miRNA display CGI


Results 1 - 18 of 18 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
7289 3' -58 NC_001900.1 + 44174 0.66 0.557811
Target:  5'- aGUUCCACAgggUCGAGGAa-GGCAuCGCGc -3'
miRNA:   3'- -CGGGGUGU---AGCUCCUcaCCGU-GCGUc -5'
7289 3' -58 NC_001900.1 + 17140 0.66 0.557811
Target:  5'- gGCCagucuggaACGUCGAGGAGacggcggucuUGGCcgcuuccaGCGCGGg -3'
miRNA:   3'- -CGGgg------UGUAGCUCCUC----------ACCG--------UGCGUC- -5'
7289 3' -58 NC_001900.1 + 6466 0.66 0.526017
Target:  5'- cGCCCCugGUgaccugauccacCGGGGAgGUGGUcaGCGUg- -3'
miRNA:   3'- -CGGGGugUA------------GCUCCU-CACCG--UGCGuc -5'
7289 3' -58 NC_001900.1 + 564 0.66 0.515567
Target:  5'- gGCCgCAgAUCGGGGAucucGUACGCGGa -3'
miRNA:   3'- -CGGgGUgUAGCUCCUcac-CGUGCGUC- -5'
7289 3' -58 NC_001900.1 + 3768 0.67 0.484751
Target:  5'- uCUCCACGUCGAccccgaGGAGcUGGUcgaACGCAu -3'
miRNA:   3'- cGGGGUGUAGCU------CCUC-ACCG---UGCGUc -5'
7289 3' -58 NC_001900.1 + 25979 0.67 0.474675
Target:  5'- aGCCCuCACAcCgGAGGAGcUGG-ACGUAGu -3'
miRNA:   3'- -CGGG-GUGUaG-CUCCUC-ACCgUGCGUC- -5'
7289 3' -58 NC_001900.1 + 40740 0.67 0.474675
Target:  5'- aGCUgCACcgUGcggacuGGGAGUGGCACgGCAa -3'
miRNA:   3'- -CGGgGUGuaGC------UCCUCACCGUG-CGUc -5'
7289 3' -58 NC_001900.1 + 40208 0.67 0.474674
Target:  5'- cGCCCCcCAUCGA---GUGGCcCGCGa -3'
miRNA:   3'- -CGGGGuGUAGCUccuCACCGuGCGUc -5'
7289 3' -58 NC_001900.1 + 12777 0.67 0.464703
Target:  5'- aGCgaCCACGUCGuGGAG-GGCAC-CAc -3'
miRNA:   3'- -CGg-GGUGUAGCuCCUCaCCGUGcGUc -5'
7289 3' -58 NC_001900.1 + 23614 0.67 0.454843
Target:  5'- gGgUCUAUGUCGAGGucGGUGGCgcgaaccucGCGCAGu -3'
miRNA:   3'- -CgGGGUGUAGCUCC--UCACCG---------UGCGUC- -5'
7289 3' -58 NC_001900.1 + 24801 0.67 0.445097
Target:  5'- aGCCaCCuucUCGGGcGGUGGCACGCu- -3'
miRNA:   3'- -CGG-GGuguAGCUCcUCACCGUGCGuc -5'
7289 3' -58 NC_001900.1 + 5989 0.68 0.389206
Target:  5'- cGCCCgcUACGUCGAGGAaucGGCGCGa-- -3'
miRNA:   3'- -CGGG--GUGUAGCUCCUca-CCGUGCguc -5'
7289 3' -58 NC_001900.1 + 10699 0.69 0.380348
Target:  5'- cGCCCagcucucucCAUCGcGGAGUGGC-UGCGGc -3'
miRNA:   3'- -CGGGgu-------GUAGCuCCUCACCGuGCGUC- -5'
7289 3' -58 NC_001900.1 + 33867 0.69 0.346285
Target:  5'- -aCCUugGUCGAGGccGUGGC-CGCAc -3'
miRNA:   3'- cgGGGugUAGCUCCu-CACCGuGCGUc -5'
7289 3' -58 NC_001900.1 + 17863 0.7 0.330092
Target:  5'- uGCCCCAgAUCGGGGAagcGUucGGCcagauCGUAGg -3'
miRNA:   3'- -CGGGGUgUAGCUCCU---CA--CCGu----GCGUC- -5'
7289 3' -58 NC_001900.1 + 27777 0.7 0.322207
Target:  5'- cGCCCCAgagaGUCGGcGAG-GGCACGUAc -3'
miRNA:   3'- -CGGGGUg---UAGCUcCUCaCCGUGCGUc -5'
7289 3' -58 NC_001900.1 + 32598 0.74 0.173812
Target:  5'- uGgCCCACGUCGAGGAuGUGGUugAgGUAGu -3'
miRNA:   3'- -CgGGGUGUAGCUCCU-CACCG--UgCGUC- -5'
7289 3' -58 NC_001900.1 + 11218 1.11 0.000326
Target:  5'- aGCCCCACAUCGAGGAGUGGCACGCAGg -3'
miRNA:   3'- -CGGGGUGUAGCUCCUCACCGUGCGUC- -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.