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
22565 3' -59.2 NC_005091.1 + 32167 0.66 0.533382
Target:  5'- --cGGCcGGCGGCaaGGGCAAcgaaGCUGa -3'
miRNA:   3'- gcaCCGaCCGCCG--UCCGUUaug-CGGC- -5'
22565 3' -59.2 NC_005091.1 + 14460 0.66 0.533382
Target:  5'- uCGUcGGCUguccgGGUcaGGCGGGCAAcuacgcgACGCCu -3'
miRNA:   3'- -GCA-CCGA-----CCG--CCGUCCGUUa------UGCGGc -5'
22565 3' -59.2 NC_005091.1 + 37192 0.66 0.512784
Target:  5'- -uUGGC-GGCGGCcuGCGAUACgGUCa -3'
miRNA:   3'- gcACCGaCCGCCGucCGUUAUG-CGGc -5'
22565 3' -59.2 NC_005091.1 + 44821 0.66 0.49252
Target:  5'- --gGGC-GGCGGCaAGGCAGcaacgaaGCCGa -3'
miRNA:   3'- gcaCCGaCCGCCG-UCCGUUaug----CGGC- -5'
22565 3' -59.2 NC_005091.1 + 20011 0.66 0.483522
Target:  5'- --cGGCguuaucacugccgugGGCGGCGauuGGUucgAGUGCGCCGa -3'
miRNA:   3'- gcaCCGa--------------CCGCCGU---CCG---UUAUGCGGC- -5'
22565 3' -59.2 NC_005091.1 + 52963 0.67 0.446446
Target:  5'- cCGUGGCUGGUuguaccugaucgcGGCcGGCugcaaacaaaucgucGGaGCGCCGa -3'
miRNA:   3'- -GCACCGACCG-------------CCGuCCG---------------UUaUGCGGC- -5'
22565 3' -59.2 NC_005091.1 + 49592 0.67 0.440737
Target:  5'- cCGUGGCUGGCGcguucugccugccGCucgucguguucGCAAUugGCCu -3'
miRNA:   3'- -GCACCGACCGC-------------CGuc---------CGUUAugCGGc -5'
22565 3' -59.2 NC_005091.1 + 50298 0.67 0.434129
Target:  5'- uCGUcGGCUcgcGGCcgaucacccGGCAGGUGAUAuCGCCa -3'
miRNA:   3'- -GCA-CCGA---CCG---------CCGUCCGUUAU-GCGGc -5'
22565 3' -59.2 NC_005091.1 + 23363 0.68 0.406476
Target:  5'- uCGUcGGUcagccgGGCGGCAugucGcGCAGUGCGUCGg -3'
miRNA:   3'- -GCA-CCGa-----CCGCCGU----C-CGUUAUGCGGC- -5'
22565 3' -59.2 NC_005091.1 + 16106 0.68 0.397508
Target:  5'- --cGGCcGGCGGCAG-CAcgACGCUu -3'
miRNA:   3'- gcaCCGaCCGCCGUCcGUuaUGCGGc -5'
22565 3' -59.2 NC_005091.1 + 33746 0.68 0.388667
Target:  5'- uGUGGCUGgaagaggcuaucGCGGCuGGUgaagucccGAUGcCGCCGg -3'
miRNA:   3'- gCACCGAC------------CGCCGuCCG--------UUAU-GCGGC- -5'
22565 3' -59.2 NC_005091.1 + 25246 0.68 0.379957
Target:  5'- --cGGCcuucgcuaUGGCGGCGGuCGGUGCGuCCGg -3'
miRNA:   3'- gcaCCG--------ACCGCCGUCcGUUAUGC-GGC- -5'
22565 3' -59.2 NC_005091.1 + 16237 0.68 0.379957
Target:  5'- aCGaGGCcGcCGGCAuGCGAUGCGCCGc -3'
miRNA:   3'- -GCaCCGaCcGCCGUcCGUUAUGCGGC- -5'
22565 3' -59.2 NC_005091.1 + 44884 0.68 0.371378
Target:  5'- --aGGCgguacgGGCGGC-GGCAAgGCgGCCGa -3'
miRNA:   3'- gcaCCGa-----CCGCCGuCCGUUaUG-CGGC- -5'
22565 3' -59.2 NC_005091.1 + 23316 0.69 0.35462
Target:  5'- aGUGcGCaaUGGCaGCAGGCAcggaaGCGCCa -3'
miRNA:   3'- gCAC-CG--ACCGcCGUCCGUua---UGCGGc -5'
22565 3' -59.2 NC_005091.1 + 40205 0.69 0.338403
Target:  5'- aGUGGCU-GCGGCAGGacu--CGCaCGg -3'
miRNA:   3'- gCACCGAcCGCCGUCCguuauGCG-GC- -5'
22565 3' -59.2 NC_005091.1 + 28982 0.69 0.322731
Target:  5'- --cGGCaGG-GGCAGGCGucuccGCGCCGa -3'
miRNA:   3'- gcaCCGaCCgCCGUCCGUua---UGCGGC- -5'
22565 3' -59.2 NC_005091.1 + 48645 0.71 0.272189
Target:  5'- -cUGGCUGGCGcGCAGGCccGAUGaggauCGCuCGg -3'
miRNA:   3'- gcACCGACCGC-CGUCCG--UUAU-----GCG-GC- -5'
22565 3' -59.2 NC_005091.1 + 26518 0.74 0.16684
Target:  5'- uCGUcaGGCUGGcCGuGCGGGC-AUugGCCGc -3'
miRNA:   3'- -GCA--CCGACC-GC-CGUCCGuUAugCGGC- -5'
22565 3' -59.2 NC_005091.1 + 23107 0.79 0.069254
Target:  5'- gCGaUGGCgucGGCGGCAGGCGAUAcCGUCa -3'
miRNA:   3'- -GC-ACCGa--CCGCCGUCCGUUAU-GCGGc -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.