miRNA display CGI


Results 1 - 20 of 21 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
18047 5' -56.3 NC_004680.1 + 27005 0.66 0.717929
Target:  5'- aCCAGGGUu---CGCCGUUgGGUCCg- -3'
miRNA:   3'- -GGUCCCGgcuuGUGGUAGgCUAGGag -5'
18047 5' -56.3 NC_004680.1 + 45037 0.66 0.707398
Target:  5'- -aAGGGCCGAAgcaugaGCCG-CCGGUUCa- -3'
miRNA:   3'- ggUCCCGGCUUg-----UGGUaGGCUAGGag -5'
18047 5' -56.3 NC_004680.1 + 47576 0.66 0.707398
Target:  5'- gUCAGGGuuuCCGAggccaGC-CCAUCCGAggaCCUUc -3'
miRNA:   3'- -GGUCCC---GGCU-----UGuGGUAGGCUa--GGAG- -5'
18047 5' -56.3 NC_004680.1 + 17311 0.66 0.701045
Target:  5'- aCCAGGaucagccgcuCCGAuugcgccacaccgggGCACCGUCCGAUCa-- -3'
miRNA:   3'- -GGUCCc---------GGCU---------------UGUGGUAGGCUAGgag -5'
18047 5' -56.3 NC_004680.1 + 19253 0.66 0.686133
Target:  5'- aCAGGuuccGgCGGugACCAUCaCGAUCCg- -3'
miRNA:   3'- gGUCC----CgGCUugUGGUAG-GCUAGGag -5'
18047 5' -56.3 NC_004680.1 + 55337 0.66 0.686133
Target:  5'- gCCcGGGCUGcGCACCAUCaguGUCCc- -3'
miRNA:   3'- -GGuCCCGGCuUGUGGUAGgc-UAGGag -5'
18047 5' -56.3 NC_004680.1 + 30425 0.66 0.686133
Target:  5'- gCCAGcGCaguacGACACCAagcguucCCGAUCCUCa -3'
miRNA:   3'- -GGUCcCGgc---UUGUGGUa------GGCUAGGAG- -5'
18047 5' -56.3 NC_004680.1 + 26096 0.66 0.664669
Target:  5'- cCCGcGGCCccgccggcugGAACGCCA-CCG-UCCUCu -3'
miRNA:   3'- -GGUcCCGG----------CUUGUGGUaGGCuAGGAG- -5'
18047 5' -56.3 NC_004680.1 + 33331 0.67 0.632277
Target:  5'- aUCGGGGCCucccGCACCGccgagCUGGUCCa- -3'
miRNA:   3'- -GGUCCCGGcu--UGUGGUa----GGCUAGGag -5'
18047 5' -56.3 NC_004680.1 + 14183 0.67 0.632277
Target:  5'- uCC-GGGCCGAGuucacUACCGgugCCGGuuUCCUUg -3'
miRNA:   3'- -GGuCCCGGCUU-----GUGGUa--GGCU--AGGAG- -5'
18047 5' -56.3 NC_004680.1 + 29814 0.68 0.589125
Target:  5'- gCCAGGugcgcaucGCCGAagguguGCGCaacaaaAUCCuGAUCCUCg -3'
miRNA:   3'- -GGUCC--------CGGCU------UGUGg-----UAGG-CUAGGAG- -5'
18047 5' -56.3 NC_004680.1 + 50163 0.68 0.589125
Target:  5'- --cGGGUCGcggucGCACCGggCCGGUCCUa -3'
miRNA:   3'- gguCCCGGCu----UGUGGUa-GGCUAGGAg -5'
18047 5' -56.3 NC_004680.1 + 41411 0.68 0.589125
Target:  5'- gCCGGGGCCGAugAUGCCGgcggCGAUCa-- -3'
miRNA:   3'- -GGUCCCGGCU--UGUGGUag--GCUAGgag -5'
18047 5' -56.3 NC_004680.1 + 21421 0.69 0.536018
Target:  5'- aCGGGGCUGAGC-CCG-CgCGGUCC-Ca -3'
miRNA:   3'- gGUCCCGGCUUGuGGUaG-GCUAGGaG- -5'
18047 5' -56.3 NC_004680.1 + 33236 0.69 0.513164
Target:  5'- aCC-GGGCCGccauccacaaccACAUCAacCCGAUCCUCg -3'
miRNA:   3'- -GGuCCCGGCu-----------UGUGGUa-GGCUAGGAG- -5'
18047 5' -56.3 NC_004680.1 + 12712 0.69 0.504953
Target:  5'- aCCAGcGCCGggUGCCAUCgCG-UCCa- -3'
miRNA:   3'- -GGUCcCGGCuuGUGGUAG-GCuAGGag -5'
18047 5' -56.3 NC_004680.1 + 20746 0.69 0.501888
Target:  5'- gCCGauGGGCCGGgucaacaaucuccaGCACCAUgCCGAUCa-- -3'
miRNA:   3'- -GGU--CCCGGCU--------------UGUGGUA-GGCUAGgag -5'
18047 5' -56.3 NC_004680.1 + 28319 0.7 0.464802
Target:  5'- gUCGGGGCCGAucCACCAgggaacaCCGGUgCCg- -3'
miRNA:   3'- -GGUCCCGGCUu-GUGGUa------GGCUA-GGag -5'
18047 5' -56.3 NC_004680.1 + 3388 0.73 0.308097
Target:  5'- uCCA-GGCCGAucuuCGCUAUcgacaaCCGAUCCUCa -3'
miRNA:   3'- -GGUcCCGGCUu---GUGGUA------GGCUAGGAG- -5'
18047 5' -56.3 NC_004680.1 + 5436 0.75 0.22806
Target:  5'- gCCAGGGCCGuGGCACCcgCaCGGguguaggCCUCc -3'
miRNA:   3'- -GGUCCCGGC-UUGUGGuaG-GCUa------GGAG- -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.