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
16658 5' -57.4 NC_004156.1 + 132958 0.66 0.942948
Target:  5'- aCUUGGagaaugCGGUGCacguaaACGGUACgaguGCACUg -3'
miRNA:   3'- aGAGCCga----GCCACG------UGCCAUG----CGUGG- -5'
16658 5' -57.4 NC_004156.1 + 137521 0.66 0.942948
Target:  5'- aUCggGGCUCGGa-CAUGGUcAUGCAUCu -3'
miRNA:   3'- -AGagCCGAGCCacGUGCCA-UGCGUGG- -5'
16658 5' -57.4 NC_004156.1 + 215458 0.66 0.938495
Target:  5'- gUCgUGGUgUUGGUGCACGGcUugGCAa- -3'
miRNA:   3'- -AGaGCCG-AGCCACGUGCC-AugCGUgg -5'
16658 5' -57.4 NC_004156.1 + 209406 0.66 0.938495
Target:  5'- -gUCGGUaUCGGUGC-Ca-UAUGCACCa -3'
miRNA:   3'- agAGCCG-AGCCACGuGccAUGCGUGG- -5'
16658 5' -57.4 NC_004156.1 + 173940 0.66 0.933825
Target:  5'- cUCUCGGUgcacuuccUCGGcGUugGcGUACGaUGCCa -3'
miRNA:   3'- -AGAGCCG--------AGCCaCGugC-CAUGC-GUGG- -5'
16658 5' -57.4 NC_004156.1 + 42334 0.66 0.933345
Target:  5'- cCUUGGUguacacaUCGGUGgACGGUGCauccgGCCg -3'
miRNA:   3'- aGAGCCG-------AGCCACgUGCCAUGcg---UGG- -5'
16658 5' -57.4 NC_004156.1 + 143184 0.66 0.928936
Target:  5'- --cCGGUugcaaUCGGUGCA--GUACGCACa -3'
miRNA:   3'- agaGCCG-----AGCCACGUgcCAUGCGUGg -5'
16658 5' -57.4 NC_004156.1 + 141395 0.66 0.92383
Target:  5'- cUCUUGGCggcaGGaUGCGCaucugcGUACGCAUCc -3'
miRNA:   3'- -AGAGCCGag--CC-ACGUGc-----CAUGCGUGG- -5'
16658 5' -57.4 NC_004156.1 + 128548 0.66 0.918505
Target:  5'- gCUCGG-UCGGUaCACGuGgcCGCAUCg -3'
miRNA:   3'- aGAGCCgAGCCAcGUGC-CauGCGUGG- -5'
16658 5' -57.4 NC_004156.1 + 73244 0.67 0.912962
Target:  5'- gUUUGGUUUGGUgGUACGGUGCuCAUg -3'
miRNA:   3'- aGAGCCGAGCCA-CGUGCCAUGcGUGg -5'
16658 5' -57.4 NC_004156.1 + 154928 0.67 0.907203
Target:  5'- aUCUCGGauagccucaUCGG-GCAUGGUcAUGUACg -3'
miRNA:   3'- -AGAGCCg--------AGCCaCGUGCCA-UGCGUGg -5'
16658 5' -57.4 NC_004156.1 + 76892 0.67 0.901228
Target:  5'- -aUgGGCUCGGUGguCGGUgucAUGUugUc -3'
miRNA:   3'- agAgCCGAGCCACguGCCA---UGCGugG- -5'
16658 5' -57.4 NC_004156.1 + 97266 0.67 0.901228
Target:  5'- cUUUGGCUCcaaGGUG-AUGGacaaGCGCACCg -3'
miRNA:   3'- aGAGCCGAG---CCACgUGCCa---UGCGUGG- -5'
16658 5' -57.4 NC_004156.1 + 22700 0.68 0.860302
Target:  5'- aCUCGGagugcaguguagaCUCGGUGCuCGGUGCaGgGCa -3'
miRNA:   3'- aGAGCC-------------GAGCCACGuGCCAUG-CgUGg -5'
16658 5' -57.4 NC_004156.1 + 226739 0.68 0.846075
Target:  5'- aCUCuGCUCGG-GgACgGGUACGCucCCa -3'
miRNA:   3'- aGAGcCGAGCCaCgUG-CCAUGCGu-GG- -5'
16658 5' -57.4 NC_004156.1 + 22589 0.68 0.838327
Target:  5'- gCUCGgaGCUCGGUGCuCGGUGC-UugUa -3'
miRNA:   3'- aGAGC--CGAGCCACGuGCCAUGcGugG- -5'
16658 5' -57.4 NC_004156.1 + 130697 0.69 0.829607
Target:  5'- aCUUGGCggugaaCGGUG-ACGGUGagauuugUGCACCg -3'
miRNA:   3'- aGAGCCGa-----GCCACgUGCCAU-------GCGUGG- -5'
16658 5' -57.4 NC_004156.1 + 138921 0.69 0.814081
Target:  5'- cCUCGGCcuccUCGGgggucaucuUGCACuGUGCGCaaacGCCa -3'
miRNA:   3'- aGAGCCG----AGCC---------ACGUGcCAUGCG----UGG- -5'
16658 5' -57.4 NC_004156.1 + 169313 0.74 0.559799
Target:  5'- gUCUCGGCaUCGGUGUACG---UGCACa -3'
miRNA:   3'- -AGAGCCG-AGCCACGUGCcauGCGUGg -5'
16658 5' -57.4 NC_004156.1 + 140374 0.74 0.540686
Target:  5'- aUCggcCGGCUUGGUGUggguacucauuGCGGUACGaucaACCa -3'
miRNA:   3'- -AGa--GCCGAGCCACG-----------UGCCAUGCg---UGG- -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.