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
18733 3' -58.3 NC_004682.1 + 6435 0.66 0.584308
Target:  5'- -cCCGUCGuCCGcguagcgGAACCGGgCCUucucuucgCGGa -3'
miRNA:   3'- caGGCAGCuGGCa------CUUGGCC-GGA--------GCC- -5'
18733 3' -58.3 NC_004682.1 + 32945 0.66 0.573768
Target:  5'- cUCgGUCagGACCGaccGGCUGGCCUCGa -3'
miRNA:   3'- cAGgCAG--CUGGCac-UUGGCCGGAGCc -5'
18733 3' -58.3 NC_004682.1 + 37367 0.66 0.573768
Target:  5'- -gCC-UUGGCCGgGAuGCCGGUCUUGGa -3'
miRNA:   3'- caGGcAGCUGGCaCU-UGGCCGGAGCC- -5'
18733 3' -58.3 NC_004682.1 + 48804 0.66 0.563272
Target:  5'- aGUCCGcguggacccUCGACacccUGGACgggugcgccguCGGCCUCGGg -3'
miRNA:   3'- -CAGGC---------AGCUGgc--ACUUG-----------GCCGGAGCC- -5'
18733 3' -58.3 NC_004682.1 + 45590 0.66 0.563272
Target:  5'- -gUCGUCgGACuCGUG-GCCGGUCUgGGc -3'
miRNA:   3'- caGGCAG-CUG-GCACuUGGCCGGAgCC- -5'
18733 3' -58.3 NC_004682.1 + 26000 0.66 0.563272
Target:  5'- cGUCC-UCaGCCGUcgcGAugagGCCGGCgUCGGa -3'
miRNA:   3'- -CAGGcAGcUGGCA---CU----UGGCCGgAGCC- -5'
18733 3' -58.3 NC_004682.1 + 420 0.67 0.512718
Target:  5'- cUUCGagGGCCGgucauacuugacauaGAACCGGCCUCcaGGg -3'
miRNA:   3'- cAGGCagCUGGCa--------------CUUGGCCGGAG--CC- -5'
18733 3' -58.3 NC_004682.1 + 48203 0.67 0.501617
Target:  5'- gGUCCcaugucUCGACCaG-GAcGCCGGCCUCGu -3'
miRNA:   3'- -CAGGc-----AGCUGG-CaCU-UGGCCGGAGCc -5'
18733 3' -58.3 NC_004682.1 + 25851 0.67 0.501617
Target:  5'- -gCCGcUCGuCCGggguGCUGGCCUUGGu -3'
miRNA:   3'- caGGC-AGCuGGCacu-UGGCCGGAGCC- -5'
18733 3' -58.3 NC_004682.1 + 41281 0.68 0.481711
Target:  5'- --gCGUCGAacagCGUcuGGCCGGUCUCGGg -3'
miRNA:   3'- cagGCAGCUg---GCAc-UUGGCCGGAGCC- -5'
18733 3' -58.3 NC_004682.1 + 45675 0.68 0.480726
Target:  5'- -aUCGUCGGCaggaucuCGcGGGCCuuGGCCUCGGa -3'
miRNA:   3'- caGGCAGCUG-------GCaCUUGG--CCGGAGCC- -5'
18733 3' -58.3 NC_004682.1 + 42851 0.68 0.471903
Target:  5'- aUCuCGUCGACCG-GcAGCCaguacgagucGCCUCGGg -3'
miRNA:   3'- cAG-GCAGCUGGCaC-UUGGc---------CGGAGCC- -5'
18733 3' -58.3 NC_004682.1 + 37323 0.68 0.462196
Target:  5'- -cCCGUCGuGCCGacguaccGGACUGGCCUUGc -3'
miRNA:   3'- caGGCAGC-UGGCa------CUUGGCCGGAGCc -5'
18733 3' -58.3 NC_004682.1 + 31198 0.68 0.452596
Target:  5'- cGUCCuccggGUCGACCGUGAugguCaacGUCUCGGu -3'
miRNA:   3'- -CAGG-----CAGCUGGCACUu---Ggc-CGGAGCC- -5'
18733 3' -58.3 NC_004682.1 + 9725 0.68 0.443105
Target:  5'- -cCUGUCGuucUCGUcugaGAAcCCGGCCUCGGc -3'
miRNA:   3'- caGGCAGCu--GGCA----CUU-GGCCGGAGCC- -5'
18733 3' -58.3 NC_004682.1 + 30961 0.68 0.433727
Target:  5'- -cUUGUCGACCuucGGcugGCCGGUCUCGGu -3'
miRNA:   3'- caGGCAGCUGGca-CU---UGGCCGGAGCC- -5'
18733 3' -58.3 NC_004682.1 + 44545 0.69 0.415324
Target:  5'- -gCCGUgGACCGUGAACagccaGcGCUUCGc -3'
miRNA:   3'- caGGCAgCUGGCACUUGg----C-CGGAGCc -5'
18733 3' -58.3 NC_004682.1 + 46461 0.69 0.415324
Target:  5'- cUCCG-CGcCCGUGGcGgCGGCUUCGGu -3'
miRNA:   3'- cAGGCaGCuGGCACU-UgGCCGGAGCC- -5'
18733 3' -58.3 NC_004682.1 + 32722 0.69 0.406304
Target:  5'- uUCUucCGACCca-GACCGGCCUCGGc -3'
miRNA:   3'- cAGGcaGCUGGcacUUGGCCGGAGCC- -5'
18733 3' -58.3 NC_004682.1 + 47595 0.7 0.363102
Target:  5'- -cCCGgagGACgCGcUGGcgACCGGCCUCGGa -3'
miRNA:   3'- caGGCag-CUG-GC-ACU--UGGCCGGAGCC- -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.