miRNA display CGI


Results 1 - 20 of 27 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
18461 3' -58.7 NC_004681.1 + 16398 0.66 0.635529
Target:  5'- -cCGGCCGCGGggaugcccuCGGGGAgCUgguagcCCUGCGc -3'
miRNA:   3'- auGCUGGCGCU---------GCCCUUgGA------GGACGU- -5'
18461 3' -58.7 NC_004681.1 + 46716 0.66 0.635529
Target:  5'- gGCGugUGCGggGCGGGGuCCUCg-GCGa -3'
miRNA:   3'- aUGCugGCGC--UGCCCUuGGAGgaCGU- -5'
18461 3' -58.7 NC_004681.1 + 22738 0.66 0.614425
Target:  5'- cACGGCCGCcacuCGGGugAACCUCgaGUg -3'
miRNA:   3'- aUGCUGGCGcu--GCCC--UUGGAGgaCGu -5'
18461 3' -58.7 NC_004681.1 + 7463 0.66 0.614425
Target:  5'- -uCGGCCGCGggcuugGCGGGAGgCUUCgccGCGg -3'
miRNA:   3'- auGCUGGCGC------UGCCCUUgGAGGa--CGU- -5'
18461 3' -58.7 NC_004681.1 + 8910 0.66 0.597579
Target:  5'- -cUGGCUgGCGGCGGGuaccccggcgucaacGGCCUgCUGCAg -3'
miRNA:   3'- auGCUGG-CGCUGCCC---------------UUGGAgGACGU- -5'
18461 3' -58.7 NC_004681.1 + 22409 0.66 0.593377
Target:  5'- -cCGGCCGCgGACGGcAACCcUCC-GCAc -3'
miRNA:   3'- auGCUGGCG-CUGCCcUUGG-AGGaCGU- -5'
18461 3' -58.7 NC_004681.1 + 8807 0.66 0.593377
Target:  5'- aGCGACCGCGGCGGcguUgUUgUGCGc -3'
miRNA:   3'- aUGCUGGCGCUGCCcuuGgAGgACGU- -5'
18461 3' -58.7 NC_004681.1 + 30756 0.67 0.56205
Target:  5'- -uUGACCGCGgcguccGCGGGAAUCUCgCUcCAg -3'
miRNA:   3'- auGCUGGCGC------UGCCCUUGGAG-GAcGU- -5'
18461 3' -58.7 NC_004681.1 + 52267 0.67 0.56205
Target:  5'- --gGGCCGCGACGcGGAcguuguccuCCUCCUcCAg -3'
miRNA:   3'- augCUGGCGCUGC-CCUu--------GGAGGAcGU- -5'
18461 3' -58.7 NC_004681.1 + 23642 0.67 0.535269
Target:  5'- gACGACgGCGAgcCGGGugagcccaucgagcuGGCCUCCUacGCGc -3'
miRNA:   3'- aUGCUGgCGCU--GCCC---------------UUGGAGGA--CGU- -5'
18461 3' -58.7 NC_004681.1 + 3066 0.67 0.531187
Target:  5'- gAUGGCCGCGAauaucuCGGGGuCCUCgCUGg- -3'
miRNA:   3'- aUGCUGGCGCU------GCCCUuGGAG-GACgu -5'
18461 3' -58.7 NC_004681.1 + 24908 0.68 0.514978
Target:  5'- -uCGACCGCGuuggcccaugcgggcAUGGGAAUUUCCgugGCGc -3'
miRNA:   3'- auGCUGGCGC---------------UGCCCUUGGAGGa--CGU- -5'
18461 3' -58.7 NC_004681.1 + 61773 0.68 0.510956
Target:  5'- --aGACCuCGGCGGcGGCCUCCgcgGCGg -3'
miRNA:   3'- augCUGGcGCUGCCcUUGGAGGa--CGU- -5'
18461 3' -58.7 NC_004681.1 + 58514 0.68 0.481236
Target:  5'- -uCGGCCGCGgagaagguGCGGGA-CUUCUUGCc -3'
miRNA:   3'- auGCUGGCGC--------UGCCCUuGGAGGACGu -5'
18461 3' -58.7 NC_004681.1 + 30114 0.68 0.47831
Target:  5'- gACGGuuGCGACGaguuugcguaacauGGuguuGCCUCCUGUg -3'
miRNA:   3'- aUGCUggCGCUGC--------------CCu---UGGAGGACGu -5'
18461 3' -58.7 NC_004681.1 + 10758 0.69 0.452381
Target:  5'- gACGGCCGCGGgcacCGGGGGCg-CCagGCAg -3'
miRNA:   3'- aUGCUGGCGCU----GCCCUUGgaGGa-CGU- -5'
18461 3' -58.7 NC_004681.1 + 16252 0.69 0.442974
Target:  5'- cGCGAUgaGCGACGGGAugGCCgCCaGCGc -3'
miRNA:   3'- aUGCUGg-CGCUGCCCU--UGGaGGaCGU- -5'
18461 3' -58.7 NC_004681.1 + 31908 0.69 0.442974
Target:  5'- gGCGGCCGCcaucGCGGGccucaucccGACCucaacaUCCUGCAc -3'
miRNA:   3'- aUGCUGGCGc---UGCCC---------UUGG------AGGACGU- -5'
18461 3' -58.7 NC_004681.1 + 9229 0.69 0.442974
Target:  5'- gAUGAacccgCGCGACuGGGAgCUCCUGCGc -3'
miRNA:   3'- aUGCUg----GCGCUGcCCUUgGAGGACGU- -5'
18461 3' -58.7 NC_004681.1 + 51987 0.69 0.442039
Target:  5'- cUGCGGCCaugaucuGCGagaGCGGGGACCaggugCCUGCc -3'
miRNA:   3'- -AUGCUGG-------CGC---UGCCCUUGGa----GGACGu -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.