miRNA display CGI


Results 1 - 20 of 42 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
23213 3' -60.3 NC_005259.1 + 1423 0.66 0.477879
Target:  5'- aCGGCauaCGUCGuGCUCGGGCuG-GCAc -3'
miRNA:   3'- -GCCGg--GCGGCuCGAGUUCGuCuCGUc -5'
23213 3' -60.3 NC_005259.1 + 2124 0.68 0.368892
Target:  5'- -cGCUCGCCGAGgUCAcGCAGAcccGCAc -3'
miRNA:   3'- gcCGGGCGGCUCgAGUuCGUCU---CGUc -5'
23213 3' -60.3 NC_005259.1 + 4755 0.79 0.06311
Target:  5'- cCGGUCCcucggGCCGGGCUCAAGCAGAuccGCAa -3'
miRNA:   3'- -GCCGGG-----CGGCUCGAGUUCGUCU---CGUc -5'
23213 3' -60.3 NC_005259.1 + 4970 0.69 0.306308
Target:  5'- cCGGUauCCGCCGAGUUCGgccgauGGCcGGGCAc -3'
miRNA:   3'- -GCCG--GGCGGCUCGAGU------UCGuCUCGUc -5'
23213 3' -60.3 NC_005259.1 + 7025 0.66 0.517627
Target:  5'- --cCCCGCCGAGCgccCcGGCGGGGUu- -3'
miRNA:   3'- gccGGGCGGCUCGa--GuUCGUCUCGuc -5'
23213 3' -60.3 NC_005259.1 + 7779 0.66 0.517627
Target:  5'- --cCCCGCCGAGCgccCcGGCGGGGUu- -3'
miRNA:   3'- gccGGGCGGCUCGa--GuUCGUCUCGuc -5'
23213 3' -60.3 NC_005259.1 + 10329 0.69 0.306308
Target:  5'- gGGCUCGgcgaCGGGCUCG-GCGGcAGCGGg -3'
miRNA:   3'- gCCGGGCg---GCUCGAGUuCGUC-UCGUC- -5'
23213 3' -60.3 NC_005259.1 + 14980 0.67 0.430424
Target:  5'- aGG-CCGCCGGGUaCAAGaCAcAGCAGg -3'
miRNA:   3'- gCCgGGCGGCUCGaGUUC-GUcUCGUC- -5'
23213 3' -60.3 NC_005259.1 + 17761 0.68 0.360608
Target:  5'- aGGCCgccgcgCGCCGGGC-CGAGCGcaccGAGCGu -3'
miRNA:   3'- gCCGG------GCGGCUCGaGUUCGU----CUCGUc -5'
23213 3' -60.3 NC_005259.1 + 18522 0.7 0.299082
Target:  5'- -uGCCCGCCGAuuUCGgcaaGGCAGAGCc- -3'
miRNA:   3'- gcCGGGCGGCUcgAGU----UCGUCUCGuc -5'
23213 3' -60.3 NC_005259.1 + 18768 0.68 0.352454
Target:  5'- uGGCCUGCCacaucgcGGUgggCAAGCGGuGGCAGg -3'
miRNA:   3'- gCCGGGCGGc------UCGa--GUUCGUC-UCGUC- -5'
23213 3' -60.3 NC_005259.1 + 23648 0.72 0.200458
Target:  5'- uCGGCCCGCCGAcggcgacgGCUggaccgccgacccCGAGCAGGcgcacGCAGa -3'
miRNA:   3'- -GCCGGGCGGCU--------CGA-------------GUUCGUCU-----CGUC- -5'
23213 3' -60.3 NC_005259.1 + 25957 0.69 0.344431
Target:  5'- cCGGCCCGCCGAcgccuGCgauGAGaCcGGGCAGc -3'
miRNA:   3'- -GCCGGGCGGCU-----CGag-UUC-GuCUCGUC- -5'
23213 3' -60.3 NC_005259.1 + 26435 0.66 0.517627
Target:  5'- -cGCaCCGCCGAGCgggCGGGCcgguGGGCc- -3'
miRNA:   3'- gcCG-GGCGGCUCGa--GUUCGu---CUCGuc -5'
23213 3' -60.3 NC_005259.1 + 29947 0.68 0.352454
Target:  5'- gCGGCCCgGUCGcGGCU--GGUGGGGCGGg -3'
miRNA:   3'- -GCCGGG-CGGC-UCGAguUCGUCUCGUC- -5'
23213 3' -60.3 NC_005259.1 + 33100 0.67 0.439696
Target:  5'- aGGCCCG-CGAGCgugCcuGUAGGGCc- -3'
miRNA:   3'- gCCGGGCgGCUCGa--GuuCGUCUCGuc -5'
23213 3' -60.3 NC_005259.1 + 33384 0.7 0.299082
Target:  5'- cCGGUCCGCCGAGCgcgaCGAGCcGuGUc- -3'
miRNA:   3'- -GCCGGGCGGCUCGa---GUUCGuCuCGuc -5'
23213 3' -60.3 NC_005259.1 + 37301 0.67 0.449081
Target:  5'- gGuGCCCGCCGGG-UCA-GCAGA-CAGc -3'
miRNA:   3'- gC-CGGGCGGCUCgAGUuCGUCUcGUC- -5'
23213 3' -60.3 NC_005259.1 + 39791 0.73 0.172064
Target:  5'- uCGGUgCGCCGAGCUCAAGCcGAa--- -3'
miRNA:   3'- -GCCGgGCGGCUCGAGUUCGuCUcguc -5'
23213 3' -60.3 NC_005259.1 + 41646 0.66 0.468176
Target:  5'- cCGGUCUGCgGGcGCUC--GguGAGCGGg -3'
miRNA:   3'- -GCCGGGCGgCU-CGAGuuCguCUCGUC- -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.