miRNA display CGI


Results 1 - 19 of 19 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
23518 3' -47.7 NC_005260.1 + 90293 0.66 0.999953
Target:  5'- cAUCGaaauacGCUCCAAAUUCG-GUACGaaGCg -3'
miRNA:   3'- -UAGC------UGAGGUUUAGGUuCAUGUgaCG- -5'
23518 3' -47.7 NC_005260.1 + 184463 0.66 0.999938
Target:  5'- -cCGAUgaauauucuuUCCAGAUUCGAGUGcCAgUGCc -3'
miRNA:   3'- uaGCUG----------AGGUUUAGGUUCAU-GUgACG- -5'
23518 3' -47.7 NC_005260.1 + 232100 0.66 0.999938
Target:  5'- -aUGACUUCAAAgacuUCCAuucugGCACUGUa -3'
miRNA:   3'- uaGCUGAGGUUU----AGGUuca--UGUGACG- -5'
23518 3' -47.7 NC_005260.1 + 27904 0.67 0.999862
Target:  5'- -aCGACUCCugguAAaCCGGGUGuaguUGCUGCu -3'
miRNA:   3'- uaGCUGAGGu---UUaGGUUCAU----GUGACG- -5'
23518 3' -47.7 NC_005260.1 + 111150 0.67 0.999862
Target:  5'- --gGACUaCCAAAUUUAGGUGCAUUaGUa -3'
miRNA:   3'- uagCUGA-GGUUUAGGUUCAUGUGA-CG- -5'
23518 3' -47.7 NC_005260.1 + 23321 0.67 0.999711
Target:  5'- uUUGAUUCCGaauGAUCCGGuUGCACcgGCa -3'
miRNA:   3'- uAGCUGAGGU---UUAGGUUcAUGUGa-CG- -5'
23518 3' -47.7 NC_005260.1 + 12728 0.67 0.999711
Target:  5'- gAUUGugUUCGAAcCCGAGUucCAUUGCu -3'
miRNA:   3'- -UAGCugAGGUUUaGGUUCAu-GUGACG- -5'
23518 3' -47.7 NC_005260.1 + 221060 0.67 0.999711
Target:  5'- aGUCGGgUCCAuugcAUUCAAG-ACugUGCc -3'
miRNA:   3'- -UAGCUgAGGUu---UAGGUUCaUGugACG- -5'
23518 3' -47.7 NC_005260.1 + 178093 0.68 0.999543
Target:  5'- -aCGACgaugCCGAAUCCGuuacCACUGUg -3'
miRNA:   3'- uaGCUGa---GGUUUAGGUucauGUGACG- -5'
23518 3' -47.7 NC_005260.1 + 219761 0.68 0.999431
Target:  5'- -aCGGCUCCGGuuGUgaguguucuaUCAGGUGCaACUGCu -3'
miRNA:   3'- uaGCUGAGGUU--UA----------GGUUCAUG-UGACG- -5'
23518 3' -47.7 NC_005260.1 + 96441 0.69 0.998443
Target:  5'- aAUCuGACUaCCGAacGUCUGAaUGCACUGCg -3'
miRNA:   3'- -UAG-CUGA-GGUU--UAGGUUcAUGUGACG- -5'
23518 3' -47.7 NC_005260.1 + 40615 0.7 0.997762
Target:  5'- -gCGAUUCC--GUUCAAGU-CGCUGCc -3'
miRNA:   3'- uaGCUGAGGuuUAGGUUCAuGUGACG- -5'
23518 3' -47.7 NC_005260.1 + 61059 0.7 0.995642
Target:  5'- cAUCGcagCCAAGucUCCAAGUGCuACUGUa -3'
miRNA:   3'- -UAGCugaGGUUU--AGGUUCAUG-UGACG- -5'
23518 3' -47.7 NC_005260.1 + 207259 0.71 0.990942
Target:  5'- uGUCaccGCUCCAAgcGUCUggGUuCGCUGCa -3'
miRNA:   3'- -UAGc--UGAGGUU--UAGGuuCAuGUGACG- -5'
23518 3' -47.7 NC_005260.1 + 230864 0.73 0.978554
Target:  5'- gAUCG-CUCCAAAucauuUCCAAGUAgAUUGUc -3'
miRNA:   3'- -UAGCuGAGGUUU-----AGGUUCAUgUGACG- -5'
23518 3' -47.7 NC_005260.1 + 156389 0.76 0.92295
Target:  5'- -gCGGCUCCGAuGUCCGAuUACaACUGCg -3'
miRNA:   3'- uaGCUGAGGUU-UAGGUUcAUG-UGACG- -5'
23518 3' -47.7 NC_005260.1 + 108928 0.78 0.853354
Target:  5'- cGUCGuCUCCAccaAAUUUAAGUGCAUUGCc -3'
miRNA:   3'- -UAGCuGAGGU---UUAGGUUCAUGUGACG- -5'
23518 3' -47.7 NC_005260.1 + 214713 0.79 0.81915
Target:  5'- uUCGACUCCAGAauaacgagauuuUCCGGGUACuguuCUGUu -3'
miRNA:   3'- uAGCUGAGGUUU------------AGGUUCAUGu---GACG- -5'
23518 3' -47.7 NC_005260.1 + 17891 1.11 0.019729
Target:  5'- aAUCGACUCCAAAUCCAAGUACACUGCu -3'
miRNA:   3'- -UAGCUGAGGUUUAGGUUCAUGUGACG- -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.