miRNA display CGI


Results 1 - 8 of 8 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
28550 5' -53.3 NC_005946.1 + 12955 0.71 0.714985
Target:  5'- aGGUGcGCCUACA-GGuGCUccaacGUGUCCGu -3'
miRNA:   3'- -CCGC-CGGAUGUaCCuCGAu----UACAGGU- -5'
28550 5' -53.3 NC_005946.1 + 13348 0.66 0.931616
Target:  5'- cGgGGCCUACAuaucccUGcuGCUGggGUCCAg -3'
miRNA:   3'- cCgCCGGAUGU------ACcuCGAUuaCAGGU- -5'
28550 5' -53.3 NC_005946.1 + 39996 0.66 0.926125
Target:  5'- uGgGGCuCUGCGaugucccguUGGGGCUcugcGAUGUCCc -3'
miRNA:   3'- cCgCCG-GAUGU---------ACCUCGA----UUACAGGu -5'
28550 5' -53.3 NC_005946.1 + 47931 0.66 0.914354
Target:  5'- cGGCGGCCUcCAU-GAGCUccucGAcucccuuccUGUCCc -3'
miRNA:   3'- -CCGCCGGAuGUAcCUCGA----UU---------ACAGGu -5'
28550 5' -53.3 NC_005946.1 + 59198 0.66 0.908075
Target:  5'- cGCGGCCUGCGccugcUGG-GCaauguUGUCUAu -3'
miRNA:   3'- cCGCCGGAUGU-----ACCuCGauu--ACAGGU- -5'
28550 5' -53.3 NC_005946.1 + 63714 0.68 0.86508
Target:  5'- uGGUGGCCUccaucacggcgcACAUGGAGgggUAGUGgUCUAc -3'
miRNA:   3'- -CCGCCGGA------------UGUACCUCg--AUUAC-AGGU- -5'
28550 5' -53.3 NC_005946.1 + 73569 0.74 0.544597
Target:  5'- uGGCGGCCcuccuCAUGGAGCagcacgcGUCCGc -3'
miRNA:   3'- -CCGCCGGau---GUACCUCGauua---CAGGU- -5'
28550 5' -53.3 NC_005946.1 + 98189 0.67 0.901537
Target:  5'- gGGCGGCCUGCAccu-GCUccacaaccAUGUCCc -3'
miRNA:   3'- -CCGCCGGAUGUaccuCGAu-------UACAGGu -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.