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
28540 3' -57 NC_005946.1 + 102877 0.66 0.818425
Target:  5'- gGGACCcagaGGaCCGgaGGGA-GCUCCUGGa -3'
miRNA:   3'- -UCUGGa---CC-GGCaaUUCUaCGGGGGCC- -5'
28540 3' -57 NC_005946.1 + 88237 0.66 0.818425
Target:  5'- cGGCCUGGUCGUcgcgcAGucUGCgCUCGGa -3'
miRNA:   3'- uCUGGACCGGCAau---UCu-ACGgGGGCC- -5'
28540 3' -57 NC_005946.1 + 102089 0.66 0.818425
Target:  5'- aGGACCUgcaccgucucggGGuCCGUcaggcUGGGGUccagGCCCCUGGu -3'
miRNA:   3'- -UCUGGA------------CC-GGCA-----AUUCUA----CGGGGGCC- -5'
28540 3' -57 NC_005946.1 + 30003 0.66 0.800625
Target:  5'- gAGACUuuuuUGGCCGUcAGGGUGggcgucauCUCCUGGu -3'
miRNA:   3'- -UCUGG----ACCGGCAaUUCUAC--------GGGGGCC- -5'
28540 3' -57 NC_005946.1 + 79267 0.66 0.791486
Target:  5'- cGGACCUugaGGCCGUacuugGAGAgGaCCCUCGcGg -3'
miRNA:   3'- -UCUGGA---CCGGCAa----UUCUaC-GGGGGC-C- -5'
28540 3' -57 NC_005946.1 + 2320 0.66 0.7822
Target:  5'- cGGCCgggGaGCuCGUgagcAGGGUGUCCUCGGa -3'
miRNA:   3'- uCUGGa--C-CG-GCAa---UUCUACGGGGGCC- -5'
28540 3' -57 NC_005946.1 + 83867 0.66 0.7822
Target:  5'- gGGGCCgugUGGcCCGUcuAGAUgaaGCCCCUGa -3'
miRNA:   3'- -UCUGG---ACC-GGCAauUCUA---CGGGGGCc -5'
28540 3' -57 NC_005946.1 + 25379 0.67 0.772776
Target:  5'- uGGGCaugaacaUGGCCGUguuuaugcugGGGAaGCUCCUGGg -3'
miRNA:   3'- -UCUGg------ACCGGCAa---------UUCUaCGGGGGCC- -5'
28540 3' -57 NC_005946.1 + 68477 0.67 0.763222
Target:  5'- uAGACUUGGgaGU--AGAuccugaucugcUGCCCCUGGg -3'
miRNA:   3'- -UCUGGACCggCAauUCU-----------ACGGGGGCC- -5'
28540 3' -57 NC_005946.1 + 9076 0.67 0.753549
Target:  5'- cGGACCUGGCCug-GGGA--CCCUgCGGg -3'
miRNA:   3'- -UCUGGACCGGcaaUUCUacGGGG-GCC- -5'
28540 3' -57 NC_005946.1 + 76691 0.67 0.743766
Target:  5'- -cACCUGGUgGguccAGcAUGaCCCCCGGg -3'
miRNA:   3'- ucUGGACCGgCaau-UC-UAC-GGGGGCC- -5'
28540 3' -57 NC_005946.1 + 14061 0.67 0.733883
Target:  5'- aGGACCgucagggGGUgCGUaAAGAUGCUCCUGa -3'
miRNA:   3'- -UCUGGa------CCG-GCAaUUCUACGGGGGCc -5'
28540 3' -57 NC_005946.1 + 35904 0.67 0.733883
Target:  5'- aAGuCCUGGCCGUccugAGGAUGCaagacaCCaGGc -3'
miRNA:   3'- -UCuGGACCGGCAa---UUCUACGg-----GGgCC- -5'
28540 3' -57 NC_005946.1 + 75133 0.67 0.727909
Target:  5'- aGGGCCaGGCCGgaccUGGGA-GCCacccugccguagaggCCCGGg -3'
miRNA:   3'- -UCUGGaCCGGCa---AUUCUaCGG---------------GGGCC- -5'
28540 3' -57 NC_005946.1 + 41726 0.67 0.722908
Target:  5'- gGGACCccuggGGCCccgAGGAcucaucaugccccUGUCCCCGGc -3'
miRNA:   3'- -UCUGGa----CCGGcaaUUCU-------------ACGGGGGCC- -5'
28540 3' -57 NC_005946.1 + 71771 0.68 0.703729
Target:  5'- cGGuCCUGGUgGggAAGGUGUcucacuCCCUGGg -3'
miRNA:   3'- -UCuGGACCGgCaaUUCUACG------GGGGCC- -5'
28540 3' -57 NC_005946.1 + 73262 0.68 0.662697
Target:  5'- cGACCUGGCCaacaagAGGGUggacGCCaCCGGg -3'
miRNA:   3'- uCUGGACCGGcaa---UUCUA----CGGgGGCC- -5'
28540 3' -57 NC_005946.1 + 89859 0.68 0.662697
Target:  5'- uGGCCUcGCCGggGAcGAugaccgUGCCCCCGu -3'
miRNA:   3'- uCUGGAcCGGCaaUU-CU------ACGGGGGCc -5'
28540 3' -57 NC_005946.1 + 27213 0.69 0.631626
Target:  5'- uGGGCCaGGUagaccAGGGUGCCCUCGGu -3'
miRNA:   3'- -UCUGGaCCGgcaa-UUCUACGGGGGCC- -5'
28540 3' -57 NC_005946.1 + 20364 0.69 0.621258
Target:  5'- cAGACCgugagcaGGCUGgagAAGGUGUCCgCGGc -3'
miRNA:   3'- -UCUGGa------CCGGCaa-UUCUACGGGgGCC- -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.