miRNA display CGI


Results 1 - 20 of 26 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
27025 5' -54.4 NC_005832.1 + 2653 0.66 0.903983
Target:  5'- uUgUCGCgGAGGAGGGcCUGUG-GACu -3'
miRNA:   3'- uGgGGUGgCUUUUCCCaGACACuCUG- -5'
27025 5' -54.4 NC_005832.1 + 654 0.66 0.903983
Target:  5'- gACCCCGCCG---GGGG-CUGgUGcAGAa -3'
miRNA:   3'- -UGGGGUGGCuuuUCCCaGAC-AC-UCUg -5'
27025 5' -54.4 NC_005832.1 + 47425 0.66 0.897353
Target:  5'- gACCUUAUgGAGAAGcuccaGGUCUggGUGGGACu -3'
miRNA:   3'- -UGGGGUGgCUUUUC-----CCAGA--CACUCUG- -5'
27025 5' -54.4 NC_005832.1 + 95720 0.66 0.890473
Target:  5'- gUCCUGCCGGuccuAGGGUUccugGUGGGAUc -3'
miRNA:   3'- uGGGGUGGCUuu--UCCCAGa---CACUCUG- -5'
27025 5' -54.4 NC_005832.1 + 95510 0.66 0.890473
Target:  5'- gUCCUGCCGGuccuAGGGUUccugGUGGGAUc -3'
miRNA:   3'- uGGGGUGGCUuu--UCCCAGa---CACUCUG- -5'
27025 5' -54.4 NC_005832.1 + 54025 0.66 0.883349
Target:  5'- gACCCCuuuCUGguGA-GGUCUGggaGAGACg -3'
miRNA:   3'- -UGGGGu--GGCuuUUcCCAGACa--CUCUG- -5'
27025 5' -54.4 NC_005832.1 + 54260 0.66 0.883349
Target:  5'- cCCCCGugUCGuguAGGGUCcucuugucUGUGAGGCc -3'
miRNA:   3'- uGGGGU--GGCuuuUCCCAG--------ACACUCUG- -5'
27025 5' -54.4 NC_005832.1 + 4755 0.67 0.871452
Target:  5'- cCCCCGCCGAucccauccuGGGGUCguaaacgGaccccgucucugccuUGAGGCa -3'
miRNA:   3'- uGGGGUGGCUuu-------UCCCAGa------C---------------ACUCUG- -5'
27025 5' -54.4 NC_005832.1 + 49375 0.67 0.860555
Target:  5'- uGCa-CACCGAcauGGGG-CUGUGAGAa -3'
miRNA:   3'- -UGggGUGGCUuu-UCCCaGACACUCUg -5'
27025 5' -54.4 NC_005832.1 + 35270 0.67 0.85736
Target:  5'- gGCCCCuguCCGAAGgcAGGGacaggCUGguucucuuugcggGAGACg -3'
miRNA:   3'- -UGGGGu--GGCUUU--UCCCa----GACa------------CUCUG- -5'
27025 5' -54.4 NC_005832.1 + 32724 0.67 0.852503
Target:  5'- cGCCUCGuCCGGggagaggcuGGAGGuGUCUGcggGAGGCa -3'
miRNA:   3'- -UGGGGU-GGCU---------UUUCC-CAGACa--CUCUG- -5'
27025 5' -54.4 NC_005832.1 + 32342 0.68 0.809168
Target:  5'- uCCCCGCCGGggcugGAGGGGgauccUUGUG-GGCu -3'
miRNA:   3'- uGGGGUGGCU-----UUUCCCa----GACACuCUG- -5'
27025 5' -54.4 NC_005832.1 + 52179 0.68 0.790558
Target:  5'- gGCCCUcUUGAcguAGGGUCUG-GGGACc -3'
miRNA:   3'- -UGGGGuGGCUuu-UCCCAGACaCUCUG- -5'
27025 5' -54.4 NC_005832.1 + 100357 0.69 0.7684
Target:  5'- cCCCCGCUG-GAGGGGauguaaaugcuuacUCUGUGuGGCc -3'
miRNA:   3'- uGGGGUGGCuUUUCCC--------------AGACACuCUG- -5'
27025 5' -54.4 NC_005832.1 + 59258 0.69 0.761513
Target:  5'- aACCCU-CCGAGguuGAGGGUuggaaaCUGUGuGACa -3'
miRNA:   3'- -UGGGGuGGCUU---UUCCCA------GACACuCUG- -5'
27025 5' -54.4 NC_005832.1 + 80033 0.69 0.761513
Target:  5'- cCCCCAUCGccGAAGGGUCc--GAGGCc -3'
miRNA:   3'- uGGGGUGGCu-UUUCCCAGacaCUCUG- -5'
27025 5' -54.4 NC_005832.1 + 64962 0.69 0.75157
Target:  5'- cGCCUCcauACCGG--AGGGUgUGUGGGAa -3'
miRNA:   3'- -UGGGG---UGGCUuuUCCCAgACACUCUg -5'
27025 5' -54.4 NC_005832.1 + 28336 0.69 0.741514
Target:  5'- uCCCCuCCGAggggggAAAGGGUUUacGUGAGAa -3'
miRNA:   3'- uGGGGuGGCU------UUUCCCAGA--CACUCUg -5'
27025 5' -54.4 NC_005832.1 + 83391 0.69 0.731354
Target:  5'- gGCCCCGCCaccucAAGGGUaUGgaggGAGACc -3'
miRNA:   3'- -UGGGGUGGcuu--UUCCCAgACa---CUCUG- -5'
27025 5' -54.4 NC_005832.1 + 36522 0.69 0.731354
Target:  5'- cGCCCUguacaACUGGAuGGGGUCgg-GAGACu -3'
miRNA:   3'- -UGGGG-----UGGCUUuUCCCAGacaCUCUG- -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.