miRNA display CGI


Results 1 - 16 of 16 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
23578 5' -56.9 NC_005261.1 + 65858 0.66 0.853095
Target:  5'- gGAGUGGGAGaggUgGUCGGGGgcgagucggcGGUGCAc -3'
miRNA:   3'- -CUCGUCCUCa--GgUAGCUCCa---------CCACGU- -5'
23578 5' -56.9 NC_005261.1 + 37938 0.66 0.83686
Target:  5'- cGAGCGccGGAGcCgCGUCGAGcG-GGUGCu -3'
miRNA:   3'- -CUCGU--CCUCaG-GUAGCUC-CaCCACGu -5'
23578 5' -56.9 NC_005261.1 + 72077 0.66 0.828454
Target:  5'- --cCAGGucguAGUCCA-CGAGGUGGcGCGu -3'
miRNA:   3'- cucGUCC----UCAGGUaGCUCCACCaCGU- -5'
23578 5' -56.9 NC_005261.1 + 100453 0.67 0.783859
Target:  5'- -cGCgGGGAGUCCGUUGGGGcgccggcgcuUGGgcgGCGc -3'
miRNA:   3'- cuCG-UCCUCAGGUAGCUCC----------ACCa--CGU- -5'
23578 5' -56.9 NC_005261.1 + 104240 0.67 0.764985
Target:  5'- cAGCAGGAGcCCAgcucCGGGGcGGcgGCGg -3'
miRNA:   3'- cUCGUCCUCaGGUa---GCUCCaCCa-CGU- -5'
23578 5' -56.9 NC_005261.1 + 117421 0.68 0.735795
Target:  5'- gGAGCuGGAGUCCcccUCGGGGUuccGGcgGCu -3'
miRNA:   3'- -CUCGuCCUCAGGu--AGCUCCA---CCa-CGu -5'
23578 5' -56.9 NC_005261.1 + 71196 0.68 0.732826
Target:  5'- cGGGCGGGcuggucuccggccaGGUCCugucaaacAUCGAGGUGGccUGCc -3'
miRNA:   3'- -CUCGUCC--------------UCAGG--------UAGCUCCACC--ACGu -5'
23578 5' -56.9 NC_005261.1 + 6775 0.68 0.725869
Target:  5'- aGGCGGGAGgcgCCcgCGAGGcgcGGcGCAa -3'
miRNA:   3'- cUCGUCCUCa--GGuaGCUCCa--CCaCGU- -5'
23578 5' -56.9 NC_005261.1 + 121900 0.68 0.71586
Target:  5'- cGGGCAGGAGaCCGgcggCGAGG-GGgaggGCc -3'
miRNA:   3'- -CUCGUCCUCaGGUa---GCUCCaCCa---CGu -5'
23578 5' -56.9 NC_005261.1 + 66463 0.71 0.561985
Target:  5'- cGAGCGGGccgcGGUCCGgcUgGAGGUGGgGCu -3'
miRNA:   3'- -CUCGUCC----UCAGGU--AgCUCCACCaCGu -5'
23578 5' -56.9 NC_005261.1 + 136777 0.71 0.541772
Target:  5'- -uGCAGcGAGUCgG-CGAGGcGGUGCAg -3'
miRNA:   3'- cuCGUC-CUCAGgUaGCUCCaCCACGU- -5'
23578 5' -56.9 NC_005261.1 + 34397 0.75 0.359089
Target:  5'- -cGCAGGAGUUUAUCGAccgGGUGGcGCGc -3'
miRNA:   3'- cuCGUCCUCAGGUAGCU---CCACCaCGU- -5'
23578 5' -56.9 NC_005261.1 + 91985 0.77 0.27861
Target:  5'- cAGCAGGuGGUCCAgcaGGcGGUGGUGCAg -3'
miRNA:   3'- cUCGUCC-UCAGGUag-CU-CCACCACGU- -5'
23578 5' -56.9 NC_005261.1 + 23549 0.8 0.169865
Target:  5'- cGGCAGGAG-CCGUCGcAGGUGGgGCAg -3'
miRNA:   3'- cUCGUCCUCaGGUAGC-UCCACCaCGU- -5'
23578 5' -56.9 NC_005261.1 + 128066 0.8 0.169865
Target:  5'- cGGCAGGAG-CCGUCGcAGGUGGgGCAg -3'
miRNA:   3'- cUCGUCCUCaGGUAGC-UCCACCaCGU- -5'
23578 5' -56.9 NC_005261.1 + 114204 1.08 0.002133
Target:  5'- cGAGCAGGAGUCCAUCGAGGUGGUGCAc -3'
miRNA:   3'- -CUCGUCCUCAGGUAGCUCCACCACGU- -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.