miRNA display CGI


Results 1 - 20 of 24 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
22298 3' -57 NC_005045.1 + 4968 0.98 0.002585
Target:  5'- cGGCCAAGCUGCUGGACGUGAAG-CCAg -3'
miRNA:   3'- -CCGGUUCGACGACCUGCACUUCcGGU- -5'
22298 3' -57 NC_005045.1 + 26692 0.65 0.543498
Target:  5'- cGGCCuuGCUGCcgGGAgucggugccccuggUGUGggGGUg- -3'
miRNA:   3'- -CCGGuuCGACGa-CCU--------------GCACuuCCGgu -5'
22298 3' -57 NC_005045.1 + 33308 0.66 0.540233
Target:  5'- cGCCcgugAAGgUGCUGGcuuCGUGAaccgguucuucagugAGGCCGa -3'
miRNA:   3'- cCGG----UUCgACGACCu--GCACU---------------UCCGGU- -5'
22298 3' -57 NC_005045.1 + 15857 0.66 0.535888
Target:  5'- aGGCCGAGgUGCugUGGAUGcgccGAAcGCCGa -3'
miRNA:   3'- -CCGGUUCgACG--ACCUGCa---CUUcCGGU- -5'
22298 3' -57 NC_005045.1 + 28504 0.66 0.525083
Target:  5'- aGGCCAAGCgccaggggaUGCUagccGGCG-GAAGcGCCGa -3'
miRNA:   3'- -CCGGUUCG---------ACGAc---CUGCaCUUC-CGGU- -5'
22298 3' -57 NC_005045.1 + 34025 0.66 0.514361
Target:  5'- cGG-CAGGC-GCUGGA---GGAGGCCAa -3'
miRNA:   3'- -CCgGUUCGaCGACCUgcaCUUCCGGU- -5'
22298 3' -57 NC_005045.1 + 16921 0.66 0.493195
Target:  5'- uGCaCAAGCUGCUGGACGaagcGGaCAu -3'
miRNA:   3'- cCG-GUUCGACGACCUGCacuuCCgGU- -5'
22298 3' -57 NC_005045.1 + 18616 0.67 0.482761
Target:  5'- cGGCaCGAGCguccacCUGGAgcCGUcgccGGAGGCCAg -3'
miRNA:   3'- -CCG-GUUCGac----GACCU--GCA----CUUCCGGU- -5'
22298 3' -57 NC_005045.1 + 34129 0.67 0.452128
Target:  5'- gGGCCGAcuGUcGCUGGACaUGAccGCCGa -3'
miRNA:   3'- -CCGGUU--CGaCGACCUGcACUucCGGU- -5'
22298 3' -57 NC_005045.1 + 22422 0.68 0.40355
Target:  5'- cGGCCuguacGAGCUggagucGCUGGAgguccugaaccuCGUGGacgAGGCCAa -3'
miRNA:   3'- -CCGG-----UUCGA------CGACCU------------GCACU---UCCGGU- -5'
22298 3' -57 NC_005045.1 + 34506 0.68 0.376033
Target:  5'- uGGCCAcgauGGCccaccgGCaGGGCGUcuucaacguuauGAAGGCCAu -3'
miRNA:   3'- -CCGGU----UCGa-----CGaCCUGCA------------CUUCCGGU- -5'
22298 3' -57 NC_005045.1 + 12485 0.7 0.301366
Target:  5'- cGGCCAAGCUGUUGauGCGccu-GGCCGa -3'
miRNA:   3'- -CCGGUUCGACGACc-UGCacuuCCGGU- -5'
22298 3' -57 NC_005045.1 + 15362 0.71 0.279153
Target:  5'- aGGCCAAGCcuccccUGCUGGAacCGcUGcggcGGGCCGu -3'
miRNA:   3'- -CCGGUUCG------ACGACCU--GC-ACu---UCCGGU- -5'
22298 3' -57 NC_005045.1 + 2268 0.67 0.432306
Target:  5'- cGGCCAGGUaGCcGGcacuGCGUGGAguGGUCAg -3'
miRNA:   3'- -CCGGUUCGaCGaCC----UGCACUU--CCGGU- -5'
22298 3' -57 NC_005045.1 + 23566 0.68 0.419697
Target:  5'- uGCCAGGgUccuacgaucuccccGUUGGGaGUGAAGGCCGg -3'
miRNA:   3'- cCGGUUCgA--------------CGACCUgCACUUCCGGU- -5'
22298 3' -57 NC_005045.1 + 22911 0.68 0.394236
Target:  5'- cGGCgGAGCggGaCaGGGCGgGAAGGCCc -3'
miRNA:   3'- -CCGgUUCGa-C-GaCCUGCaCUUCCGGu -5'
22298 3' -57 NC_005045.1 + 34502 0.69 0.358406
Target:  5'- uGGUCAGGCcGCUGGcccGCuGUGcaacGGGGCCGa -3'
miRNA:   3'- -CCGGUUCGaCGACC---UG-CAC----UUCCGGU- -5'
22298 3' -57 NC_005045.1 + 10810 0.69 0.349812
Target:  5'- aGGCgCAGGUgaggaGCUGGAUGUGcuccucgcucAGGCCGg -3'
miRNA:   3'- -CCG-GUUCGa----CGACCUGCACu---------UCCGGU- -5'
22298 3' -57 NC_005045.1 + 23382 0.71 0.258263
Target:  5'- uGGUCGgaacagguugcGGCUGCUGGGuCGgGAuGGCCAg -3'
miRNA:   3'- -CCGGU-----------UCGACGACCU-GCaCUuCCGGU- -5'
22298 3' -57 NC_005045.1 + 26403 0.66 0.525083
Target:  5'- uGGCCGuguGGCUGUaGGugGUGcccguGGCg- -3'
miRNA:   3'- -CCGGU---UCGACGaCCugCACuu---CCGgu -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.