miRNA display CGI


Results 1 - 20 of 25 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
11418 3' -58.3 NC_003085.1 + 7758 0.73 0.204623
Target:  5'- -aGGACGGCCGuGUCaucaGCCAUCGu- -3'
miRNA:   3'- caUCUGCCGGCuCAGgg--CGGUAGCuc -5'
11418 3' -58.3 NC_003085.1 + 46354 0.66 0.534899
Target:  5'- -gAGAUGGCgGcaAGUucaUCCGCCGUCGGc -3'
miRNA:   3'- caUCUGCCGgC--UCA---GGGCGGUAGCUc -5'
11418 3' -58.3 NC_003085.1 + 40843 0.66 0.503806
Target:  5'- --cGGCGGCCGGG-CUgGCCAaccUgGAGg -3'
miRNA:   3'- cauCUGCCGGCUCaGGgCGGU---AgCUC- -5'
11418 3' -58.3 NC_003085.1 + 31335 0.67 0.493615
Target:  5'- -cAGACgucccaGGCCGGccGUCCCGCCcgCGc- -3'
miRNA:   3'- caUCUG------CCGGCU--CAGGGCGGuaGCuc -5'
11418 3' -58.3 NC_003085.1 + 810 0.67 0.482515
Target:  5'- gGUGGACGuCCGcGUgCCGCCgcaggucGUCGAGc -3'
miRNA:   3'- -CAUCUGCcGGCuCAgGGCGG-------UAGCUC- -5'
11418 3' -58.3 NC_003085.1 + 17728 0.67 0.463632
Target:  5'- -gAGAgaGGCgCGugaccAGUCCCGCCuUCGGGa -3'
miRNA:   3'- caUCUg-CCG-GC-----UCAGGGCGGuAGCUC- -5'
11418 3' -58.3 NC_003085.1 + 36585 0.67 0.453851
Target:  5'- cUGGcucGCGGCCGGGUguaaCGCCAguUCGAGc -3'
miRNA:   3'- cAUC---UGCCGGCUCAgg--GCGGU--AGCUC- -5'
11418 3' -58.3 NC_003085.1 + 30955 0.67 0.444182
Target:  5'- -cAGAC--CCGAGUCCUGCCAgCGAc -3'
miRNA:   3'- caUCUGccGGCUCAGGGCGGUaGCUc -5'
11418 3' -58.3 NC_003085.1 + 35786 0.67 0.444182
Target:  5'- --cGACGGCCGGuGUCCUuGuCCAUgGGGu -3'
miRNA:   3'- cauCUGCCGGCU-CAGGG-C-GGUAgCUC- -5'
11418 3' -58.3 NC_003085.1 + 21087 0.73 0.210045
Target:  5'- -aGGACGGCC-AGUCCUGCCAccccUGGGa -3'
miRNA:   3'- caUCUGCCGGcUCAGGGCGGUa---GCUC- -5'
11418 3' -58.3 NC_003085.1 + 17186 0.7 0.314525
Target:  5'- --uGACGGgagaCGAGUCCCggGCCAcCGAGg -3'
miRNA:   3'- cauCUGCCg---GCUCAGGG--CGGUaGCUC- -5'
11418 3' -58.3 NC_003085.1 + 33220 0.69 0.379938
Target:  5'- -gAGGCacucGGCCGGGcUCCaugaGCCGUUGAGc -3'
miRNA:   3'- caUCUG----CCGGCUC-AGGg---CGGUAGCUC- -5'
11418 3' -58.3 NC_003085.1 + 14879 0.68 0.414967
Target:  5'- --uGACGGaCGAGcagguguUCgCCGCCAUUGAGg -3'
miRNA:   3'- cauCUGCCgGCUC-------AG-GGCGGUAGCUC- -5'
11418 3' -58.3 NC_003085.1 + 5364 0.68 0.425199
Target:  5'- -gGGAcuCGGCgCGuccGGUCCCGucaCCGUCGAGg -3'
miRNA:   3'- caUCU--GCCG-GC---UCAGGGC---GGUAGCUC- -5'
11418 3' -58.3 NC_003085.1 + 8483 0.67 0.444182
Target:  5'- -aAGGCcGCCGAGgcgcuggCCCGCCAguaCGAc -3'
miRNA:   3'- caUCUGcCGGCUCa------GGGCGGUa--GCUc -5'
11418 3' -58.3 NC_003085.1 + 43756 1.09 0.000473
Target:  5'- aGUAGACGGCCGAGUCCCGCCAUCGAGg -3'
miRNA:   3'- -CAUCUGCCGGCUCAGGGCGGUAGCUC- -5'
11418 3' -58.3 NC_003085.1 + 32396 0.66 0.514088
Target:  5'- uGUGGGCGGCCGuacuUCUcgaCGCCcUCGAa -3'
miRNA:   3'- -CAUCUGCCGGCuc--AGG---GCGGuAGCUc -5'
11418 3' -58.3 NC_003085.1 + 24086 0.67 0.463632
Target:  5'- --cGACGGUgaAG-CCCGCCGUCGGc -3'
miRNA:   3'- cauCUGCCGgcUCaGGGCGGUAGCUc -5'
11418 3' -58.3 NC_003085.1 + 32355 0.67 0.444182
Target:  5'- gGUAGGCGuccuuGCCGuGGUCCCuGCCGUUGu- -3'
miRNA:   3'- -CAUCUGC-----CGGC-UCAGGG-CGGUAGCuc -5'
11418 3' -58.3 NC_003085.1 + 45594 0.68 0.43463
Target:  5'- -cAGACGG-CGGG-CgCGCCGUCGAc -3'
miRNA:   3'- caUCUGCCgGCUCaGgGCGGUAGCUc -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.