miRNA display CGI


Results 1 - 20 of 28 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
22250 3' -57.3 NC_005045.1 + 5836 0.66 0.527796
Target:  5'- cGUCGGCGCGCUUCG-CGUCGGc--- -3'
miRNA:   3'- cCGGCCGUGUGAGGUaGCGGCUcuuu -5'
22250 3' -57.3 NC_005045.1 + 3733 0.66 0.506503
Target:  5'- aGGCCgGGCAgauaGCgaCCAcgcCGCCGAGGAAc -3'
miRNA:   3'- -CCGG-CCGUg---UGa-GGUa--GCGGCUCUUU- -5'
22250 3' -57.3 NC_005045.1 + 40064 0.67 0.445048
Target:  5'- uGCUGGCaggACACguggucggaaUCCAUCGCCGAu--- -3'
miRNA:   3'- cCGGCCG---UGUG----------AGGUAGCGGCUcuuu -5'
22250 3' -57.3 NC_005045.1 + 40331 0.67 0.435212
Target:  5'- cGGCCcuuGCgACGCUCCcggcccaUGCCGAGAGAc -3'
miRNA:   3'- -CCGGc--CG-UGUGAGGua-----GCGGCUCUUU- -5'
22250 3' -57.3 NC_005045.1 + 12356 0.67 0.435212
Target:  5'- cGCUGGUcaucauccCACUUgGUCGCCGGGAu- -3'
miRNA:   3'- cCGGCCGu-------GUGAGgUAGCGGCUCUuu -5'
22250 3' -57.3 NC_005045.1 + 34283 0.67 0.435212
Target:  5'- uGCCGGCGuaguuCUCCAUCaGCCGGucGAGGu -3'
miRNA:   3'- cCGGCCGUgu---GAGGUAG-CGGCU--CUUU- -5'
22250 3' -57.3 NC_005045.1 + 28975 0.69 0.361326
Target:  5'- aGUC-GCGCACUCCG-CGCCGAGc-- -3'
miRNA:   3'- cCGGcCGUGUGAGGUaGCGGCUCuuu -5'
22250 3' -57.3 NC_005045.1 + 4638 0.69 0.34427
Target:  5'- aGGCUGGCGCACcagCCuUCGCCuuGGu- -3'
miRNA:   3'- -CCGGCCGUGUGa--GGuAGCGGcuCUuu -5'
22250 3' -57.3 NC_005045.1 + 5014 0.69 0.3278
Target:  5'- uGGCCGGUGCGCU--GUCGCUGAa--- -3'
miRNA:   3'- -CCGGCCGUGUGAggUAGCGGCUcuuu -5'
22250 3' -57.3 NC_005045.1 + 29516 0.7 0.281933
Target:  5'- uGCCGGgACAgUUCGUCGCCGGu--- -3'
miRNA:   3'- cCGGCCgUGUgAGGUAGCGGCUcuuu -5'
22250 3' -57.3 NC_005045.1 + 22292 0.73 0.17469
Target:  5'- aGCuCGGCGUACUCCAUCGCCGuGc-- -3'
miRNA:   3'- cCG-GCCGUGUGAGGUAGCGGCuCuuu -5'
22250 3' -57.3 NC_005045.1 + 10888 0.78 0.086103
Target:  5'- uGGCCGa-GCGCUCCAUCGCgGAGAc- -3'
miRNA:   3'- -CCGGCcgUGUGAGGUAGCGgCUCUuu -5'
22250 3' -57.3 NC_005045.1 + 11909 1.08 0.000507
Target:  5'- aGGCCGGCACACUCCAUCGCCGAGAAAc -3'
miRNA:   3'- -CCGGCCGUGUGAGGUAGCGGCUCUUU- -5'
22250 3' -57.3 NC_005045.1 + 20808 0.65 0.535329
Target:  5'- cGGUCGGCgagacguggugcgaGCAgUCCGcuugcgcCGCCGAGAc- -3'
miRNA:   3'- -CCGGCCG--------------UGUgAGGUa------GCGGCUCUuu -5'
22250 3' -57.3 NC_005045.1 + 5297 0.73 0.179549
Target:  5'- cGCCGaGCGCGCa-CGUCGCUGGGAGAu -3'
miRNA:   3'- cCGGC-CGUGUGagGUAGCGGCUCUUU- -5'
22250 3' -57.3 NC_005045.1 + 13780 0.66 0.517106
Target:  5'- uGGCaUGGCGCugUCCcau-CCGAGGGAa -3'
miRNA:   3'- -CCG-GCCGUGugAGGuagcGGCUCUUU- -5'
22250 3' -57.3 NC_005045.1 + 13221 0.66 0.505448
Target:  5'- gGGCCGGauggcaaCugGCgCCAguacCGCCGGGGAu -3'
miRNA:   3'- -CCGGCC-------GugUGaGGUa---GCGGCUCUUu -5'
22250 3' -57.3 NC_005045.1 + 28675 0.66 0.500186
Target:  5'- aGCaGGCGCACUCCAUCcaggcucaggcuaagGCCGGc--- -3'
miRNA:   3'- cCGgCCGUGUGAGGUAG---------------CGGCUcuuu -5'
22250 3' -57.3 NC_005045.1 + 4822 0.66 0.485585
Target:  5'- cGCCGaGCGcCugUCCAgccucgUCGCCG-GAGAc -3'
miRNA:   3'- cCGGC-CGU-GugAGGU------AGCGGCuCUUU- -5'
22250 3' -57.3 NC_005045.1 + 4513 0.66 0.485585
Target:  5'- cGGgUGGCGCAUggUCC-UCGCCGAcaaGggGa -3'
miRNA:   3'- -CCgGCCGUGUG--AGGuAGCGGCU---CuuU- -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.