miRNA display CGI


Results 1 - 20 of 37 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
31730 3' -55.9 NC_006938.1 + 47714 1.12 0.000768
Target:  5'- aCCCGGCUCGUCCAGGAACAUGACCAGg -3'
miRNA:   3'- -GGGCCGAGCAGGUCCUUGUACUGGUC- -5'
31730 3' -55.9 NC_006938.1 + 19011 0.78 0.162325
Target:  5'- aCCGGCUCaUCCAGGggUccucugcUGACCAGa -3'
miRNA:   3'- gGGCCGAGcAGGUCCuuGu------ACUGGUC- -5'
31730 3' -55.9 NC_006938.1 + 29788 0.76 0.240187
Target:  5'- aUCCGGCUCGgCCgAGGGGCcagcccgGACCAGa -3'
miRNA:   3'- -GGGCCGAGCaGG-UCCUUGua-----CUGGUC- -5'
31730 3' -55.9 NC_006938.1 + 45590 0.74 0.323068
Target:  5'- aCCGGCUuuggUGUCCAGGAcgccaacagcuAUGUGACCGc -3'
miRNA:   3'- gGGCCGA----GCAGGUCCU-----------UGUACUGGUc -5'
31730 3' -55.9 NC_006938.1 + 51575 0.71 0.425501
Target:  5'- gUCCGGgUUGUCCAGGcAgGUGucaACCAGa -3'
miRNA:   3'- -GGGCCgAGCAGGUCCuUgUAC---UGGUC- -5'
31730 3' -55.9 NC_006938.1 + 15467 0.71 0.453976
Target:  5'- gCUGGcCUCGaCCAGGAGCGggcUGACgCGGg -3'
miRNA:   3'- gGGCC-GAGCaGGUCCUUGU---ACUG-GUC- -5'
31730 3' -55.9 NC_006938.1 + 42505 0.7 0.493482
Target:  5'- aUCCGGC-CGUUCGGGAcgauugACAUGAgCAc -3'
miRNA:   3'- -GGGCCGaGCAGGUCCU------UGUACUgGUc -5'
31730 3' -55.9 NC_006938.1 + 49288 0.7 0.503607
Target:  5'- uCCCGGa----CCAGGGcaGCAUGACCGGc -3'
miRNA:   3'- -GGGCCgagcaGGUCCU--UGUACUGGUC- -5'
31730 3' -55.9 NC_006938.1 + 50502 0.7 0.51382
Target:  5'- cUCCGGCUCGUCacuaCGGGGACGgagaACCuGg -3'
miRNA:   3'- -GGGCCGAGCAG----GUCCUUGUac--UGGuC- -5'
31730 3' -55.9 NC_006938.1 + 31942 0.69 0.544937
Target:  5'- aCCGGCUUGUCCAuGAACuucuUGGuCCGc -3'
miRNA:   3'- gGGCCGAGCAGGUcCUUGu---ACU-GGUc -5'
31730 3' -55.9 NC_006938.1 + 41962 0.69 0.544937
Target:  5'- aCCCGGCUCGUUCGgcacGGAGCGcaucaUGGgCGa -3'
miRNA:   3'- -GGGCCGAGCAGGU----CCUUGU-----ACUgGUc -5'
31730 3' -55.9 NC_006938.1 + 31164 0.69 0.555449
Target:  5'- uCCUcGC-CGUCCGGGAACAcccacuuguUGGCCGa -3'
miRNA:   3'- -GGGcCGaGCAGGUCCUUGU---------ACUGGUc -5'
31730 3' -55.9 NC_006938.1 + 59858 0.69 0.566018
Target:  5'- --aGGcCUCGUCCAGGAugaACGcGACCGu -3'
miRNA:   3'- gggCC-GAGCAGGUCCU---UGUaCUGGUc -5'
31730 3' -55.9 NC_006938.1 + 53507 0.68 0.598004
Target:  5'- aCCGGCUCGaugCCAGaGGACAcguUGuCCGc -3'
miRNA:   3'- gGGCCGAGCa--GGUC-CUUGU---ACuGGUc -5'
31730 3' -55.9 NC_006938.1 + 43391 0.68 0.608732
Target:  5'- aCCGGcCUCGUC---GAACAUGAuCCGGg -3'
miRNA:   3'- gGGCC-GAGCAGgucCUUGUACU-GGUC- -5'
31730 3' -55.9 NC_006938.1 + 25387 0.68 0.608732
Target:  5'- cCCUGGCuUCGgagCCuGGGACGUGuCCu- -3'
miRNA:   3'- -GGGCCG-AGCa--GGuCCUUGUACuGGuc -5'
31730 3' -55.9 NC_006938.1 + 41856 0.68 0.61303
Target:  5'- cCCCGuGCUgGUCCAGGucgucuaucucagagAGCcgGGgCAGg -3'
miRNA:   3'- -GGGC-CGAgCAGGUCC---------------UUGuaCUgGUC- -5'
31730 3' -55.9 NC_006938.1 + 56229 0.68 0.630238
Target:  5'- -aCGGUcucUCGUCCGGGAugAa-GCCAGa -3'
miRNA:   3'- ggGCCG---AGCAGGUCCUugUacUGGUC- -5'
31730 3' -55.9 NC_006938.1 + 50411 0.68 0.630238
Target:  5'- aCCGGCcugccaUCGuUCCAGuuGCAcggGACCAGg -3'
miRNA:   3'- gGGCCG------AGC-AGGUCcuUGUa--CUGGUC- -5'
31730 3' -55.9 NC_006938.1 + 50689 0.68 0.639922
Target:  5'- cCCCGGCgagcgccUgGUCCAGGAu--UGGCCc- -3'
miRNA:   3'- -GGGCCG-------AgCAGGUCCUuguACUGGuc -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.