miRNA display CGI


Results 1 - 20 of 28 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
28165 5' -50.5 NC_005887.1 + 13393 0.66 0.86006
Target:  5'- -aAgGCCggcGCgGCGGACGUcgGCGGCAAg -3'
miRNA:   3'- uaUgUGGau-UG-UGCCUGCA--UGUCGUU- -5'
28165 5' -50.5 NC_005887.1 + 4353 0.66 0.857388
Target:  5'- -gACGCC-GGCGCGGAUGUggaugucgaguacgACAGCc- -3'
miRNA:   3'- uaUGUGGaUUGUGCCUGCA--------------UGUCGuu -5'
28165 5' -50.5 NC_005887.1 + 25017 0.66 0.85106
Target:  5'- uGUGCGCgUcagcauCGCGGAaGUGCAGCAc -3'
miRNA:   3'- -UAUGUGgAuu----GUGCCUgCAUGUCGUu -5'
28165 5' -50.5 NC_005887.1 + 19168 0.66 0.842732
Target:  5'- -gGCACCgauuauuccgugagcGGCGCGGGCGUggagacagGCGGCGc -3'
miRNA:   3'- uaUGUGGa--------------UUGUGCCUGCA--------UGUCGUu -5'
28165 5' -50.5 NC_005887.1 + 24225 0.66 0.841794
Target:  5'- -cGCGCUUcGC-CGGuuGCGUACAGCGc -3'
miRNA:   3'- uaUGUGGAuUGuGCC--UGCAUGUCGUu -5'
28165 5' -50.5 NC_005887.1 + 25343 0.66 0.841794
Target:  5'- -aGCACCUugcucuGCGCGuGGCGgauCGGCAc -3'
miRNA:   3'- uaUGUGGAu-----UGUGC-CUGCau-GUCGUu -5'
28165 5' -50.5 NC_005887.1 + 2679 0.66 0.841794
Target:  5'- -aGCACCUGguGCGCGuGaaGCGUacggGCGGCAAg -3'
miRNA:   3'- uaUGUGGAU--UGUGC-C--UGCA----UGUCGUU- -5'
28165 5' -50.5 NC_005887.1 + 21390 0.67 0.812509
Target:  5'- -aGCGCC-AGCGCGGGa--ACAGCGAg -3'
miRNA:   3'- uaUGUGGaUUGUGCCUgcaUGUCGUU- -5'
28165 5' -50.5 NC_005887.1 + 27216 0.67 0.812509
Target:  5'- aGUugAUCgagAACACGGGCGcaucGCGGCGc -3'
miRNA:   3'- -UAugUGGa--UUGUGCCUGCa---UGUCGUu -5'
28165 5' -50.5 NC_005887.1 + 14843 0.67 0.790816
Target:  5'- -gGCACgUu-CGCGGGCGUgcacaccGCAGCAAc -3'
miRNA:   3'- uaUGUGgAuuGUGCCUGCA-------UGUCGUU- -5'
28165 5' -50.5 NC_005887.1 + 31266 0.67 0.770457
Target:  5'- gAUGCGCC--ACGCGGAauCGUuugaGCAGCGg -3'
miRNA:   3'- -UAUGUGGauUGUGCCU--GCA----UGUCGUu -5'
28165 5' -50.5 NC_005887.1 + 7839 0.68 0.748384
Target:  5'- cUGCgGCCUG--AUGGGCGUGCAGUAc -3'
miRNA:   3'- uAUG-UGGAUugUGCCUGCAUGUCGUu -5'
28165 5' -50.5 NC_005887.1 + 13105 0.68 0.737136
Target:  5'- -aACACCUAACACGaacggagaacGACGUGCAu--- -3'
miRNA:   3'- uaUGUGGAUUGUGC----------CUGCAUGUcguu -5'
28165 5' -50.5 NC_005887.1 + 18107 0.68 0.737136
Target:  5'- -aAUACCUGACAcCGGACGcGCuGUAc -3'
miRNA:   3'- uaUGUGGAUUGU-GCCUGCaUGuCGUu -5'
28165 5' -50.5 NC_005887.1 + 8213 0.68 0.725764
Target:  5'- -cGCACCgacacGCGCGGGCuGUuCAGCAu -3'
miRNA:   3'- uaUGUGGau---UGUGCCUG-CAuGUCGUu -5'
28165 5' -50.5 NC_005887.1 + 29486 0.69 0.68755
Target:  5'- -gGCACCUGcCACGGuCGUGCcuuccguguuggucAGCAGc -3'
miRNA:   3'- uaUGUGGAUuGUGCCuGCAUG--------------UCGUU- -5'
28165 5' -50.5 NC_005887.1 + 26489 0.69 0.66757
Target:  5'- gGUGCGCCUGcugcGCGCGGGCGUuucccucgaucGCGccgcGCAAg -3'
miRNA:   3'- -UAUGUGGAU----UGUGCCUGCA-----------UGU----CGUU- -5'
28165 5' -50.5 NC_005887.1 + 12233 0.69 0.66757
Target:  5'- uUGCAUau-GCACGGGCGUuCGGCGu -3'
miRNA:   3'- uAUGUGgauUGUGCCUGCAuGUCGUu -5'
28165 5' -50.5 NC_005887.1 + 11365 0.69 0.65576
Target:  5'- ---aGCCUGaucaGCGCGGGCGU-CAGCGc -3'
miRNA:   3'- uaugUGGAU----UGUGCCUGCAuGUCGUu -5'
28165 5' -50.5 NC_005887.1 + 12755 0.7 0.643926
Target:  5'- aGUACACCcGgaaguggcagcGCACGaaGACGUACGGCGGg -3'
miRNA:   3'- -UAUGUGGaU-----------UGUGC--CUGCAUGUCGUU- -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.