miRNA display CGI


Results 1 - 17 of 17 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
22562 3' -56.3 NC_005091.1 + 8180 1.08 0.00097
Target:  5'- gGGUCGCAUGCACGUCGGCCGUUCCUAc -3'
miRNA:   3'- -CCAGCGUACGUGCAGCCGGCAAGGAU- -5'
22562 3' -56.3 NC_005091.1 + 29 0.78 0.134995
Target:  5'- --gCGCAUGCGCGagUCGGgCGUUCCUAu -3'
miRNA:   3'- ccaGCGUACGUGC--AGCCgGCAAGGAU- -5'
22562 3' -56.3 NC_005091.1 + 57423 0.78 0.134995
Target:  5'- --gCGCAUGCGCGagUCGGgCGUUCCUAu -3'
miRNA:   3'- ccaGCGUACGUGC--AGCCgGCAAGGAU- -5'
22562 3' -56.3 NC_005091.1 + 4302 0.74 0.255662
Target:  5'- uGGUCGUGUuCGCGcCGGCCGUcgucuUCCUGu -3'
miRNA:   3'- -CCAGCGUAcGUGCaGCCGGCA-----AGGAU- -5'
22562 3' -56.3 NC_005091.1 + 518 0.71 0.386494
Target:  5'- --aCGCAgGCACG-CGGCCGggaaUCCUGa -3'
miRNA:   3'- ccaGCGUaCGUGCaGCCGGCa---AGGAU- -5'
22562 3' -56.3 NC_005091.1 + 57911 0.71 0.386494
Target:  5'- --aCGCAgGCACG-CGGCCGggaaUCCUGa -3'
miRNA:   3'- ccaGCGUaCGUGCaGCCGGCa---AGGAU- -5'
22562 3' -56.3 NC_005091.1 + 51491 0.71 0.40452
Target:  5'- cGGaUCGCAUGCACG--GGCCaGUUCUa- -3'
miRNA:   3'- -CC-AGCGUACGUGCagCCGG-CAAGGau -5'
22562 3' -56.3 NC_005091.1 + 15256 0.7 0.442115
Target:  5'- --gCGCGUGUAcCGUUGGCCG-UCCg- -3'
miRNA:   3'- ccaGCGUACGU-GCAGCCGGCaAGGau -5'
22562 3' -56.3 NC_005091.1 + 49727 0.7 0.451819
Target:  5'- --aUGCGggGCACGUCGGCCGUgCgUGa -3'
miRNA:   3'- ccaGCGUa-CGUGCAGCCGGCAaGgAU- -5'
22562 3' -56.3 NC_005091.1 + 45569 0.69 0.491748
Target:  5'- gGGUCGCcgAUGUgaagcuggccgGCGUCGGCU--UCCUGa -3'
miRNA:   3'- -CCAGCG--UACG-----------UGCAGCCGGcaAGGAU- -5'
22562 3' -56.3 NC_005091.1 + 12083 0.69 0.512316
Target:  5'- aGGUUGCGUaCGCG-CGaGCCGggCCUGc -3'
miRNA:   3'- -CCAGCGUAcGUGCaGC-CGGCaaGGAU- -5'
22562 3' -56.3 NC_005091.1 + 46321 0.68 0.565141
Target:  5'- -uUCGCGUcGUAguUGUCGGCCGUcUCCg- -3'
miRNA:   3'- ccAGCGUA-CGU--GCAGCCGGCA-AGGau -5'
22562 3' -56.3 NC_005091.1 + 29528 0.66 0.651959
Target:  5'- aGGUCGU-UGCGCGUC-GCC-UUCUUGg -3'
miRNA:   3'- -CCAGCGuACGUGCAGcCGGcAAGGAU- -5'
22562 3' -56.3 NC_005091.1 + 41882 0.66 0.673674
Target:  5'- uGUCGaggccGCACGUCGGCaggUCCUc -3'
miRNA:   3'- cCAGCgua--CGUGCAGCCGgcaAGGAu -5'
22562 3' -56.3 NC_005091.1 + 11427 0.66 0.684479
Target:  5'- -uUCGCGgcgGcCACGUCGGCCGacgcuuucgCCUu -3'
miRNA:   3'- ccAGCGUa--C-GUGCAGCCGGCaa-------GGAu -5'
22562 3' -56.3 NC_005091.1 + 55439 0.66 0.684479
Target:  5'- cGUCGCGgccGC-CGUCaGCCGggcgUCCUc -3'
miRNA:   3'- cCAGCGUa--CGuGCAGcCGGCa---AGGAu -5'
22562 3' -56.3 NC_005091.1 + 41138 0.66 0.695235
Target:  5'- aGUCuGCAcGCACGUCGGUCGg----- -3'
miRNA:   3'- cCAG-CGUaCGUGCAGCCGGCaaggau -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.