miRNA display CGI


Results 1 - 18 of 18 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
1642 5' -55.3 NC_001347.2 + 1195 0.66 0.963123
Target:  5'- uGGGCG-CCG-UGUGGCGCGCg---- -3'
miRNA:   3'- cCCCGCuGGUaACGUCGUGCGaguuu -5'
1642 5' -55.3 NC_001347.2 + 139439 0.66 0.959652
Target:  5'- aGGaGGCGACCAcggUGCGacuGCACgGCggCGAGg -3'
miRNA:   3'- -CC-CCGCUGGUa--ACGU---CGUG-CGa-GUUU- -5'
1642 5' -55.3 NC_001347.2 + 160982 0.66 0.943542
Target:  5'- aGGGGcCGACCAUcgucucGCAGCGCcaaguaCUUAAAg -3'
miRNA:   3'- -CCCC-GCUGGUAa-----CGUCGUGc-----GAGUUU- -5'
1642 5' -55.3 NC_001347.2 + 113200 0.67 0.934105
Target:  5'- -uGGCGGCCugacUGCGGCugucgcccgaACGCUCGGc -3'
miRNA:   3'- ccCCGCUGGua--ACGUCG----------UGCGAGUUu -5'
1642 5' -55.3 NC_001347.2 + 39184 0.67 0.923728
Target:  5'- uGGcGCGGCCcgUGCuGUugGC-CAAAa -3'
miRNA:   3'- cCC-CGCUGGuaACGuCGugCGaGUUU- -5'
1642 5' -55.3 NC_001347.2 + 108154 0.67 0.918186
Target:  5'- aGGcGGCGGCCGcagaggGCGcGC-CGCUCAGu -3'
miRNA:   3'- -CC-CCGCUGGUaa----CGU-CGuGCGAGUUu -5'
1642 5' -55.3 NC_001347.2 + 75412 0.67 0.918186
Target:  5'- -cGGCGGCCGUggcgGCGGCA-GCggcgCAGAg -3'
miRNA:   3'- ccCCGCUGGUAa---CGUCGUgCGa---GUUU- -5'
1642 5' -55.3 NC_001347.2 + 190018 0.67 0.912408
Target:  5'- gGGGGCGAgCGcggcuUUGCAaucacGC-CGCUCGAc -3'
miRNA:   3'- -CCCCGCUgGU-----AACGU-----CGuGCGAGUUu -5'
1642 5' -55.3 NC_001347.2 + 165275 0.67 0.912408
Target:  5'- cGGGCGACa---GCuGCACGC-CGAAg -3'
miRNA:   3'- cCCCGCUGguaaCGuCGUGCGaGUUU- -5'
1642 5' -55.3 NC_001347.2 + 158714 0.69 0.872927
Target:  5'- -cGGCGGCCAcauugUGCAGCAgGCgcgCGGc -3'
miRNA:   3'- ccCCGCUGGUa----ACGUCGUgCGa--GUUu -5'
1642 5' -55.3 NC_001347.2 + 62766 0.69 0.872927
Target:  5'- -cGGCGGCCgaccccgccGUUGCGGCcgcCGCUCAc- -3'
miRNA:   3'- ccCCGCUGG---------UAACGUCGu--GCGAGUuu -5'
1642 5' -55.3 NC_001347.2 + 126881 0.69 0.865577
Target:  5'- uGGGGCuGGCCGgcuacgGCGGC-CGCaUCGAc -3'
miRNA:   3'- -CCCCG-CUGGUaa----CGUCGuGCG-AGUUu -5'
1642 5' -55.3 NC_001347.2 + 85509 0.69 0.834162
Target:  5'- cGGGCGGCUugagcggGCGcGCGCGCUUGAGc -3'
miRNA:   3'- cCCCGCUGGuaa----CGU-CGUGCGAGUUU- -5'
1642 5' -55.3 NC_001347.2 + 142591 0.7 0.825838
Target:  5'- gGGGGCGGCgGggGCAGCGgGUUa--- -3'
miRNA:   3'- -CCCCGCUGgUaaCGUCGUgCGAguuu -5'
1642 5' -55.3 NC_001347.2 + 39652 0.7 0.799854
Target:  5'- cGGGCGACac--GCAGCugGCUUu-- -3'
miRNA:   3'- cCCCGCUGguaaCGUCGugCGAGuuu -5'
1642 5' -55.3 NC_001347.2 + 79659 0.73 0.64435
Target:  5'- -aGGCGGCUgaucUGCAGCGCGCUCu-- -3'
miRNA:   3'- ccCCGCUGGua--ACGUCGUGCGAGuuu -5'
1642 5' -55.3 NC_001347.2 + 96427 0.73 0.624019
Target:  5'- --aGCGugCAgaGCAGCACGCUCAu- -3'
miRNA:   3'- cccCGCugGUaaCGUCGUGCGAGUuu -5'
1642 5' -55.3 NC_001347.2 + 129976 1.08 0.005258
Target:  5'- uGGGGCGACCAUUGCAGCACGCUCAAAc -3'
miRNA:   3'- -CCCCGCUGGUAACGUCGUGCGAGUUU- -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.