miRNA display CGI


Results 1 - 20 of 56 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
28005 3' -53.6 NC_005887.1 + 38353 1.06 0.001445
Target:  5'- gAACGCAGGUCGAAGCCAUCAAGCACGc -3'
miRNA:   3'- -UUGCGUCCAGCUUCGGUAGUUCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 36981 0.83 0.063499
Target:  5'- cGCGCGGGUCGAGcucGCCggCGAGCACGc -3'
miRNA:   3'- uUGCGUCCAGCUU---CGGuaGUUCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 26446 0.82 0.073839
Target:  5'- gAACGCAGGUCGGccAGCUgcgcGUCGAGCGCa -3'
miRNA:   3'- -UUGCGUCCAGCU--UCGG----UAGUUCGUGc -5'
28005 3' -53.6 NC_005887.1 + 39937 0.75 0.228079
Target:  5'- cGGCGCGGGcuucgccUCGAAGCCAgc-GGCACGc -3'
miRNA:   3'- -UUGCGUCC-------AGCUUCGGUaguUCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 35054 0.75 0.228705
Target:  5'- uACGCgAGGUCGcuGCCGUCGucggcgGGCGCGa -3'
miRNA:   3'- uUGCG-UCCAGCuuCGGUAGU------UCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 14313 0.74 0.261866
Target:  5'- aAGCGCAGGcCGAcGCCGaCAAGCAgGu -3'
miRNA:   3'- -UUGCGUCCaGCUuCGGUaGUUCGUgC- -5'
28005 3' -53.6 NC_005887.1 + 1083 0.73 0.313907
Target:  5'- uGCGCAGGUCGAcggcGCCAUugccgacgccgagCAGGUGCGu -3'
miRNA:   3'- uUGCGUCCAGCUu---CGGUA-------------GUUCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 40659 0.72 0.327874
Target:  5'- cGCGCAGcuugcgcucgugcUCGggGCgAUCGAGCGCGa -3'
miRNA:   3'- uUGCGUCc------------AGCuuCGgUAGUUCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 19576 0.72 0.357171
Target:  5'- cGCGcCGGcGUCG-AGCCAaCGAGCACGu -3'
miRNA:   3'- uUGC-GUC-CAGCuUCGGUaGUUCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 14526 0.72 0.339719
Target:  5'- -uUGCAGG-CGcGGCCGUCGgcGGCGCGu -3'
miRNA:   3'- uuGCGUCCaGCuUCGGUAGU--UCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 16220 0.72 0.36613
Target:  5'- cACGCAGGUcaCGAucgauacgccGGCCggCGAGCGCa -3'
miRNA:   3'- uUGCGUCCA--GCU----------UCGGuaGUUCGUGc -5'
28005 3' -53.6 NC_005887.1 + 5026 0.72 0.348367
Target:  5'- aGGCGCAGacCGAAGCCAacgaAGGCACGg -3'
miRNA:   3'- -UUGCGUCcaGCUUCGGUag--UUCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 24436 0.72 0.36613
Target:  5'- cACGCAGGUCGcGAGCaggacacgcagCAUCAGGC-CGu -3'
miRNA:   3'- uUGCGUCCAGC-UUCG-----------GUAGUUCGuGC- -5'
28005 3' -53.6 NC_005887.1 + 2228 0.71 0.423048
Target:  5'- uGGCGCAuccGGUCgGAAGUCGUCGcgacgAGCAUGg -3'
miRNA:   3'- -UUGCGU---CCAG-CUUCGGUAGU-----UCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 30241 0.71 0.397731
Target:  5'- -uCGaCAGGUCGGAcacguacaggcgcuuGCCGUCcGGCGCGa -3'
miRNA:   3'- uuGC-GUCCAGCUU---------------CGGUAGuUCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 15380 0.71 0.384508
Target:  5'- --aGCAGGUCGAcGCCGcgcugaUCGcGCGCGg -3'
miRNA:   3'- uugCGUCCAGCUuCGGU------AGUuCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 6340 0.7 0.433039
Target:  5'- uGACGCugcuGGUUGAAcaacggcuGuCCAUCGAGCACa -3'
miRNA:   3'- -UUGCGu---CCAGCUU--------C-GGUAGUUCGUGc -5'
28005 3' -53.6 NC_005887.1 + 41449 0.7 0.463813
Target:  5'- cGACGCGGaUCGAAGCCGaggccgccugacUCGuccggcGGCGCGg -3'
miRNA:   3'- -UUGCGUCcAGCUUCGGU------------AGU------UCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 34840 0.69 0.516388
Target:  5'- uGACGCucgGGGUCGu-GCCGccgaggguguaguUCAAGCGCa -3'
miRNA:   3'- -UUGCG---UCCAGCuuCGGU-------------AGUUCGUGc -5'
28005 3' -53.6 NC_005887.1 + 27148 0.69 0.539654
Target:  5'- cACGC-GGcCGAacGGCCA-CGGGCGCGg -3'
miRNA:   3'- uUGCGuCCaGCU--UCGGUaGUUCGUGC- -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.