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
21129 3' -56 NC_004775.1 + 30963 0.66 0.629778
Target:  5'- cGCCUGGCGCGcAUcgccaccacugAGAUCCGaaagauuccaaaacuGGCAGCa -3'
miRNA:   3'- -CGGGCCGUGCcUA-----------UUUGGGC---------------CUGUCG- -5'
21129 3' -56 NC_004775.1 + 16156 0.66 0.614217
Target:  5'- gGCCCGGCGCGuccuggcAugCUGGAaucuGCa -3'
miRNA:   3'- -CGGGCCGUGCcuau---UugGGCCUgu--CG- -5'
21129 3' -56 NC_004775.1 + 7345 0.66 0.603119
Target:  5'- uGgUCGGCGCGGu---ACCgGuGACGGUg -3'
miRNA:   3'- -CgGGCCGUGCCuauuUGGgC-CUGUCG- -5'
21129 3' -56 NC_004775.1 + 32006 0.66 0.592046
Target:  5'- -gCCGGCAgcaUGGAUAGaaccaaauACCUcGGCGGCa -3'
miRNA:   3'- cgGGCCGU---GCCUAUU--------UGGGcCUGUCG- -5'
21129 3' -56 NC_004775.1 + 20011 0.67 0.559071
Target:  5'- cGCCCGGCGCGcAUGcACuCUGGAUc-- -3'
miRNA:   3'- -CGGGCCGUGCcUAUuUG-GGCCUGucg -5'
21129 3' -56 NC_004775.1 + 9722 0.67 0.548188
Target:  5'- cUCCGGUACGGcuu-GCCCaGAUGGUu -3'
miRNA:   3'- cGGGCCGUGCCuauuUGGGcCUGUCG- -5'
21129 3' -56 NC_004775.1 + 30638 0.68 0.509618
Target:  5'- uGCauggaCGGUACgcgcugagaugcucaGGAUcuGCCCGGAgCGGCg -3'
miRNA:   3'- -CGg----GCCGUG---------------CCUAuuUGGGCCU-GUCG- -5'
21129 3' -56 NC_004775.1 + 30871 0.68 0.5054
Target:  5'- uGCUCaGCuuGGAcUGGAaCCGGGCGGCg -3'
miRNA:   3'- -CGGGcCGugCCU-AUUUgGGCCUGUCG- -5'
21129 3' -56 NC_004775.1 + 918 0.68 0.5054
Target:  5'- uGCCgUGGC-CGGAU--GCgCGGGcCAGCa -3'
miRNA:   3'- -CGG-GCCGuGCCUAuuUGgGCCU-GUCG- -5'
21129 3' -56 NC_004775.1 + 33587 0.68 0.494923
Target:  5'- aCCCGGCaucuuGCGGc---GCCCGGuCAGg -3'
miRNA:   3'- cGGGCCG-----UGCCuauuUGGGCCuGUCg -5'
21129 3' -56 NC_004775.1 + 1574 0.68 0.474273
Target:  5'- uUCCGGCGUGGAUGAugcgguuauauACCUGcGGCAGg -3'
miRNA:   3'- cGGGCCGUGCCUAUU-----------UGGGC-CUGUCg -5'
21129 3' -56 NC_004775.1 + 18643 0.68 0.458068
Target:  5'- -aCCGGUcUGGAcaccuacgcccgcgaUGAugCCGGGCAGUu -3'
miRNA:   3'- cgGGCCGuGCCU---------------AUUugGGCCUGUCG- -5'
21129 3' -56 NC_004775.1 + 35010 0.69 0.444136
Target:  5'- cGCCUGGgACGaGucGAGCCCGGGguGg -3'
miRNA:   3'- -CGGGCCgUGC-CuaUUUGGGCCUguCg -5'
21129 3' -56 NC_004775.1 + 9300 0.69 0.405689
Target:  5'- -aCCGGgACGGAaucAACCgCGGGCuGCu -3'
miRNA:   3'- cgGGCCgUGCCUau-UUGG-GCCUGuCG- -5'
21129 3' -56 NC_004775.1 + 15815 0.7 0.358961
Target:  5'- uGUCUGGCgGCGGAUAGugccuuuccgcuCCCuGACGGCu -3'
miRNA:   3'- -CGGGCCG-UGCCUAUUu-----------GGGcCUGUCG- -5'
21129 3' -56 NC_004775.1 + 17275 0.7 0.3581
Target:  5'- cGCCgGGCGC-GAUGAAuggcuggcaucacuCCCGG-CAGCc -3'
miRNA:   3'- -CGGgCCGUGcCUAUUU--------------GGGCCuGUCG- -5'
21129 3' -56 NC_004775.1 + 21011 0.74 0.222678
Target:  5'- uGCCCGGCuggaGCGGAUGAuacaauCCCGcACuGCu -3'
miRNA:   3'- -CGGGCCG----UGCCUAUUu-----GGGCcUGuCG- -5'
21129 3' -56 NC_004775.1 + 25748 1.13 0.000326
Target:  5'- cGCCCGGCACGGAUAAACCCGGACAGCc -3'
miRNA:   3'- -CGGGCCGUGCCUAUUUGGGCCUGUCG- -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.