'
11568 3' -55.2 NC_003085.1 + 10747 0.66 0.670785
Target:  5'- gCugGUGUGuCCAGcACGCcGGCAgCCc -3'
miRNA:   3'- -GugCAUACuGGUCaUGCGcCCGU-GGu -5'
11568 3' -55.2 NC_003085.1 + 20132 0.66 0.659715
Target:  5'- aGCGgAUGucccgcuCCAGgaggGCGCGGGCGgCGg -3'
miRNA:   3'- gUGCaUACu------GGUCa---UGCGCCCGUgGU- -5'
11568 3' -55.2 NC_003085.1 + 14180 0.66 0.659715
Target:  5'- aCAUGUAUGcACCuGUGCcagcgucCGGGCugCGa -3'
miRNA:   3'- -GUGCAUAC-UGGuCAUGc------GCCCGugGU- -5'
11568 3' -55.2 NC_003085.1 + 36656 0.67 0.636397
Target:  5'- gGCGUAUagggcGACCuuGUcucacauAgGCGGGCGCCGg -3'
miRNA:   3'- gUGCAUA-----CUGGu-CA-------UgCGCCCGUGGU- -5'
11568 3' -55.2 NC_003085.1 + 40870 0.67 0.626392
Target:  5'- aCGCGcGUGGCCuuggGCGCcgGGGUGCCGu -3'
miRNA:   3'- -GUGCaUACUGGuca-UGCG--CCCGUGGU- -5'
11568 3' -55.2 NC_003085.1 + 43709 0.67 0.615281
Target:  5'- gCACGUccgucaAUGGCCcaaucgACGCGGGaCACCc -3'
miRNA:   3'- -GUGCA------UACUGGuca---UGCGCCC-GUGGu -5'
11568 3' -55.2 NC_003085.1 + 46943 0.67 0.604185
Target:  5'- gCGCGcaggGGCCG--ACGCGGGCACa- -3'
miRNA:   3'- -GUGCaua-CUGGUcaUGCGCCCGUGgu -5'
11568 3' -55.2 NC_003085.1 + 33150 0.67 0.604185
Target:  5'- ------cGACCAGUACGUG-GCGCCu -3'
miRNA:   3'- gugcauaCUGGUCAUGCGCcCGUGGu -5'
11568 3' -55.2 NC_003085.1 + 13796 0.67 0.604185
Target:  5'- aGCGUGacGCCAGUcuGCGUGgagguGGCGCCAu -3'
miRNA:   3'- gUGCAUacUGGUCA--UGCGC-----CCGUGGU- -5'
11568 3' -55.2 NC_003085.1 + 19390 0.67 0.600861
Target:  5'- cCGCGUG-GGCCGGUACcccagcaaggcccaGgGcGGCGCCAc -3'
miRNA:   3'- -GUGCAUaCUGGUCAUG--------------CgC-CCGUGGU- -5'
11568 3' -55.2 NC_003085.1 + 4943 0.68 0.582076
Target:  5'- -uCGUccGGCgGGUGC-UGGGCACCAc -3'
miRNA:   3'- guGCAuaCUGgUCAUGcGCCCGUGGU- -5'
11568 3' -55.2 NC_003085.1 + 37878 0.69 0.527687
Target:  5'- gACGUcgGA--GGUGCugGUGGGCACCAc -3'
miRNA:   3'- gUGCAuaCUggUCAUG--CGCCCGUGGU- -5'
11568 3' -55.2 NC_003085.1 + 29296 0.69 0.517022
Target:  5'- aCGCGUAcaccucggccaUGGCCAGcgcuaUugGacaGGGCACCGc -3'
miRNA:   3'- -GUGCAU-----------ACUGGUC-----AugCg--CCCGUGGU- -5'
11568 3' -55.2 NC_003085.1 + 25002 0.69 0.495962
Target:  5'- aCACGUccgcgGugCAGaagGCGCcgcuGGGCACCAu -3'
miRNA:   3'- -GUGCAua---CugGUCa--UGCG----CCCGUGGU- -5'
11568 3' -55.2 NC_003085.1 + 15367 0.7 0.425634
Target:  5'- gACGccccgGGCCAGcaugACGCGGGCGCg- -3'
miRNA:   3'- gUGCaua--CUGGUCa---UGCGCCCGUGgu -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.