miRNA display CGI


Results 1 - 20 of 21 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
20701 3' -59.4 NC_004688.1 + 67028 0.66 0.678889
Target:  5'- cCGGCACCCcaguGCCguuggcGGUgauuaucguccCGGCCGGAAc -3'
miRNA:   3'- uGCCGUGGG----CGGa-----CCA-----------GUUGGCCUUu -5'
20701 3' -59.4 NC_004688.1 + 51567 0.66 0.678889
Target:  5'- gAUGGC-CgCCGCC-GGcuaCGGCCGGAAAg -3'
miRNA:   3'- -UGCCGuG-GGCGGaCCa--GUUGGCCUUU- -5'
20701 3' -59.4 NC_004688.1 + 54821 0.66 0.678889
Target:  5'- cUGGCGCUCGCggGG-CGugCGGAAu -3'
miRNA:   3'- uGCCGUGGGCGgaCCaGUugGCCUUu -5'
20701 3' -59.4 NC_004688.1 + 97017 0.66 0.667608
Target:  5'- -aGGCGCCCauCCgUGGUgaaggaaUAGCCGGAGAg -3'
miRNA:   3'- ugCCGUGGGc-GG-ACCA-------GUUGGCCUUU- -5'
20701 3' -59.4 NC_004688.1 + 95655 0.66 0.664525
Target:  5'- aACGGCGCCgCGCCgcggcacaugaaaGGUguccagggCAACUGGAAc -3'
miRNA:   3'- -UGCCGUGG-GCGGa------------CCA--------GUUGGCCUUu -5'
20701 3' -59.4 NC_004688.1 + 34926 0.66 0.658352
Target:  5'- cCGGCGCUucuCGCCUGGcaCGAgUGGGAAg -3'
miRNA:   3'- uGCCGUGG---GCGGACCa-GUUgGCCUUU- -5'
20701 3' -59.4 NC_004688.1 + 79995 0.66 0.648046
Target:  5'- aGCGGa--UCGUCcgGGUCGACCGGGGu -3'
miRNA:   3'- -UGCCgugGGCGGa-CCAGUUGGCCUUu -5'
20701 3' -59.4 NC_004688.1 + 62624 0.66 0.637728
Target:  5'- gGCGGCGaCCGCUcGGUCcACCuGGAc- -3'
miRNA:   3'- -UGCCGUgGGCGGaCCAGuUGG-CCUuu -5'
20701 3' -59.4 NC_004688.1 + 104361 0.67 0.627406
Target:  5'- cGCGaGCGCCgGCgaGGUCuggGCUGGGGu -3'
miRNA:   3'- -UGC-CGUGGgCGgaCCAGu--UGGCCUUu -5'
20701 3' -59.4 NC_004688.1 + 29530 0.67 0.596491
Target:  5'- gGCGGgaGCCUugGCCUGGUacuugaacACCGGAAAg -3'
miRNA:   3'- -UGCCg-UGGG--CGGACCAgu------UGGCCUUU- -5'
20701 3' -59.4 NC_004688.1 + 99668 0.68 0.555675
Target:  5'- cCGGUGCCCaGCgUGGUCGGCaGGGu- -3'
miRNA:   3'- uGCCGUGGG-CGgACCAGUUGgCCUuu -5'
20701 3' -59.4 NC_004688.1 + 23365 0.68 0.535563
Target:  5'- cACaGCuucCCCGCCUGGUCGuACCGa--- -3'
miRNA:   3'- -UGcCGu--GGGCGGACCAGU-UGGCcuuu -5'
20701 3' -59.4 NC_004688.1 + 102113 0.68 0.515711
Target:  5'- -gGGUGCCCGCgUGGUUcACCaGAAGa -3'
miRNA:   3'- ugCCGUGGGCGgACCAGuUGGcCUUU- -5'
20701 3' -59.4 NC_004688.1 + 87692 0.69 0.486515
Target:  5'- aGCGcCGCCUGCUgGG-CGGCCGGAGAg -3'
miRNA:   3'- -UGCcGUGGGCGGaCCaGUUGGCCUUU- -5'
20701 3' -59.4 NC_004688.1 + 57947 0.69 0.486515
Target:  5'- cGCGuGCGCCUGCUUGaagagaaGACCGGAAAg -3'
miRNA:   3'- -UGC-CGUGGGCGGACcag----UUGGCCUUU- -5'
20701 3' -59.4 NC_004688.1 + 50057 0.7 0.439699
Target:  5'- cGCGGCGgUCGCCaaUGGUCcaggccccGCCGGGGAu -3'
miRNA:   3'- -UGCCGUgGGCGG--ACCAGu-------UGGCCUUU- -5'
20701 3' -59.4 NC_004688.1 + 61126 0.71 0.387079
Target:  5'- gAUGGCGcaagaaggacCCCGUCUGGcggCGGCCGGAu- -3'
miRNA:   3'- -UGCCGU----------GGGCGGACCa--GUUGGCCUuu -5'
20701 3' -59.4 NC_004688.1 + 75523 0.72 0.344959
Target:  5'- gGCGGCACCgGCCaguuuUGGUCAuucguaaucguuCCGGGGu -3'
miRNA:   3'- -UGCCGUGGgCGG-----ACCAGUu-----------GGCCUUu -5'
20701 3' -59.4 NC_004688.1 + 110593 0.73 0.301986
Target:  5'- gGCGGC-CCCGCCccGGUUu-CCGGGGAa -3'
miRNA:   3'- -UGCCGuGGGCGGa-CCAGuuGGCCUUU- -5'
20701 3' -59.4 NC_004688.1 + 56548 0.74 0.261369
Target:  5'- aGCGGUACUCGCCguUGGUgaugugcccgcggCGGCCGGGGAa -3'
miRNA:   3'- -UGCCGUGGGCGG--ACCA-------------GUUGGCCUUU- -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.