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
20828 3' -59.3 NC_004689.1 + 20846 0.66 0.587734
Target:  5'- uUCCACCGuc-ACCgGAGuuGCGCAgCg -3'
miRNA:   3'- cAGGUGGCuccUGG-UUCggCGCGUgG- -5'
20828 3' -59.3 NC_004689.1 + 21653 0.66 0.586691
Target:  5'- gGUCCACCGGGGAgCGugauGCCcuuggacGCGaggaACUg -3'
miRNA:   3'- -CAGGUGGCUCCUgGUu---CGG-------CGCg---UGG- -5'
20828 3' -59.3 NC_004689.1 + 30769 0.66 0.577315
Target:  5'- -gUCACCGAGGAUCGAGUU-UGC-CCg -3'
miRNA:   3'- caGGUGGCUCCUGGUUCGGcGCGuGG- -5'
20828 3' -59.3 NC_004689.1 + 31885 0.66 0.577315
Target:  5'- -gCCACCGGGGcCCAcuuGCCcuGUGCGgCu -3'
miRNA:   3'- caGGUGGCUCCuGGUu--CGG--CGCGUgG- -5'
20828 3' -59.3 NC_004689.1 + 42350 0.66 0.566936
Target:  5'- -gCCACCaGGGGACCGuaCUGCGgGCa -3'
miRNA:   3'- caGGUGG-CUCCUGGUucGGCGCgUGg -5'
20828 3' -59.3 NC_004689.1 + 11152 0.66 0.566936
Target:  5'- --aCGCUGuuGGACCuuGGCCGCGUcgggguugGCCg -3'
miRNA:   3'- cagGUGGCu-CCUGGu-UCGGCGCG--------UGG- -5'
20828 3' -59.3 NC_004689.1 + 56765 0.66 0.546331
Target:  5'- uUCCACgCGA-GACCAcuugcgcaucaAGCCGauuGCGCCc -3'
miRNA:   3'- cAGGUG-GCUcCUGGU-----------UCGGCg--CGUGG- -5'
20828 3' -59.3 NC_004689.1 + 3743 0.66 0.545307
Target:  5'- aGUCCugCGAcGGguuguaaACCAGuUCGCGCACa -3'
miRNA:   3'- -CAGGugGCU-CC-------UGGUUcGGCGCGUGg -5'
20828 3' -59.3 NC_004689.1 + 41168 0.67 0.5351
Target:  5'- uUCCAUCGAGGcgacacgACCA--CCGCGCAg- -3'
miRNA:   3'- cAGGUGGCUCC-------UGGUucGGCGCGUgg -5'
20828 3' -59.3 NC_004689.1 + 38127 0.67 0.515898
Target:  5'- ---gACCGAGGACU--GCCGguaaCGCGCCc -3'
miRNA:   3'- caggUGGCUCCUGGuuCGGC----GCGUGG- -5'
20828 3' -59.3 NC_004689.1 + 35035 0.67 0.505904
Target:  5'- -aCCGCCugcaACCAucuGGUCGCGCGCCa -3'
miRNA:   3'- caGGUGGcuccUGGU---UCGGCGCGUGG- -5'
20828 3' -59.3 NC_004689.1 + 58508 0.67 0.505904
Target:  5'- uUCCAUgGAcGGcauuUCGAGCuUGCGCACCg -3'
miRNA:   3'- cAGGUGgCU-CCu---GGUUCG-GCGCGUGG- -5'
20828 3' -59.3 NC_004689.1 + 6582 0.68 0.466812
Target:  5'- --aUACCGAaGACCAGGCCGagaaugagaaGCACUa -3'
miRNA:   3'- cagGUGGCUcCUGGUUCGGCg---------CGUGG- -5'
20828 3' -59.3 NC_004689.1 + 38639 0.68 0.466812
Target:  5'- -gCCGCUGAGaGCCGGuGCauuucgaGCGCGCCu -3'
miRNA:   3'- caGGUGGCUCcUGGUU-CGg------CGCGUGG- -5'
20828 3' -59.3 NC_004689.1 + 26012 0.68 0.447858
Target:  5'- uGUCUugCGAuagcgugucGGAUCAgcauugcccAGCCGUGCGCUc -3'
miRNA:   3'- -CAGGugGCU---------CCUGGU---------UCGGCGCGUGG- -5'
20828 3' -59.3 NC_004689.1 + 20928 0.68 0.438543
Target:  5'- -aCCACCG-GGACCGAcGCgUGCGaaaucaGCCg -3'
miRNA:   3'- caGGUGGCuCCUGGUU-CG-GCGCg-----UGG- -5'
20828 3' -59.3 NC_004689.1 + 6665 0.68 0.43577
Target:  5'- uUCCGuuGAagGGACCGGuGCCGgaacuguagaagauCGCACCg -3'
miRNA:   3'- cAGGUggCU--CCUGGUU-CGGC--------------GCGUGG- -5'
20828 3' -59.3 NC_004689.1 + 59120 0.69 0.42025
Target:  5'- cGUCCguguGCgGAGcGugUAcGUCGCGCACCu -3'
miRNA:   3'- -CAGG----UGgCUC-CugGUuCGGCGCGUGG- -5'
20828 3' -59.3 NC_004689.1 + 11940 0.7 0.351933
Target:  5'- -gCCGCCGAGaGAaccCCAcGCCGuCGCGCg -3'
miRNA:   3'- caGGUGGCUC-CU---GGUuCGGC-GCGUGg -5'
20828 3' -59.3 NC_004689.1 + 62024 0.71 0.291869
Target:  5'- --gCACU--GGACUAGGCCGaCGCACCa -3'
miRNA:   3'- cagGUGGcuCCUGGUUCGGC-GCGUGG- -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.