miRNA display CGI


Results 1 - 20 of 54 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
23904 3' -54.4 NC_005262.1 + 44479 1.11 0.001279
Target:  5'- uCCGAGACACCUUCACUCGCAUCGCCGa -3'
miRNA:   3'- -GGCUCUGUGGAAGUGAGCGUAGCGGC- -5'
23904 3' -54.4 NC_005262.1 + 38910 0.77 0.268768
Target:  5'- gCCGAGcuCGCCUUCACgCGCcggcggaugcacAUCGCCGa -3'
miRNA:   3'- -GGCUCu-GUGGAAGUGaGCG------------UAGCGGC- -5'
23904 3' -54.4 NC_005262.1 + 4425 0.75 0.351168
Target:  5'- gCGAG-CGCCUggaGCUCgGCGUUGCCGg -3'
miRNA:   3'- gGCUCuGUGGAag-UGAG-CGUAGCGGC- -5'
23904 3' -54.4 NC_005262.1 + 20404 0.74 0.376546
Target:  5'- uUGAGcucgcCGCCgaUGCUCGCAUCGCCGa -3'
miRNA:   3'- gGCUCu----GUGGaaGUGAGCGUAGCGGC- -5'
23904 3' -54.4 NC_005262.1 + 36947 0.74 0.376546
Target:  5'- gCCGAGAuCACCa-CGCUCGCGcCGCUGc -3'
miRNA:   3'- -GGCUCU-GUGGaaGUGAGCGUaGCGGC- -5'
23904 3' -54.4 NC_005262.1 + 53588 0.73 0.449982
Target:  5'- gCGAGACggAUgUUCGCaacCGCGUCGCCGc -3'
miRNA:   3'- gGCUCUG--UGgAAGUGa--GCGUAGCGGC- -5'
23904 3' -54.4 NC_005262.1 + 3633 0.72 0.466583
Target:  5'- gCCGAG-CGCCUUCACggcggccggguacuUCGCccaugccuUCGCCGc -3'
miRNA:   3'- -GGCUCuGUGGAAGUG--------------AGCGu-------AGCGGC- -5'
23904 3' -54.4 NC_005262.1 + 59127 0.72 0.479488
Target:  5'- gCCGAGGCgaACCggCcggGC-CGCGUCGCCGc -3'
miRNA:   3'- -GGCUCUG--UGGaaG---UGaGCGUAGCGGC- -5'
23904 3' -54.4 NC_005262.1 + 60495 0.72 0.479488
Target:  5'- gCGAGACGCCgggccgCGCggCGCAggcCGCCa -3'
miRNA:   3'- gGCUCUGUGGaa----GUGa-GCGUa--GCGGc -5'
23904 3' -54.4 NC_005262.1 + 28435 0.72 0.50991
Target:  5'- aUCGGGccGCGCCgugcUCGC-CGUGUCGCCGa -3'
miRNA:   3'- -GGCUC--UGUGGa---AGUGaGCGUAGCGGC- -5'
23904 3' -54.4 NC_005262.1 + 57501 0.71 0.54111
Target:  5'- aCGAGGCGCCgaagUUCAg-CGUcgCGCCGg -3'
miRNA:   3'- gGCUCUGUGG----AAGUgaGCGuaGCGGC- -5'
23904 3' -54.4 NC_005262.1 + 10985 0.71 0.54111
Target:  5'- gCCGGGaACGCCggucgCGCUCGCAcgGCUGa -3'
miRNA:   3'- -GGCUC-UGUGGaa---GUGAGCGUagCGGC- -5'
23904 3' -54.4 NC_005262.1 + 49771 0.7 0.594377
Target:  5'- cCCGAGGCuCCggcCGCU-GCcgCGCCGg -3'
miRNA:   3'- -GGCUCUGuGGaa-GUGAgCGuaGCGGC- -5'
23904 3' -54.4 NC_005262.1 + 13395 0.7 0.594377
Target:  5'- uCCGcGGCGCUgaUCGCcgcgcgguUCGCGUCGCCa -3'
miRNA:   3'- -GGCuCUGUGGa-AGUG--------AGCGUAGCGGc -5'
23904 3' -54.4 NC_005262.1 + 53517 0.7 0.594377
Target:  5'- aCGAGACGCggugccaUUCAgUCGCcuccuugauGUCGCCGc -3'
miRNA:   3'- gGCUCUGUGg------AAGUgAGCG---------UAGCGGC- -5'
23904 3' -54.4 NC_005262.1 + 2921 0.7 0.594377
Target:  5'- gCCGAcuucaucGCGCUUUCGCcgCGCAUUGCCu -3'
miRNA:   3'- -GGCUc------UGUGGAAGUGa-GCGUAGCGGc -5'
23904 3' -54.4 NC_005262.1 + 6643 0.7 0.594377
Target:  5'- gCGGcGGCG-CUUCGaUCGCGUCGCCGu -3'
miRNA:   3'- gGCU-CUGUgGAAGUgAGCGUAGCGGC- -5'
23904 3' -54.4 NC_005262.1 + 54473 0.7 0.615955
Target:  5'- gUCGAGGCGCU---GCUCGCGgugcaGCCGa -3'
miRNA:   3'- -GGCUCUGUGGaagUGAGCGUag---CGGC- -5'
23904 3' -54.4 NC_005262.1 + 33278 0.7 0.615955
Target:  5'- gCGAGGCguACCgcaUCGCgCGCA-CGCCGg -3'
miRNA:   3'- gGCUCUG--UGGa--AGUGaGCGUaGCGGC- -5'
23904 3' -54.4 NC_005262.1 + 12768 0.7 0.615955
Target:  5'- cCCGucguucGACACgaUCACggCGCGgUCGCCGg -3'
miRNA:   3'- -GGCu-----CUGUGgaAGUGa-GCGU-AGCGGC- -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.