miRNA display CGI


Results 1 - 20 of 22 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
22635 3' -56.8 NC_005091.1 + 34375 0.66 0.643767
Target:  5'- cCGcGUCGaAGCGUGg-GCGUGUCGAGu -3'
miRNA:   3'- aGCuCGGC-UCGCACgaCGUACGGUUC- -5'
22635 3' -56.8 NC_005091.1 + 50377 0.66 0.643767
Target:  5'- gCGGGCCGccaAGCGUcGCgcgaUGC-UGUCAAGa -3'
miRNA:   3'- aGCUCGGC---UCGCA-CG----ACGuACGGUUC- -5'
22635 3' -56.8 NC_005091.1 + 5904 0.66 0.632794
Target:  5'- cCGcuUCGAGcCGUGCUGCGUagacGCUGAGg -3'
miRNA:   3'- aGCucGGCUC-GCACGACGUA----CGGUUC- -5'
22635 3' -56.8 NC_005091.1 + 25520 0.67 0.578103
Target:  5'- ---cGCCGAGC-UGUUGCGcgaaGCCGAGa -3'
miRNA:   3'- agcuCGGCUCGcACGACGUa---CGGUUC- -5'
22635 3' -56.8 NC_005091.1 + 18105 0.67 0.578103
Target:  5'- cUCGAuGCCGAGC-UGCgGCAcGCUGAu -3'
miRNA:   3'- -AGCU-CGGCUCGcACGaCGUaCGGUUc -5'
22635 3' -56.8 NC_005091.1 + 710 0.67 0.567263
Target:  5'- gUCGAuGuCCGGGC-UGCUGCGUgagGUCGAGc -3'
miRNA:   3'- -AGCU-C-GGCUCGcACGACGUA---CGGUUC- -5'
22635 3' -56.8 NC_005091.1 + 44722 0.67 0.54575
Target:  5'- gUCG-GCCGAGUGcuucggcuucguUGCUGCcuUGCCGc- -3'
miRNA:   3'- -AGCuCGGCUCGC------------ACGACGu-ACGGUuc -5'
22635 3' -56.8 NC_005091.1 + 56490 0.67 0.54575
Target:  5'- -gGAGCCGAGCGuUGa-GCcuUGCCAGa -3'
miRNA:   3'- agCUCGGCUCGC-ACgaCGu-ACGGUUc -5'
22635 3' -56.8 NC_005091.1 + 6580 0.67 0.53509
Target:  5'- aUCGAGUCGGGCG-GCaccaugcggaUGCGUucGCCAu- -3'
miRNA:   3'- -AGCUCGGCUCGCaCG----------ACGUA--CGGUuc -5'
22635 3' -56.8 NC_005091.1 + 22947 0.67 0.520292
Target:  5'- aUGGGCgaCGAGCGUGCaGCAaucgaauauggcgGCCGAGc -3'
miRNA:   3'- aGCUCG--GCUCGCACGaCGUa------------CGGUUC- -5'
22635 3' -56.8 NC_005091.1 + 1399 0.68 0.503581
Target:  5'- uUCGcGCCGA-UGgGCgGCAUGCCGAGc -3'
miRNA:   3'- -AGCuCGGCUcGCaCGaCGUACGGUUC- -5'
22635 3' -56.8 NC_005091.1 + 57108 0.69 0.413639
Target:  5'- gCG-GCCGAGCG-GCUGUAUaucgaacGCCAGc -3'
miRNA:   3'- aGCuCGGCUCGCaCGACGUA-------CGGUUc -5'
22635 3' -56.8 NC_005091.1 + 14505 0.7 0.396132
Target:  5'- gUCGGugcGCCGguaAGCGUGCcGCucgAUGCCGGGg -3'
miRNA:   3'- -AGCU---CGGC---UCGCACGaCG---UACGGUUC- -5'
22635 3' -56.8 NC_005091.1 + 36302 0.7 0.396132
Target:  5'- aCGcaauGCgCGAGCGUcGCgGCGUGCCGAc -3'
miRNA:   3'- aGCu---CG-GCUCGCA-CGaCGUACGGUUc -5'
22635 3' -56.8 NC_005091.1 + 11578 0.7 0.390704
Target:  5'- aUCGAGCUG-GCGcuucgGCUGUccguacguguucuucGUGCCGGGg -3'
miRNA:   3'- -AGCUCGGCuCGCa----CGACG---------------UACGGUUC- -5'
22635 3' -56.8 NC_005091.1 + 14241 0.71 0.344087
Target:  5'- gUCGAGCCGccuuGCGUGUcGUAcGCCGAc -3'
miRNA:   3'- -AGCUCGGCu---CGCACGaCGUaCGGUUc -5'
22635 3' -56.8 NC_005091.1 + 46536 0.71 0.341617
Target:  5'- aCGGcuuGUCGAGCGUcGCcuucuugaucgccuUGCAUGCCGAGu -3'
miRNA:   3'- aGCU---CGGCUCGCA-CG--------------ACGUACGGUUC- -5'
22635 3' -56.8 NC_005091.1 + 29871 0.71 0.335905
Target:  5'- cCGAGCCGu-CGcGCUGCAaugugaUGCCGAGu -3'
miRNA:   3'- aGCUCGGCucGCaCGACGU------ACGGUUC- -5'
22635 3' -56.8 NC_005091.1 + 18171 0.71 0.323112
Target:  5'- aUCGAGCgUGAGCGUGaaccgcuucaacgGCGUGCCGu- -3'
miRNA:   3'- -AGCUCG-GCUCGCACga-----------CGUACGGUuc -5'
22635 3' -56.8 NC_005091.1 + 12981 0.72 0.275602
Target:  5'- cCGGGCCGAGCG-GCguauUGCcUGCCGc- -3'
miRNA:   3'- aGCUCGGCUCGCaCG----ACGuACGGUuc -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.