miRNA display CGI


Results 1 - 20 of 88 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
15970 3' -55.7 NC_004065.1 + 33683 1.11 0.003693
Target:  5'- aGGCCGAGCGAUCGUAGCCGUACAGCAg -3'
miRNA:   3'- -CCGGCUCGCUAGCAUCGGCAUGUCGU- -5'
15970 3' -55.7 NC_004065.1 + 184850 0.78 0.432508
Target:  5'- cGGCCGAGgGAUCG-AGUCGagcggGCGGCGg -3'
miRNA:   3'- -CCGGCUCgCUAGCaUCGGCa----UGUCGU- -5'
15970 3' -55.7 NC_004065.1 + 164760 0.75 0.56279
Target:  5'- cGGCCGuGCGGUaCGUGGC-GUGCAGgGa -3'
miRNA:   3'- -CCGGCuCGCUA-GCAUCGgCAUGUCgU- -5'
15970 3' -55.7 NC_004065.1 + 31840 0.75 0.592322
Target:  5'- gGGCCGAccacGUGAUCGUGGCCG-ACAaGUu -3'
miRNA:   3'- -CCGGCU----CGCUAGCAUCGGCaUGU-CGu -5'
15970 3' -55.7 NC_004065.1 + 67967 0.74 0.602229
Target:  5'- -aUCGAGCGGUCGUGGC-GUucGCGGCAa -3'
miRNA:   3'- ccGGCUCGCUAGCAUCGgCA--UGUCGU- -5'
15970 3' -55.7 NC_004065.1 + 81202 0.74 0.622099
Target:  5'- uGGCCGAGCGAg---GGCaUGUugGGCAa -3'
miRNA:   3'- -CCGGCUCGCUagcaUCG-GCAugUCGU- -5'
15970 3' -55.7 NC_004065.1 + 104119 0.74 0.622099
Target:  5'- uGCCGAGCGGcCG-GGCC-UACAGCAc -3'
miRNA:   3'- cCGGCUCGCUaGCaUCGGcAUGUCGU- -5'
15970 3' -55.7 NC_004065.1 + 27209 0.73 0.671773
Target:  5'- uGGC--GGCGGUCGUGGUCG-GCAGCGu -3'
miRNA:   3'- -CCGgcUCGCUAGCAUCGGCaUGUCGU- -5'
15970 3' -55.7 NC_004065.1 + 195596 0.73 0.681647
Target:  5'- cGGCCGuGCGAUCGUGGa-GUccaAUGGCAg -3'
miRNA:   3'- -CCGGCuCGCUAGCAUCggCA---UGUCGU- -5'
15970 3' -55.7 NC_004065.1 + 192391 0.72 0.730275
Target:  5'- cGGCCGuguccaggacGGUGGccUGUgAGCCGUACAGCAu -3'
miRNA:   3'- -CCGGC----------UCGCUa-GCA-UCGGCAUGUCGU- -5'
15970 3' -55.7 NC_004065.1 + 208011 0.72 0.748285
Target:  5'- uGGCCGgguuagugccggcGGCGAUgaccgucggCGUGGCCGUgGCGGCc -3'
miRNA:   3'- -CCGGC-------------UCGCUA---------GCAUCGGCA-UGUCGu -5'
15970 3' -55.7 NC_004065.1 + 59558 0.72 0.749224
Target:  5'- cGCCGAGCGGUCu--GCgGcgGCAGCGa -3'
miRNA:   3'- cCGGCUCGCUAGcauCGgCa-UGUCGU- -5'
15970 3' -55.7 NC_004065.1 + 25607 0.71 0.767783
Target:  5'- aGGCCGAucuCGAUgGggccuGCCGUGCAGUg -3'
miRNA:   3'- -CCGGCUc--GCUAgCau---CGGCAUGUCGu -5'
15970 3' -55.7 NC_004065.1 + 159968 0.71 0.776896
Target:  5'- aGGaUCGcGGCGAUCGUGGCCGUcuccaccgugACgAGCGa -3'
miRNA:   3'- -CC-GGC-UCGCUAGCAUCGGCA----------UG-UCGU- -5'
15970 3' -55.7 NC_004065.1 + 79535 0.71 0.794746
Target:  5'- cGGCCGAGCGGgagaaGgcGGUCGaUGCGGCGc -3'
miRNA:   3'- -CCGGCUCGCUag---Ca-UCGGC-AUGUCGU- -5'
15970 3' -55.7 NC_004065.1 + 143291 0.71 0.794746
Target:  5'- gGGCCGAgGCGGcgUCGggGGCCGggGCAGgAg -3'
miRNA:   3'- -CCGGCU-CGCU--AGCa-UCGGCa-UGUCgU- -5'
15970 3' -55.7 NC_004065.1 + 99143 0.71 0.803466
Target:  5'- cGGCCGAcgGCGGUaaacacCGUGGCCGccucCAGCu -3'
miRNA:   3'- -CCGGCU--CGCUA------GCAUCGGCau--GUCGu -5'
15970 3' -55.7 NC_004065.1 + 159284 0.7 0.812041
Target:  5'- cGCCGAGCGGaUGauGCCGUuCAGCGu -3'
miRNA:   3'- cCGGCUCGCUaGCauCGGCAuGUCGU- -5'
15970 3' -55.7 NC_004065.1 + 1163 0.7 0.828719
Target:  5'- uGUgGAGCGGUCGcAGUCG-ACAGCu -3'
miRNA:   3'- cCGgCUCGCUAGCaUCGGCaUGUCGu -5'
15970 3' -55.7 NC_004065.1 + 63711 0.7 0.828719
Target:  5'- gGGCCGugaucgccuGGUGGUCGgcGCCGUagacAUAGCc -3'
miRNA:   3'- -CCGGC---------UCGCUAGCauCGGCA----UGUCGu -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.