miRNA display CGI


Results 1 - 20 of 23 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
25561 3' -59.1 NC_005337.1 + 105189 0.66 0.750784
Target:  5'- --cCUGcuUCGCGGGGUCCgcggCCUGGGg -3'
miRNA:   3'- cucGACucGGUGCUCCAGGa---GGACCU- -5'
25561 3' -59.1 NC_005337.1 + 9377 0.66 0.731418
Target:  5'- -cGCguucGAGCCagacgGCGAGGUCCUC--GGAg -3'
miRNA:   3'- cuCGa---CUCGG-----UGCUCCAGGAGgaCCU- -5'
25561 3' -59.1 NC_005337.1 + 66015 0.66 0.731418
Target:  5'- cGAGCgcgugUGGGCCAUGcacGUCCUCUucgUGGAg -3'
miRNA:   3'- -CUCG-----ACUCGGUGCuc-CAGGAGG---ACCU- -5'
25561 3' -59.1 NC_005337.1 + 98673 0.66 0.721603
Target:  5'- uGGGCgGAGCCAC--GGUgCUCCggcggGGAu -3'
miRNA:   3'- -CUCGaCUCGGUGcuCCAgGAGGa----CCU- -5'
25561 3' -59.1 NC_005337.1 + 42571 0.66 0.721603
Target:  5'- cGGCUGgaGGCCGCGGGGcUCUCCg--- -3'
miRNA:   3'- cUCGAC--UCGGUGCUCCaGGAGGaccu -5'
25561 3' -59.1 NC_005337.1 + 67725 0.66 0.721603
Target:  5'- cGGGCcgcGGGCgCAgGAGGUaccCCUCCUGuGAg -3'
miRNA:   3'- -CUCGa--CUCG-GUgCUCCA---GGAGGAC-CU- -5'
25561 3' -59.1 NC_005337.1 + 37836 0.66 0.711712
Target:  5'- aAGCUGAacuuGCgCuuGAGGUUCUCCaGGAg -3'
miRNA:   3'- cUCGACU----CG-GugCUCCAGGAGGaCCU- -5'
25561 3' -59.1 NC_005337.1 + 110610 0.66 0.711712
Target:  5'- cGAGCagGAuGCCGggguCGAGGUCCcUCC-GGAc -3'
miRNA:   3'- -CUCGa-CU-CGGU----GCUCCAGG-AGGaCCU- -5'
25561 3' -59.1 NC_005337.1 + 28801 0.67 0.701754
Target:  5'- cGAGgaGAaCCGCGAGG-CCgggaagcaCCUGGAg -3'
miRNA:   3'- -CUCgaCUcGGUGCUCCaGGa-------GGACCU- -5'
25561 3' -59.1 NC_005337.1 + 60796 0.67 0.681673
Target:  5'- -cGCgacGAGCUugG-GGUCCUCCgcgGGc -3'
miRNA:   3'- cuCGa--CUCGGugCuCCAGGAGGa--CCu -5'
25561 3' -59.1 NC_005337.1 + 87949 0.67 0.66143
Target:  5'- -uGC-GAGUaCACGAugauGUCCUCCUGGAg -3'
miRNA:   3'- cuCGaCUCG-GUGCUc---CAGGAGGACCU- -5'
25561 3' -59.1 NC_005337.1 + 2028 0.68 0.641093
Target:  5'- cAGCUcuuuGGCCACGGcgauccGGUCCUCCcucgGGAu -3'
miRNA:   3'- cUCGAc---UCGGUGCU------CCAGGAGGa---CCU- -5'
25561 3' -59.1 NC_005337.1 + 123843 0.68 0.630911
Target:  5'- -cGCgcaccGCCGCGcAGGcgUCCUCCUGGGc -3'
miRNA:   3'- cuCGacu--CGGUGC-UCC--AGGAGGACCU- -5'
25561 3' -59.1 NC_005337.1 + 22954 0.68 0.610555
Target:  5'- cAGCUGGGCaCGCuGGGGcucgUCCUCgaGGAc -3'
miRNA:   3'- cUCGACUCG-GUG-CUCC----AGGAGgaCCU- -5'
25561 3' -59.1 NC_005337.1 + 73875 0.68 0.599383
Target:  5'- cGGGCUcauGGCCAcggacauCGAGGUCUgCCUGGGc -3'
miRNA:   3'- -CUCGAc--UCGGU-------GCUCCAGGaGGACCU- -5'
25561 3' -59.1 NC_005337.1 + 114289 0.7 0.491601
Target:  5'- -uGCU--GCC-CGAGGaCCUCCUGGAg -3'
miRNA:   3'- cuCGAcuCGGuGCUCCaGGAGGACCU- -5'
25561 3' -59.1 NC_005337.1 + 15724 0.7 0.472735
Target:  5'- -uGC-GAGCgCGCGAGGUCCcacgugUCCUGGc -3'
miRNA:   3'- cuCGaCUCG-GUGCUCCAGG------AGGACCu -5'
25561 3' -59.1 NC_005337.1 + 76206 0.72 0.409805
Target:  5'- cGAGCUu-GuCCACGAGGUCCUCg-GGGu -3'
miRNA:   3'- -CUCGAcuC-GGUGCUCCAGGAGgaCCU- -5'
25561 3' -59.1 NC_005337.1 + 99433 0.73 0.344629
Target:  5'- -uGCUGAGCCGCGGcguGGgccaCCUCgUGGAc -3'
miRNA:   3'- cuCGACUCGGUGCU---CCa---GGAGgACCU- -5'
25561 3' -59.1 NC_005337.1 + 9144 0.73 0.344629
Target:  5'- -cGCgacGGCCGgGAGGaCCUCCUGGAu -3'
miRNA:   3'- cuCGac-UCGGUgCUCCaGGAGGACCU- -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.