miRNA display CGI


Results 1 - 20 of 67 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
3120 5' -57.5 NC_001493.1 + 113301 1.11 0.001467
Target:  5'- cUCCCAAGGUCCACAGGGAGGACACGGg -3'
miRNA:   3'- -AGGGUUCCAGGUGUCCCUCCUGUGCC- -5'
3120 5' -57.5 NC_001493.1 + 28071 0.78 0.232842
Target:  5'- gCUCGGGGagUCACAGGGAGGACuauCGGa -3'
miRNA:   3'- aGGGUUCCa-GGUGUCCCUCCUGu--GCC- -5'
3120 5' -57.5 NC_001493.1 + 38388 0.75 0.35259
Target:  5'- cUCCCAuGGaCCACcGGGAGGAgCACGa -3'
miRNA:   3'- -AGGGUuCCaGGUGuCCCUCCU-GUGCc -5'
3120 5' -57.5 NC_001493.1 + 87231 0.75 0.360389
Target:  5'- aCUCGggGGGUCCaacGCGGGGGGGAUAuCGGa -3'
miRNA:   3'- aGGGU--UCCAGG---UGUCCCUCCUGU-GCC- -5'
3120 5' -57.5 NC_001493.1 + 87572 0.74 0.401153
Target:  5'- cUCCCGgggcgcucauGGGUUC-CGGGGGGGACACu- -3'
miRNA:   3'- -AGGGU----------UCCAGGuGUCCCUCCUGUGcc -5'
3120 5' -57.5 NC_001493.1 + 81079 0.74 0.409651
Target:  5'- cUCCCAcAGGUCCACGcuccGGGGGACG-GGa -3'
miRNA:   3'- -AGGGU-UCCAGGUGUc---CCUCCUGUgCC- -5'
3120 5' -57.5 NC_001493.1 + 50643 0.73 0.444734
Target:  5'- cUCCUucucGGGUCUcCGGGGAGGucCGCGGu -3'
miRNA:   3'- -AGGGu---UCCAGGuGUCCCUCCu-GUGCC- -5'
3120 5' -57.5 NC_001493.1 + 117104 0.72 0.490844
Target:  5'- cUCCAAaGaaUCCGCgaagGGGGAGGACGCGGc -3'
miRNA:   3'- aGGGUUcC--AGGUG----UCCCUCCUGUGCC- -5'
3120 5' -57.5 NC_001493.1 + 1549 0.72 0.490844
Target:  5'- cUCCAAaGaaUCCGCgaagGGGGAGGACGCGGc -3'
miRNA:   3'- aGGGUUcC--AGGUG----UCCCUCCUGUGCC- -5'
3120 5' -57.5 NC_001493.1 + 110591 0.72 0.519551
Target:  5'- aCCCGAGGUgcucgCCGCGauguguggcGGGGGGugGCGa -3'
miRNA:   3'- aGGGUUCCA-----GGUGU---------CCCUCCugUGCc -5'
3120 5' -57.5 NC_001493.1 + 89545 0.71 0.568744
Target:  5'- cCCCGgauGGuuGUCCugAGGGAGcGCGCGGc -3'
miRNA:   3'- aGGGU---UC--CAGGugUCCCUCcUGUGCC- -5'
3120 5' -57.5 NC_001493.1 + 14925 0.71 0.578736
Target:  5'- aCCCGGcGGUCCgccccauggggGCAGGGGGGAa--GGg -3'
miRNA:   3'- aGGGUU-CCAGG-----------UGUCCCUCCUgugCC- -5'
3120 5' -57.5 NC_001493.1 + 130479 0.71 0.578736
Target:  5'- aCCCGGcGGUCCgccccauggggGCAGGGGGGAa--GGg -3'
miRNA:   3'- aGGGUU-CCAGG-----------UGUCCCUCCUgugCC- -5'
3120 5' -57.5 NC_001493.1 + 10787 0.7 0.608911
Target:  5'- gUCCCGAGaGUCUcgACcGcGGAGGACcCGGa -3'
miRNA:   3'- -AGGGUUC-CAGG--UGuC-CCUCCUGuGCC- -5'
3120 5' -57.5 NC_001493.1 + 126341 0.7 0.608911
Target:  5'- gUCCCGAGaGUCUcgACcGcGGAGGACcCGGa -3'
miRNA:   3'- -AGGGUUC-CAGG--UGuC-CCUCCUGuGCC- -5'
3120 5' -57.5 NC_001493.1 + 62627 0.7 0.629124
Target:  5'- gCCCGcGGgagccggCCACGGGcacGGGCACGGg -3'
miRNA:   3'- aGGGUuCCa------GGUGUCCcu-CCUGUGCC- -5'
3120 5' -57.5 NC_001493.1 + 114121 0.7 0.638226
Target:  5'- aCCCAacucgucuugaacGGGaCCAUcuGGGAGGACGCGc -3'
miRNA:   3'- aGGGU-------------UCCaGGUGu-CCCUCCUGUGCc -5'
3120 5' -57.5 NC_001493.1 + 131557 0.7 0.646315
Target:  5'- aCCCAGGGcUCCGucgUAGaGGAGGAUcaccuccuugccuuGCGGg -3'
miRNA:   3'- aGGGUUCC-AGGU---GUC-CCUCCUG--------------UGCC- -5'
3120 5' -57.5 NC_001493.1 + 16003 0.7 0.646315
Target:  5'- aCCCAGGGcUCCGucgUAGaGGAGGAUcaccuccuugccuuGCGGg -3'
miRNA:   3'- aGGGUUCC-AGGU---GUC-CCUCCUG--------------UGCC- -5'
3120 5' -57.5 NC_001493.1 + 121327 0.69 0.669514
Target:  5'- cCCCGAGGUCgGCAuccagcgguguGGGAGGgguguccagcagGCGCGc -3'
miRNA:   3'- aGGGUUCCAGgUGU-----------CCCUCC------------UGUGCc -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.