miRNA display CGI


Results 1 - 20 of 60 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
28037 3' -62.1 NC_005887.1 + 37757 0.66 0.321777
Target:  5'- -gCCCGcccaacuuGCCGuCGUCGUUGCGCg -3'
miRNA:   3'- aaGGGCcgu-----CGGCcGCAGCAACGCGg -5'
28037 3' -62.1 NC_005887.1 + 41193 0.66 0.321777
Target:  5'- -gCCUGGCuGCauccgaccCGcGCGUCGUcGUGCCc -3'
miRNA:   3'- aaGGGCCGuCG--------GC-CGCAGCAaCGCGG- -5'
28037 3' -62.1 NC_005887.1 + 35194 0.66 0.321777
Target:  5'- uUUCCaaCGGCGG--GGCGauUCGUUGCGCa -3'
miRNA:   3'- -AAGG--GCCGUCggCCGC--AGCAACGCGg -5'
28037 3' -62.1 NC_005887.1 + 26419 0.66 0.31413
Target:  5'- --gCUGGCGGCCGcGCGggaacgcgCGcUGCaGCCg -3'
miRNA:   3'- aagGGCCGUCGGC-CGCa-------GCaACG-CGG- -5'
28037 3' -62.1 NC_005887.1 + 1000 0.66 0.31413
Target:  5'- cUUCCCGGCGG-CGcGCGgaUCGUacucaaccgGCGUCa -3'
miRNA:   3'- -AAGGGCCGUCgGC-CGC--AGCAa--------CGCGG- -5'
28037 3' -62.1 NC_005887.1 + 7975 0.66 0.307366
Target:  5'- -gCCCGGCcGCCucugauacgcggGGCGcUCGUcuccagccguggccgGCGCCa -3'
miRNA:   3'- aaGGGCCGuCGG------------CCGC-AGCAa--------------CGCGG- -5'
28037 3' -62.1 NC_005887.1 + 4898 0.66 0.306622
Target:  5'- gUCgCCGagGGCCGGCGcgagguguUCG-UGCGCCu -3'
miRNA:   3'- aAG-GGCcgUCGGCCGC--------AGCaACGCGG- -5'
28037 3' -62.1 NC_005887.1 + 15499 0.66 0.292018
Target:  5'- -gCCCGGCGGCaaCGGCuacCGgcagacGCGCCc -3'
miRNA:   3'- aaGGGCCGUCG--GCCGca-GCaa----CGCGG- -5'
28037 3' -62.1 NC_005887.1 + 5132 0.66 0.292018
Target:  5'- -gCUCGGCAugaccgcgcuGCCcGaCGUCGgcGCGCCg -3'
miRNA:   3'- aaGGGCCGU----------CGGcC-GCAGCaaCGCGG- -5'
28037 3' -62.1 NC_005887.1 + 29363 0.66 0.292018
Target:  5'- -aCCCGGCAGCCG-CGagCGgcaUGC-CCu -3'
miRNA:   3'- aaGGGCCGUCGGCcGCa-GCa--ACGcGG- -5'
28037 3' -62.1 NC_005887.1 + 25224 0.66 0.291303
Target:  5'- -cCuuGcGUAGCuCGGCGUCGUUcagcggauucccgGCGUCg -3'
miRNA:   3'- aaGggC-CGUCG-GCCGCAGCAA-------------CGCGG- -5'
28037 3' -62.1 NC_005887.1 + 792 0.66 0.284923
Target:  5'- gUCUCGGC-GCUGGCugacuucgCGUgcGCGCCg -3'
miRNA:   3'- aAGGGCCGuCGGCCGca------GCAa-CGCGG- -5'
28037 3' -62.1 NC_005887.1 + 40167 0.66 0.284923
Target:  5'- -gCCCGaucaccGCGGCCGGCGUCag-GCcgaaguccauGCCg -3'
miRNA:   3'- aaGGGC------CGUCGGCCGCAGcaaCG----------CGG- -5'
28037 3' -62.1 NC_005887.1 + 22966 0.66 0.284923
Target:  5'- cUCUgCGGCAGCUgcgcgagcauGGCG-CGUUGcCGCUg -3'
miRNA:   3'- aAGG-GCCGUCGG----------CCGCaGCAAC-GCGG- -5'
28037 3' -62.1 NC_005887.1 + 36431 0.66 0.277965
Target:  5'- cUUCCGcGCGGCCGGCuUC-UUGC-CCu -3'
miRNA:   3'- aAGGGC-CGUCGGCCGcAGcAACGcGG- -5'
28037 3' -62.1 NC_005887.1 + 1060 0.66 0.277965
Target:  5'- -gCCCGGCGGCagcaGcGCGcccgugcgcaggUCGacgGCGCCa -3'
miRNA:   3'- aaGGGCCGUCGg---C-CGC------------AGCaa-CGCGG- -5'
28037 3' -62.1 NC_005887.1 + 33095 0.66 0.277965
Target:  5'- aUCCaGGUAGUCGGgGUCGcccggcUUGCGUUc -3'
miRNA:   3'- aAGGgCCGUCGGCCgCAGC------AACGCGG- -5'
28037 3' -62.1 NC_005887.1 + 38466 0.67 0.271143
Target:  5'- -aUCCGGCA--UGGCGUCGUaugccgggcUGcCGCCg -3'
miRNA:   3'- aaGGGCCGUcgGCCGCAGCA---------AC-GCGG- -5'
28037 3' -62.1 NC_005887.1 + 36553 0.67 0.271143
Target:  5'- aUUCCGGCA---GGCGuUCG-UGCGCCu -3'
miRNA:   3'- aAGGGCCGUcggCCGC-AGCaACGCGG- -5'
28037 3' -62.1 NC_005887.1 + 32727 0.67 0.270468
Target:  5'- -aCCCacggcggGGUAGCgCGGCGcucgCGUgcGCGCCg -3'
miRNA:   3'- aaGGG-------CCGUCG-GCCGCa---GCAa-CGCGG- -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.