miRNA display CGI


Results 1 - 20 of 39 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
23449 3' -54.2 NC_005259.1 + 7241 0.66 0.861177
Target:  5'- gGCAGccGCGCcgguGUCGAG----UGCGCCa -3'
miRNA:   3'- -CGUCaaCGCG----CAGCUCcaauGCGCGG- -5'
23449 3' -54.2 NC_005259.1 + 48451 0.66 0.861177
Target:  5'- aGCGGcaGCGCGUUccacc-GCGCGCCg -3'
miRNA:   3'- -CGUCaaCGCGCAGcuccaaUGCGCGG- -5'
23449 3' -54.2 NC_005259.1 + 31065 0.66 0.861177
Target:  5'- aUAGUUGauCGggucggCGAGGUUcccgaGCGCGUCg -3'
miRNA:   3'- cGUCAACgcGCa-----GCUCCAA-----UGCGCGG- -5'
23449 3' -54.2 NC_005259.1 + 28899 0.66 0.861177
Target:  5'- aGCAGaUUGUcgGCGaCGAGGa-ACGcCGCCu -3'
miRNA:   3'- -CGUC-AACG--CGCaGCUCCaaUGC-GCGG- -5'
23449 3' -54.2 NC_005259.1 + 56918 0.66 0.860369
Target:  5'- aGCAGgcgUGCccGCGUCGGugagcaugcGGUUGgcgaacuCGCGCUc -3'
miRNA:   3'- -CGUCa--ACG--CGCAGCU---------CCAAU-------GCGCGG- -5'
23449 3' -54.2 NC_005259.1 + 27145 0.66 0.852999
Target:  5'- gGCGGcUGCgGUGUUGGGGccaACGaUGCCg -3'
miRNA:   3'- -CGUCaACG-CGCAGCUCCaa-UGC-GCGG- -5'
23449 3' -54.2 NC_005259.1 + 8742 0.66 0.852999
Target:  5'- gGCAGUcaGCcCGUCGAGGUcgAgGCccuugGCCa -3'
miRNA:   3'- -CGUCAa-CGcGCAGCUCCAa-UgCG-----CGG- -5'
23449 3' -54.2 NC_005259.1 + 49635 0.66 0.852169
Target:  5'- gGCGGcaGcCGCGUCGGcgauggcGGccucgaUACGCGCCu -3'
miRNA:   3'- -CGUCaaC-GCGCAGCU-------CCa-----AUGCGCGG- -5'
23449 3' -54.2 NC_005259.1 + 52382 0.66 0.850501
Target:  5'- aGCGGcUGCGCaGccugccucgggccaUCGAGGUgUGgGCGCUc -3'
miRNA:   3'- -CGUCaACGCG-C--------------AGCUCCA-AUgCGCGG- -5'
23449 3' -54.2 NC_005259.1 + 14077 0.66 0.844597
Target:  5'- gGCGGUggccuacgUGCGCagcgagGUCGAGGgUGCGgaaacgcaUGCCa -3'
miRNA:   3'- -CGUCA--------ACGCG------CAGCUCCaAUGC--------GCGG- -5'
23449 3' -54.2 NC_005259.1 + 39089 0.66 0.844597
Target:  5'- aCAGUccguugaGCGgGUUGAGGUgcugcaauCGCGUCa -3'
miRNA:   3'- cGUCAa------CGCgCAGCUCCAau------GCGCGG- -5'
23449 3' -54.2 NC_005259.1 + 56084 0.66 0.844597
Target:  5'- aGCAGaucggUGCuCGUCGGGGccaccGCGUgGCCa -3'
miRNA:   3'- -CGUCa----ACGcGCAGCUCCaa---UGCG-CGG- -5'
23449 3' -54.2 NC_005259.1 + 41371 0.66 0.824468
Target:  5'- aCAGcgUGCG-GUCGAGcUUggccgguacccaugGCGCGCCg -3'
miRNA:   3'- cGUCa-ACGCgCAGCUCcAA--------------UGCGCGG- -5'
23449 3' -54.2 NC_005259.1 + 23293 0.66 0.818132
Target:  5'- gGUGGUUGgGUaUCGGGGUccgGCGCGgUCg -3'
miRNA:   3'- -CGUCAACgCGcAGCUCCAa--UGCGC-GG- -5'
23449 3' -54.2 NC_005259.1 + 66028 0.67 0.807056
Target:  5'- cGCAcguGUUGCGCG-CGAGcucgacguagACGcCGCCg -3'
miRNA:   3'- -CGU---CAACGCGCaGCUCcaa-------UGC-GCGG- -5'
23449 3' -54.2 NC_005259.1 + 53194 0.67 0.803306
Target:  5'- cGCGGUguccccgGCgaucagauucGCGUCgcccgcgcccugcuuGAGGUU-CGCGCCg -3'
miRNA:   3'- -CGUCAa------CG----------CGCAG---------------CUCCAAuGCGCGG- -5'
23449 3' -54.2 NC_005259.1 + 35243 0.67 0.780249
Target:  5'- uGCAGUcUGCGCacucgCGuuGUU-CGCGCCc -3'
miRNA:   3'- -CGUCA-ACGCGca---GCucCAAuGCGCGG- -5'
23449 3' -54.2 NC_005259.1 + 41595 0.67 0.770381
Target:  5'- aGCGGUcGCGCGUCGGuGUUucggauCGCGa- -3'
miRNA:   3'- -CGUCAaCGCGCAGCUcCAAu-----GCGCgg -5'
23449 3' -54.2 NC_005259.1 + 60759 0.67 0.770381
Target:  5'- uGCAGUcgGCuCGgCGAGGUUGggcUGCGCg -3'
miRNA:   3'- -CGUCAa-CGcGCaGCUCCAAU---GCGCGg -5'
23449 3' -54.2 NC_005259.1 + 53023 0.68 0.760375
Target:  5'- uGCGGUg--GCGUCGAGGcauCGUGaCCu -3'
miRNA:   3'- -CGUCAacgCGCAGCUCCaauGCGC-GG- -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.