miRNA display CGI


Results 1 - 20 of 38 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
28024 3' -59.6 NC_005887.1 + 37571 0.66 0.44093
Target:  5'- uUGGCGGCUCGc---GGaGCCgCGGCGg -3'
miRNA:   3'- cGCCGCUGAGCuuguCCaCGG-GCCGU- -5'
28024 3' -59.6 NC_005887.1 + 35044 0.66 0.438054
Target:  5'- gGCGGCGACggacggCGAcacgacgacccacaGCGGGcgGCCgGGg- -3'
miRNA:   3'- -CGCCGCUGa-----GCU--------------UGUCCa-CGGgCCgu -5'
28024 3' -59.6 NC_005887.1 + 9151 0.66 0.431386
Target:  5'- uGCGGCGcguucaUCuGGACGGGcucGUCCGGCc -3'
miRNA:   3'- -CGCCGCug----AG-CUUGUCCa--CGGGCCGu -5'
28024 3' -59.6 NC_005887.1 + 34105 0.66 0.431385
Target:  5'- aGCGGUGACgcCGAGC----GCUCGGCAg -3'
miRNA:   3'- -CGCCGCUGa-GCUUGuccaCGGGCCGU- -5'
28024 3' -59.6 NC_005887.1 + 15467 0.66 0.425717
Target:  5'- uCGGC-AUUUGAGgAacgcugguuccagucGGUGCCCGGCGg -3'
miRNA:   3'- cGCCGcUGAGCUUgU---------------CCACGGGCCGU- -5'
28024 3' -59.6 NC_005887.1 + 23095 0.66 0.421963
Target:  5'- uCGGCGGCaccaagCGGuACAGGUGgagcaucgaaCCCGGUg -3'
miRNA:   3'- cGCCGCUGa-----GCU-UGUCCAC----------GGGCCGu -5'
28024 3' -59.6 NC_005887.1 + 5737 0.66 0.403496
Target:  5'- gGCGcGCGAUgcacUGAAacaaaAGGUGCgCGGCGu -3'
miRNA:   3'- -CGC-CGCUGa---GCUUg----UCCACGgGCCGU- -5'
28024 3' -59.6 NC_005887.1 + 11827 0.66 0.402586
Target:  5'- gGCGGCGGCcuguucUCGAGCAGcacgggcggaucGUuuucgacGCUCGGCGg -3'
miRNA:   3'- -CGCCGCUG------AGCUUGUC------------CA-------CGGGCCGU- -5'
28024 3' -59.6 NC_005887.1 + 12585 0.67 0.385549
Target:  5'- cGCGGCGAUccucgCGAuCAGcucGCCgGGCAa -3'
miRNA:   3'- -CGCCGCUGa----GCUuGUCca-CGGgCCGU- -5'
28024 3' -59.6 NC_005887.1 + 32103 0.67 0.384665
Target:  5'- gGCGGCGGa-CGAucacccACAGGUcaucagacgcgccGUCCGGCGc -3'
miRNA:   3'- -CGCCGCUgaGCU------UGUCCA-------------CGGGCCGU- -5'
28024 3' -59.6 NC_005887.1 + 5014 0.67 0.376775
Target:  5'- uGCGGCGAC-CGAugcCA-GUGC-CGGCGc -3'
miRNA:   3'- -CGCCGCUGaGCUu--GUcCACGgGCCGU- -5'
28024 3' -59.6 NC_005887.1 + 23441 0.67 0.368137
Target:  5'- uCGGUGAgCgcugCGGGCugccGGUGCCgGGCGa -3'
miRNA:   3'- cGCCGCU-Ga---GCUUGu---CCACGGgCCGU- -5'
28024 3' -59.6 NC_005887.1 + 33838 0.67 0.368137
Target:  5'- cGCGGCGA-UCGAacgcauGCAGGgcguacgaGCCugCGGCAg -3'
miRNA:   3'- -CGCCGCUgAGCU------UGUCCa-------CGG--GCCGU- -5'
28024 3' -59.6 NC_005887.1 + 11976 0.67 0.367281
Target:  5'- -aGGCGACgcCGAGC-GGUacaccgaGCUCGGCAu -3'
miRNA:   3'- cgCCGCUGa-GCUUGuCCA-------CGGGCCGU- -5'
28024 3' -59.6 NC_005887.1 + 14704 0.67 0.351272
Target:  5'- cGCGGCGGg-CGGGCcGG-GCgCGGCGa -3'
miRNA:   3'- -CGCCGCUgaGCUUGuCCaCGgGCCGU- -5'
28024 3' -59.6 NC_005887.1 + 13795 0.68 0.327808
Target:  5'- gGCGGCGACgccuacaaauuCAGcaGCCCGGCGc -3'
miRNA:   3'- -CGCCGCUGagcuu------GUCcaCGGGCCGU- -5'
28024 3' -59.6 NC_005887.1 + 21035 0.68 0.32702
Target:  5'- uGCGGuCGGCgCGGugGGcGUGCCCgugaaugugGGCGa -3'
miRNA:   3'- -CGCC-GCUGaGCUugUC-CACGGG---------CCGU- -5'
28024 3' -59.6 NC_005887.1 + 15242 0.68 0.32702
Target:  5'- aCGGCGGCcCGaAGCAGGcagccgcagugcUGCgCGGCGa -3'
miRNA:   3'- cGCCGCUGaGC-UUGUCC------------ACGgGCCGU- -5'
28024 3' -59.6 NC_005887.1 + 8685 0.68 0.311553
Target:  5'- --cGCGACggu-GCAGG-GCCCGGCGa -3'
miRNA:   3'- cgcCGCUGagcuUGUCCaCGGGCCGU- -5'
28024 3' -59.6 NC_005887.1 + 30608 0.68 0.30403
Target:  5'- cGCGaGCaACUCGcGCAGcGcGUCCGGCAg -3'
miRNA:   3'- -CGC-CGcUGAGCuUGUC-CaCGGGCCGU- -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.