miRNA display CGI


Results 1 - 20 of 37 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
24431 5' -49.2 NC_005264.1 + 87512 0.78 0.720515
Target:  5'- gCGCUGUuaccggcacuggcGCGCGGCAGAUGCUGcagCGu -3'
miRNA:   3'- aGCGACA-------------UGCGCUGUCUAUGAUa--GCu -5'
24431 5' -49.2 NC_005264.1 + 159609 0.66 0.999115
Target:  5'- -aGCUGaAC-CGGCAGcUGCUGUUGGa -3'
miRNA:   3'- agCGACaUGcGCUGUCuAUGAUAGCU- -5'
24431 5' -49.2 NC_005264.1 + 36083 0.66 0.999115
Target:  5'- gUCGCUGUcccucucuucgGCGCGGCuggcagauGGGUACUcgCc- -3'
miRNA:   3'- -AGCGACA-----------UGCGCUG--------UCUAUGAuaGcu -5'
24431 5' -49.2 NC_005264.1 + 27692 0.66 0.999115
Target:  5'- -aGCUGUACGCccugacGACGGAUG-UcgCGGg -3'
miRNA:   3'- agCGACAUGCG------CUGUCUAUgAuaGCU- -5'
24431 5' -49.2 NC_005264.1 + 6167 0.66 0.998686
Target:  5'- -gGCUGUACaacaGCGACGcGUcGCUGUUGAu -3'
miRNA:   3'- agCGACAUG----CGCUGUcUA-UGAUAGCU- -5'
24431 5' -49.2 NC_005264.1 + 88235 0.67 0.998094
Target:  5'- aUCGCUucUACGCaGAcCAGAUACUGUUu- -3'
miRNA:   3'- -AGCGAc-AUGCG-CU-GUCUAUGAUAGcu -5'
24431 5' -49.2 NC_005264.1 + 153364 0.67 0.998094
Target:  5'- cUCGCUG-ACGCGaggucgGCAGAgUACguUCGAg -3'
miRNA:   3'- -AGCGACaUGCGC------UGUCU-AUGauAGCU- -5'
24431 5' -49.2 NC_005264.1 + 259 0.67 0.996224
Target:  5'- gCGCUGgACGCGGCAGAaGCccacuuagAUCa- -3'
miRNA:   3'- aGCGACaUGCGCUGUCUaUGa-------UAGcu -5'
24431 5' -49.2 NC_005264.1 + 157279 0.67 0.996224
Target:  5'- gCGCUGUcCGCGG----UGCUGUCGGu -3'
miRNA:   3'- aGCGACAuGCGCUgucuAUGAUAGCU- -5'
24431 5' -49.2 NC_005264.1 + 36153 0.68 0.994756
Target:  5'- gCGCUGUgcgagcucgggaaGCGCGACGGG-ACgAUCGc -3'
miRNA:   3'- aGCGACA-------------UGCGCUGUCUaUGaUAGCu -5'
24431 5' -49.2 NC_005264.1 + 116409 0.69 0.990824
Target:  5'- cUCGCUGagccCGCGGCAGGUcGCUGggGGc -3'
miRNA:   3'- -AGCGACau--GCGCUGUCUA-UGAUagCU- -5'
24431 5' -49.2 NC_005264.1 + 8906 0.76 0.800293
Target:  5'- gUCGCUGgagACGCGcgucuuCAGGUACUcgCGGa -3'
miRNA:   3'- -AGCGACa--UGCGCu-----GUCUAUGAuaGCU- -5'
24431 5' -49.2 NC_005264.1 + 77289 0.73 0.910534
Target:  5'- aCGaauuggGUGCGCGGCAGAUAgUGUCu- -3'
miRNA:   3'- aGCga----CAUGCGCUGUCUAUgAUAGcu -5'
24431 5' -49.2 NC_005264.1 + 152136 0.73 0.916645
Target:  5'- cUCGCUG-ACGCG-CA--UACUGUCGAu -3'
miRNA:   3'- -AGCGACaUGCGCuGUcuAUGAUAGCU- -5'
24431 5' -49.2 NC_005264.1 + 11632 0.71 0.970227
Target:  5'- gUCGUggaacgGUaucaGCGCGGCAGGgcUGCUGUCGu -3'
miRNA:   3'- -AGCGa-----CA----UGCGCUGUCU--AUGAUAGCu -5'
24431 5' -49.2 NC_005264.1 + 142779 0.7 0.973141
Target:  5'- cUCGCaGUACGCGgACAGGUAuCUGgacgUGAc -3'
miRNA:   3'- -AGCGaCAUGCGC-UGUCUAU-GAUa---GCU- -5'
24431 5' -49.2 NC_005264.1 + 3979 0.69 0.986455
Target:  5'- aUGCUGUuagccgcuucgGCgGCGGCGGGUucuCUGUCGGc -3'
miRNA:   3'- aGCGACA-----------UG-CGCUGUCUAu--GAUAGCU- -5'
24431 5' -49.2 NC_005264.1 + 125965 0.69 0.990824
Target:  5'- -gGCUcgGCGCaGGCAGAUAC-GUCGAc -3'
miRNA:   3'- agCGAcaUGCG-CUGUCUAUGaUAGCU- -5'
24431 5' -49.2 NC_005264.1 + 94743 1.1 0.01249
Target:  5'- gUCGCUGUACGCGACAGAUACUAUCGAc -3'
miRNA:   3'- -AGCGACAUGCGCUGUCUAUGAUAGCU- -5'
24431 5' -49.2 NC_005264.1 + 62593 0.66 0.999115
Target:  5'- aUCGCgUGUAUGUGAUcuAGAga-UAUCGGu -3'
miRNA:   3'- -AGCG-ACAUGCGCUG--UCUaugAUAGCU- -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.