miRNA display CGI


Results 1 - 20 of 33 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
31016 3' -60.2 NC_006560.1 + 1512 0.67 0.585857
Target:  5'- gGAGCgcgugcaucGGGCCCCG-GGCGCgcgcccgGCCAc -3'
miRNA:   3'- -UUCGa--------CUCGGGGCaCCGCGaca----UGGU- -5'
31016 3' -60.2 NC_006560.1 + 4489 0.68 0.526157
Target:  5'- cGGGCgcgccccaGAGCCCCG-GGCGgCUGUcGCCc -3'
miRNA:   3'- -UUCGa-------CUCGGGGCaCCGC-GACA-UGGu -5'
31016 3' -60.2 NC_006560.1 + 5661 0.68 0.545842
Target:  5'- cGGCUccGCCCCGgGGCGCgggGgcgGCCGg -3'
miRNA:   3'- uUCGAcuCGGGGCaCCGCGa--Ca--UGGU- -5'
31016 3' -60.2 NC_006560.1 + 10492 0.7 0.441473
Target:  5'- gGGGCggGGGCCCCGUcgGGUcgGCcGUACCAc -3'
miRNA:   3'- -UUCGa-CUCGGGGCA--CCG--CGaCAUGGU- -5'
31016 3' -60.2 NC_006560.1 + 13078 0.67 0.636557
Target:  5'- cGGCagGGGCCCU-UGGCGCgGUGCUc -3'
miRNA:   3'- uUCGa-CUCGGGGcACCGCGaCAUGGu -5'
31016 3' -60.2 NC_006560.1 + 22163 0.67 0.636557
Target:  5'- gGAGgaGAcGgCCCG-GGCGCUGUccccGCCGu -3'
miRNA:   3'- -UUCgaCU-CgGGGCaCCGCGACA----UGGU- -5'
31016 3' -60.2 NC_006560.1 + 25153 0.66 0.656866
Target:  5'- -cGCUGcGgCCCGUcuaccuGGCGCUGgACCGc -3'
miRNA:   3'- uuCGACuCgGGGCA------CCGCGACaUGGU- -5'
31016 3' -60.2 NC_006560.1 + 30822 0.66 0.666995
Target:  5'- uGGCccaGGCCCUGgcccaGGCGCUGgGCCGg -3'
miRNA:   3'- uUCGac-UCGGGGCa----CCGCGACaUGGU- -5'
31016 3' -60.2 NC_006560.1 + 38072 0.72 0.319439
Target:  5'- cGGCcGGGCCCCGggGGUGUgucgGUGCCGc -3'
miRNA:   3'- uUCGaCUCGGGGCa-CCGCGa---CAUGGU- -5'
31016 3' -60.2 NC_006560.1 + 44577 0.67 0.626394
Target:  5'- cAGCUGGGCCCCGacacGGCGa---GCCu -3'
miRNA:   3'- uUCGACUCGGGGCa---CCGCgacaUGGu -5'
31016 3' -60.2 NC_006560.1 + 46377 0.66 0.666995
Target:  5'- gGGGCcGAguacguguccGCCCCGggGGUGCUgGUGCCu -3'
miRNA:   3'- -UUCGaCU----------CGGGGCa-CCGCGA-CAUGGu -5'
31016 3' -60.2 NC_006560.1 + 51880 0.67 0.626394
Target:  5'- -cGCUcGGGCCCCG-GGCGggGUGgCGg -3'
miRNA:   3'- uuCGA-CUCGGGGCaCCGCgaCAUgGU- -5'
31016 3' -60.2 NC_006560.1 + 52233 0.7 0.450513
Target:  5'- cGAGCUGccuGGCCCCGgccGGCGCggcGcACCGc -3'
miRNA:   3'- -UUCGAC---UCGGGGCa--CCGCGa--CaUGGU- -5'
31016 3' -60.2 NC_006560.1 + 63337 0.66 0.646717
Target:  5'- uGGGCUGGGCCgUGUGGUcgaucaugauGUUG-ACCAu -3'
miRNA:   3'- -UUCGACUCGGgGCACCG----------CGACaUGGU- -5'
31016 3' -60.2 NC_006560.1 + 70098 0.67 0.615219
Target:  5'- cAGCUccGCCCCGUGGCccaGCUgccccccGUGCCc -3'
miRNA:   3'- uUCGAcuCGGGGCACCG---CGA-------CAUGGu -5'
31016 3' -60.2 NC_006560.1 + 75510 0.66 0.687162
Target:  5'- cGAGCUGcGCCgCCugcaGGCGCUG-GCCGc -3'
miRNA:   3'- -UUCGACuCGG-GGca--CCGCGACaUGGU- -5'
31016 3' -60.2 NC_006560.1 + 83746 0.66 0.666995
Target:  5'- gGAGCUcGGGCCCCucaUGGCGaCcGUGCuCAa -3'
miRNA:   3'- -UUCGA-CUCGGGGc--ACCGC-GaCAUG-GU- -5'
31016 3' -60.2 NC_006560.1 + 83848 0.66 0.656866
Target:  5'- uGGCUG-GCCCUGcGGCGCcuccggGCCGa -3'
miRNA:   3'- uUCGACuCGGGGCaCCGCGaca---UGGU- -5'
31016 3' -60.2 NC_006560.1 + 87157 0.67 0.616234
Target:  5'- -cGCUGcgcgGGCCCgGcGGCGUaGUACCGg -3'
miRNA:   3'- uuCGAC----UCGGGgCaCCGCGaCAUGGU- -5'
31016 3' -60.2 NC_006560.1 + 91585 0.73 0.312265
Target:  5'- -uGCUGAGUCgCCGcucgaaccUGGCGgUGUACCAg -3'
miRNA:   3'- uuCGACUCGG-GGC--------ACCGCgACAUGGU- -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.