miRNA display CGI


Results 1 - 20 of 27 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
5221 3' -57.3 NC_001798.1 + 111654 0.66 0.890786
Target:  5'- cUCGGCG-GGGGGG-CggaagaGACgCUCGGGg -3'
miRNA:   3'- aGGUCGCaCCUCCUaGa-----CUG-GAGCCC- -5'
5221 3' -57.3 NC_001798.1 + 26186 0.66 0.890786
Target:  5'- cCCGGCGcUGGAcggccGGGcCgccGCCUCGGGc -3'
miRNA:   3'- aGGUCGC-ACCU-----CCUaGac-UGGAGCCC- -5'
5221 3' -57.3 NC_001798.1 + 2555 0.66 0.884081
Target:  5'- cCCcGCG-GGAGGggC-GGCCgCGGGg -3'
miRNA:   3'- aGGuCGCaCCUCCuaGaCUGGaGCCC- -5'
5221 3' -57.3 NC_001798.1 + 11657 0.66 0.877162
Target:  5'- cCCGGgG-GcGGGGGUCgGGUCUCGGGg -3'
miRNA:   3'- aGGUCgCaC-CUCCUAGaCUGGAGCCC- -5'
5221 3' -57.3 NC_001798.1 + 42147 0.66 0.877162
Target:  5'- cCCAGgcUGUGGAGGAcgCgGAUCUcccgCGGGg -3'
miRNA:   3'- aGGUC--GCACCUCCUa-GaCUGGA----GCCC- -5'
5221 3' -57.3 NC_001798.1 + 131364 0.66 0.877162
Target:  5'- cCCGGCGcggccucGGGGGAUCcccugggGGCCcggcgucccaUCGGGg -3'
miRNA:   3'- aGGUCGCa------CCUCCUAGa------CUGG----------AGCCC- -5'
5221 3' -57.3 NC_001798.1 + 64123 0.66 0.870033
Target:  5'- cCCGacGCGUGGguaucuagGGGGUCgGugCUCGcGGg -3'
miRNA:   3'- aGGU--CGCACC--------UCCUAGaCugGAGC-CC- -5'
5221 3' -57.3 NC_001798.1 + 12579 0.67 0.847436
Target:  5'- cCCGGaUGUGGGGGAgacguaGGCgCUUGGGg -3'
miRNA:   3'- aGGUC-GCACCUCCUaga---CUG-GAGCCC- -5'
5221 3' -57.3 NC_001798.1 + 31803 0.67 0.847436
Target:  5'- cCgGGCGcGGAGGGag-GACC-CGGGg -3'
miRNA:   3'- aGgUCGCaCCUCCUagaCUGGaGCCC- -5'
5221 3' -57.3 NC_001798.1 + 133757 0.67 0.846653
Target:  5'- gCCcGCGUGGGGGcgCUGcuugcgcacgcacGCCUCcGGc -3'
miRNA:   3'- aGGuCGCACCUCCuaGAC-------------UGGAGcCC- -5'
5221 3' -57.3 NC_001798.1 + 30756 0.67 0.831423
Target:  5'- aCCcGCGUGGAGGccgaggcGGCCgugCGGGc -3'
miRNA:   3'- aGGuCGCACCUCCuaga---CUGGa--GCCC- -5'
5221 3' -57.3 NC_001798.1 + 50572 0.67 0.831423
Target:  5'- -gCGGgGUGGGGGGUgUGuGCCgUUGGGu -3'
miRNA:   3'- agGUCgCACCUCCUAgAC-UGG-AGCCC- -5'
5221 3' -57.3 NC_001798.1 + 39464 0.67 0.823151
Target:  5'- aUCAGCGgagGGGGGGcCUGgcgcguGCCUCGuGGc -3'
miRNA:   3'- aGGUCGCa--CCUCCUaGAC------UGGAGC-CC- -5'
5221 3' -57.3 NC_001798.1 + 131447 0.68 0.809573
Target:  5'- gCUGGCGcggaugcuuuacggGGGGGAUUUGGCCgagUGGGu -3'
miRNA:   3'- aGGUCGCa-------------CCUCCUAGACUGGa--GCCC- -5'
5221 3' -57.3 NC_001798.1 + 12762 0.68 0.805247
Target:  5'- gCCAGUuugGGGGGAUCUGcgaagacACCgucccggCGGGa -3'
miRNA:   3'- aGGUCGca-CCUCCUAGAC-------UGGa------GCCC- -5'
5221 3' -57.3 NC_001798.1 + 102412 0.68 0.797366
Target:  5'- aCCAGCGcGGc-GAUCUgGGCCUCcaGGGg -3'
miRNA:   3'- aGGUCGCaCCucCUAGA-CUGGAG--CCC- -5'
5221 3' -57.3 NC_001798.1 + 78560 0.68 0.795599
Target:  5'- gCCuGCG-GGAGGcgCUGGCCgcgcgcgagcgcCGGGc -3'
miRNA:   3'- aGGuCGCaCCUCCuaGACUGGa-----------GCCC- -5'
5221 3' -57.3 NC_001798.1 + 9090 0.69 0.749746
Target:  5'- -aCGGCGUGGAGGGccacgggaaaGGCCgCGGGg -3'
miRNA:   3'- agGUCGCACCUCCUaga-------CUGGaGCCC- -5'
5221 3' -57.3 NC_001798.1 + 59852 0.69 0.732574
Target:  5'- gUCCGGCucggaGGAGGAgucCUGGCUguggUCGGGc -3'
miRNA:   3'- -AGGUCGca---CCUCCUa--GACUGG----AGCCC- -5'
5221 3' -57.3 NC_001798.1 + 35802 0.69 0.732574
Target:  5'- gUCgGGCGgcgGGGGGGg--GGCgUCGGGa -3'
miRNA:   3'- -AGgUCGCa--CCUCCUagaCUGgAGCCC- -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.