miRNA display CGI


Results 1 - 19 of 19 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
7247 5' -55.4 NC_001900.1 + 39304 0.66 0.67352
Target:  5'- cGCGCCGagcCCGUGGGgGUCGCu----- -3'
miRNA:   3'- uUGCGGU---GGCAUCCgUAGCGcuuguc -5'
7247 5' -55.4 NC_001900.1 + 29828 0.66 0.67352
Target:  5'- uGugGUCcCCGaAGGCAgCGCGAGCu- -3'
miRNA:   3'- -UugCGGuGGCaUCCGUaGCGCUUGuc -5'
7247 5' -55.4 NC_001900.1 + 28046 0.66 0.67352
Target:  5'- -cCGCCACCGUcacAGGC--CGUGAGgccCAGg -3'
miRNA:   3'- uuGCGGUGGCA---UCCGuaGCGCUU---GUC- -5'
7247 5' -55.4 NC_001900.1 + 7678 0.66 0.67352
Target:  5'- gGGCGUCACCGUacgugaccuAGGCucUCGCGucuGCu- -3'
miRNA:   3'- -UUGCGGUGGCA---------UCCGu-AGCGCu--UGuc -5'
7247 5' -55.4 NC_001900.1 + 44295 0.66 0.662381
Target:  5'- gAACGCCccGCCGUAGccguaccuguuGCcagCGCGAGCGc -3'
miRNA:   3'- -UUGCGG--UGGCAUC-----------CGua-GCGCUUGUc -5'
7247 5' -55.4 NC_001900.1 + 48494 0.66 0.628832
Target:  5'- uGCGCCGCCcgaaacGgcGGCGuauUCGCGAugucGCGGc -3'
miRNA:   3'- uUGCGGUGG------CauCCGU---AGCGCU----UGUC- -5'
7247 5' -55.4 NC_001900.1 + 39445 0.66 0.627712
Target:  5'- cGugGCgCACCGUGGGCcgggauacuuggcGUCccguGUGAGCGGc -3'
miRNA:   3'- -UugCG-GUGGCAUCCG-------------UAG----CGCUUGUC- -5'
7247 5' -55.4 NC_001900.1 + 33643 0.68 0.551099
Target:  5'- cACGCCcUCGUAGGCGUC-CGggUc- -3'
miRNA:   3'- uUGCGGuGGCAUCCGUAGcGCuuGuc -5'
7247 5' -55.4 NC_001900.1 + 10001 0.68 0.540192
Target:  5'- uGACaGCCACC---GGCAUCGCGGAgGu -3'
miRNA:   3'- -UUG-CGGUGGcauCCGUAGCGCUUgUc -5'
7247 5' -55.4 NC_001900.1 + 25482 0.68 0.507942
Target:  5'- uGAUGCCgACCGUAGGCgcguuGUCGuUGAcgcGCAGc -3'
miRNA:   3'- -UUGCGG-UGGCAUCCG-----UAGC-GCU---UGUC- -5'
7247 5' -55.4 NC_001900.1 + 11999 0.69 0.476535
Target:  5'- --gGCCACCGUGgcGGCGUCcggGUGAcGCAGa -3'
miRNA:   3'- uugCGGUGGCAU--CCGUAG---CGCU-UGUC- -5'
7247 5' -55.4 NC_001900.1 + 572 0.69 0.46628
Target:  5'- uACGCCGCCGUuucGGGCggCGCacuGCAc -3'
miRNA:   3'- uUGCGGUGGCA---UCCGuaGCGcu-UGUc -5'
7247 5' -55.4 NC_001900.1 + 2698 0.69 0.446122
Target:  5'- cAACGCCAgCGgccagAGGCuUCGCGAcgacuggcGCGGc -3'
miRNA:   3'- -UUGCGGUgGCa----UCCGuAGCGCU--------UGUC- -5'
7247 5' -55.4 NC_001900.1 + 11486 0.7 0.388728
Target:  5'- gAGCGCCugUGgGGGCAcCGCGA-CGGu -3'
miRNA:   3'- -UUGCGGugGCaUCCGUaGCGCUuGUC- -5'
7247 5' -55.4 NC_001900.1 + 41989 0.71 0.361905
Target:  5'- cAUGUCACCGUcguGGGCGuagUCGCGGACc- -3'
miRNA:   3'- uUGCGGUGGCA---UCCGU---AGCGCUUGuc -5'
7247 5' -55.4 NC_001900.1 + 14440 0.71 0.353255
Target:  5'- cACGCC-CCGUccGGGUucuUCGCGGGCAc -3'
miRNA:   3'- uUGCGGuGGCA--UCCGu--AGCGCUUGUc -5'
7247 5' -55.4 NC_001900.1 + 43827 0.76 0.174388
Target:  5'- gAACGCCGCUucuGGCGUCGgGAACGGc -3'
miRNA:   3'- -UUGCGGUGGcauCCGUAGCgCUUGUC- -5'
7247 5' -55.4 NC_001900.1 + 2625 0.77 0.143469
Target:  5'- cAACGCCACCcUGGGCGUCGUuaAGCGGg -3'
miRNA:   3'- -UUGCGGUGGcAUCCGUAGCGc-UUGUC- -5'
7247 5' -55.4 NC_001900.1 + 1709 1.05 0.001343
Target:  5'- cAACGCCACCGUAGGCAUCGCGAACAGc -3'
miRNA:   3'- -UUGCGGUGGCAUCCGUAGCGCUUGUC- -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.