miRNA display CGI


Results 21 - 40 of 57 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
7348 3' -51.4 NC_001900.1 + 29705 0.67 0.828341
Target:  5'- -aGCGCCaGGuacagguACCGgguacCGGAGUCCGGGg -3'
miRNA:   3'- agUGCGG-CUu------UGGCa----GCUUCAGGUUC- -5'
7348 3' -51.4 NC_001900.1 + 4579 0.67 0.828341
Target:  5'- -aGCGCCGGuacACCGUCGGccuGGagCAGGu -3'
miRNA:   3'- agUGCGGCUu--UGGCAGCU---UCagGUUC- -5'
7348 3' -51.4 NC_001900.1 + 45275 0.68 0.818942
Target:  5'- gUCACGCCGA--CCG-CGAAGgugacgacgCCGAc -3'
miRNA:   3'- -AGUGCGGCUuuGGCaGCUUCa--------GGUUc -5'
7348 3' -51.4 NC_001900.1 + 9608 0.68 0.81799
Target:  5'- gUACGCCGAGAUCGauccucggaucggUCGGccGG-CCAAGg -3'
miRNA:   3'- aGUGCGGCUUUGGC-------------AGCU--UCaGGUUC- -5'
7348 3' -51.4 NC_001900.1 + 42429 0.68 0.809336
Target:  5'- aUCugGgUGAAcgCGUCGGAGUCCGc- -3'
miRNA:   3'- -AGugCgGCUUugGCAGCUUCAGGUuc -5'
7348 3' -51.4 NC_001900.1 + 2972 0.68 0.789547
Target:  5'- uUCGCGgCGAAGCCGUUGGua--CGGGg -3'
miRNA:   3'- -AGUGCgGCUUUGGCAGCUucagGUUC- -5'
7348 3' -51.4 NC_001900.1 + 45222 0.68 0.789547
Target:  5'- cCGCGCCGAucagcccggagaAGCCGUUGAagaAGUUCu-- -3'
miRNA:   3'- aGUGCGGCU------------UUGGCAGCU---UCAGGuuc -5'
7348 3' -51.4 NC_001900.1 + 12187 0.69 0.769068
Target:  5'- --uCGCCGAGGCCGagaagaccUCGAucGUCCAGc -3'
miRNA:   3'- aguGCGGCUUUGGC--------AGCUu-CAGGUUc -5'
7348 3' -51.4 NC_001900.1 + 5593 0.69 0.769068
Target:  5'- uUCAccCGCUGGAGCUGUCGGAGcugcgCUggGc -3'
miRNA:   3'- -AGU--GCGGCUUUGGCAGCUUCa----GGuuC- -5'
7348 3' -51.4 NC_001900.1 + 8187 0.69 0.765942
Target:  5'- --uCGCCGAGAaggcguaCGUCGAguggcaggacgugcAGUCCGGGa -3'
miRNA:   3'- aguGCGGCUUUg------GCAGCU--------------UCAGGUUC- -5'
7348 3' -51.4 NC_001900.1 + 18107 0.69 0.758599
Target:  5'- -aGCGCCGAcuuCCGUUGccgccuAGUCCAGu -3'
miRNA:   3'- agUGCGGCUuu-GGCAGCu-----UCAGGUUc -5'
7348 3' -51.4 NC_001900.1 + 3440 0.69 0.752251
Target:  5'- cCACGCUGGccuGGCCGUggcagaCGAcgaaguuucaggggaAGUCCAAGg -3'
miRNA:   3'- aGUGCGGCU---UUGGCA------GCU---------------UCAGGUUC- -5'
7348 3' -51.4 NC_001900.1 + 15829 0.69 0.747993
Target:  5'- ---gGUCGAGGCCGUCaagGAGGUCgAGGa -3'
miRNA:   3'- agugCGGCUUUGGCAG---CUUCAGgUUC- -5'
7348 3' -51.4 NC_001900.1 + 37261 0.69 0.74157
Target:  5'- -gACGCCGAcagGGCCGUCGuacacggcccgcagcGGGgCCAGGa -3'
miRNA:   3'- agUGCGGCU---UUGGCAGC---------------UUCaGGUUC- -5'
7348 3' -51.4 NC_001900.1 + 47348 0.69 0.737264
Target:  5'- cUCAUGCCcuugggcuuGAcGCCGUCGAAcUCCAGc -3'
miRNA:   3'- -AGUGCGG---------CUuUGGCAGCUUcAGGUUc -5'
7348 3' -51.4 NC_001900.1 + 19545 0.7 0.704457
Target:  5'- aCAcCGCCGugGCCGUgGGAGgaacugcCCAAGg -3'
miRNA:   3'- aGU-GCGGCuuUGGCAgCUUCa------GGUUC- -5'
7348 3' -51.4 NC_001900.1 + 4405 0.7 0.682192
Target:  5'- cUguCGCCGAGGCgGUCGAGGUaUggGa -3'
miRNA:   3'- -AguGCGGCUUUGgCAGCUUCAgGuuC- -5'
7348 3' -51.4 NC_001900.1 + 24153 0.7 0.670979
Target:  5'- -aGCGCC---GCCGUCGuAGGUCCGGu -3'
miRNA:   3'- agUGCGGcuuUGGCAGC-UUCAGGUUc -5'
7348 3' -51.4 NC_001900.1 + 47220 0.7 0.670979
Target:  5'- gCAgGCCGAGGCCGUCacccGGcuuUCCGGGg -3'
miRNA:   3'- aGUgCGGCUUUGGCAGcu--UC---AGGUUC- -5'
7348 3' -51.4 NC_001900.1 + 23351 0.71 0.659727
Target:  5'- aUCGuCGUCGGcaacaccaaGACCGUC-AGGUCCAAGc -3'
miRNA:   3'- -AGU-GCGGCU---------UUGGCAGcUUCAGGUUC- -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.