miRNA display CGI


Results 1 - 20 of 26 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
23479 3' -61.7 NC_005259.1 + 42640 0.72 0.172728
Target:  5'- aGGCaCCUCGGCCCCGaUGUGG-GCgGCCa -3'
miRNA:   3'- -UUG-GGAGCCGGGGCcGCACUaCG-UGG- -5'
23479 3' -61.7 NC_005259.1 + 64804 0.72 0.186547
Target:  5'- uGugCCUCGGCCUCGGCGgcaaugagcgugUGGUGacggACCc -3'
miRNA:   3'- -UugGGAGCCGGGGCCGC------------ACUACg---UGG- -5'
23479 3' -61.7 NC_005259.1 + 8764 0.71 0.20133
Target:  5'- aGGCCCUUGGCCagcgCGGCgGUGAUGaGCUc -3'
miRNA:   3'- -UUGGGAGCCGGg---GCCG-CACUACgUGG- -5'
23479 3' -61.7 NC_005259.1 + 31175 0.71 0.222617
Target:  5'- cGCCCUUGaGCCaguCGGCGagGAUGcCGCCg -3'
miRNA:   3'- uUGGGAGC-CGGg--GCCGCa-CUAC-GUGG- -5'
23479 3' -61.7 NC_005259.1 + 67760 0.7 0.25127
Target:  5'- cGCCC-CGGCCaCCGGCcaccgaccacgcgGUGAccuuguugGCACCg -3'
miRNA:   3'- uUGGGaGCCGG-GGCCG-------------CACUa-------CGUGG- -5'
23479 3' -61.7 NC_005259.1 + 63671 0.7 0.251885
Target:  5'- gGACaCCUCGGgCaCCGGCGcgccgggGAucUGCGCCu -3'
miRNA:   3'- -UUG-GGAGCCgG-GGCCGCa------CU--ACGUGG- -5'
23479 3' -61.7 NC_005259.1 + 12173 0.7 0.257478
Target:  5'- cGCCCUCGGUCgaaccugCCGGacCGUGGucguguagagaUGCACCg -3'
miRNA:   3'- uUGGGAGCCGG-------GGCC--GCACU-----------ACGUGG- -5'
23479 3' -61.7 NC_005259.1 + 4693 0.69 0.28425
Target:  5'- cGACagCUCGGCCCCGugguGCGaUGAccGCGCCc -3'
miRNA:   3'- -UUGg-GAGCCGGGGC----CGC-ACUa-CGUGG- -5'
23479 3' -61.7 NC_005259.1 + 48046 0.69 0.291105
Target:  5'- cACCCcggUGGCCaCGGCG-GGUaGCGCCg -3'
miRNA:   3'- uUGGGa--GCCGGgGCCGCaCUA-CGUGG- -5'
23479 3' -61.7 NC_005259.1 + 27531 0.69 0.305201
Target:  5'- cGCCgUCgaGGCCCCacGGCGgGAUGUugCg -3'
miRNA:   3'- uUGGgAG--CCGGGG--CCGCaCUACGugG- -5'
23479 3' -61.7 NC_005259.1 + 9394 0.69 0.305201
Target:  5'- cAACgCacgCGcGCCCCGGUacgGGUGCGCCa -3'
miRNA:   3'- -UUGgGa--GC-CGGGGCCGca-CUACGUGG- -5'
23479 3' -61.7 NC_005259.1 + 11715 0.68 0.319072
Target:  5'- -uCCCUgGGCCaCGGCGaggcucagaucgaUGGUGCGCa -3'
miRNA:   3'- uuGGGAgCCGGgGCCGC-------------ACUACGUGg -5'
23479 3' -61.7 NC_005259.1 + 19105 0.68 0.327316
Target:  5'- gAACUCacCGGCgCUGGUGUGugcgucGUGCACCa -3'
miRNA:   3'- -UUGGGa-GCCGgGGCCGCAC------UACGUGG- -5'
23479 3' -61.7 NC_005259.1 + 13452 0.68 0.342707
Target:  5'- uGACCgUCGGCg-CGGCGcUGGUGCucACCg -3'
miRNA:   3'- -UUGGgAGCCGggGCCGC-ACUACG--UGG- -5'
23479 3' -61.7 NC_005259.1 + 22384 0.68 0.342707
Target:  5'- aAGCCCggUCGGCCUCGGCGacGUG-AUCg -3'
miRNA:   3'- -UUGGG--AGCCGGGGCCGCacUACgUGG- -5'
23479 3' -61.7 NC_005259.1 + 23859 0.68 0.350596
Target:  5'- uACCCcCGGCacaCCGaGUG-GAUGCGCUa -3'
miRNA:   3'- uUGGGaGCCGg--GGC-CGCaCUACGUGG- -5'
23479 3' -61.7 NC_005259.1 + 8116 0.67 0.358613
Target:  5'- aGACCCcCGGCCUaguCGGCuacgGGUGCcCCg -3'
miRNA:   3'- -UUGGGaGCCGGG---GCCGca--CUACGuGG- -5'
23479 3' -61.7 NC_005259.1 + 28065 0.67 0.375028
Target:  5'- cGACCCcugCcGCCacaCGGUGgGGUGCACCu -3'
miRNA:   3'- -UUGGGa--GcCGGg--GCCGCaCUACGUGG- -5'
23479 3' -61.7 NC_005259.1 + 61853 0.67 0.383425
Target:  5'- gAGCaCCUCGGCCaCCGccucgcgugccGCGUGAU-CACg -3'
miRNA:   3'- -UUG-GGAGCCGG-GGC-----------CGCACUAcGUGg -5'
23479 3' -61.7 NC_005259.1 + 29441 0.67 0.400587
Target:  5'- --aCCUCGGCCUCagccaGCGUGAccuUGcCGCCc -3'
miRNA:   3'- uugGGAGCCGGGGc----CGCACU---AC-GUGG- -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.