miRNA display CGI


Results 1 - 20 of 22 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
1411 3' -55.7 NC_001335.1 + 3168 0.66 0.654389
Target:  5'- cUCGCCuuGGCGAgGCGcugcuUGaGCACGUCGGu -3'
miRNA:   3'- cAGCGG--CUGCUgCGU-----AC-CGUGUAGUU- -5'
1411 3' -55.7 NC_001335.1 + 30184 0.66 0.654389
Target:  5'- -gCGCCGAUGGCGauccGCACGUCc- -3'
miRNA:   3'- caGCGGCUGCUGCguacCGUGUAGuu -5'
1411 3' -55.7 NC_001335.1 + 38516 0.66 0.64324
Target:  5'- cGUCGCCGugGAagg--GGCACAggCAc -3'
miRNA:   3'- -CAGCGGCugCUgcguaCCGUGUa-GUu -5'
1411 3' -55.7 NC_001335.1 + 20037 0.66 0.63208
Target:  5'- -aCGCUGACG-UGuCGUcGGUACAUCAAg -3'
miRNA:   3'- caGCGGCUGCuGC-GUA-CCGUGUAGUU- -5'
1411 3' -55.7 NC_001335.1 + 8611 0.66 0.63208
Target:  5'- aGUCGCCGA--GCGCcaGGC-CGUCGAg -3'
miRNA:   3'- -CAGCGGCUgcUGCGuaCCGuGUAGUU- -5'
1411 3' -55.7 NC_001335.1 + 14714 0.66 0.609771
Target:  5'- uUCGCCgcGACGACGCGauUGaGCugccCAUCGAu -3'
miRNA:   3'- cAGCGG--CUGCUGCGU--AC-CGu---GUAGUU- -5'
1411 3' -55.7 NC_001335.1 + 12691 0.67 0.587541
Target:  5'- -gCGUCGGCGACGUuccgGGCcgaucugaucgACAUCGAa -3'
miRNA:   3'- caGCGGCUGCUGCGua--CCG-----------UGUAGUU- -5'
1411 3' -55.7 NC_001335.1 + 36563 0.67 0.576479
Target:  5'- -aCG-CGAUGAUGCGguucGGCACGUCGGu -3'
miRNA:   3'- caGCgGCUGCUGCGUa---CCGUGUAGUU- -5'
1411 3' -55.7 NC_001335.1 + 10753 0.68 0.54361
Target:  5'- uUCGCCGcgugcuagGCGGCGUcgGaGCGCGUUGAg -3'
miRNA:   3'- cAGCGGC--------UGCUGCGuaC-CGUGUAGUU- -5'
1411 3' -55.7 NC_001335.1 + 44487 0.68 0.54361
Target:  5'- aUgGCCGGCGGCGgGUucaGGUACGUCc- -3'
miRNA:   3'- cAgCGGCUGCUGCgUA---CCGUGUAGuu -5'
1411 3' -55.7 NC_001335.1 + 13104 0.68 0.54361
Target:  5'- --aGUCGugGACGCAccGGCACAcCGGa -3'
miRNA:   3'- cagCGGCugCUGCGUa-CCGUGUaGUU- -5'
1411 3' -55.7 NC_001335.1 + 47561 0.68 0.520968
Target:  5'- -cCGCCGugGAgGUaagggcgGUGGCcACAUCGGa -3'
miRNA:   3'- caGCGGCugCUgCG-------UACCG-UGUAGUU- -5'
1411 3' -55.7 NC_001335.1 + 11431 0.68 0.511377
Target:  5'- -aCGCCGAgGAacgGCGUGGUGCgGUCAGg -3'
miRNA:   3'- caGCGGCUgCUg--CGUACCGUG-UAGUU- -5'
1411 3' -55.7 NC_001335.1 + 7570 0.69 0.479964
Target:  5'- uGUCgGCCGGCGcuuccaGCGCGUcGUACAUCAu -3'
miRNA:   3'- -CAG-CGGCUGC------UGCGUAcCGUGUAGUu -5'
1411 3' -55.7 NC_001335.1 + 50754 0.7 0.429832
Target:  5'- cGUCgGCCGgggGCGGCGCAccuugGGCGCGUUg- -3'
miRNA:   3'- -CAG-CGGC---UGCUGCGUa----CCGUGUAGuu -5'
1411 3' -55.7 NC_001335.1 + 13788 0.7 0.382914
Target:  5'- --aGCCaGACGGCGCGUGGC-CGaacUCAAg -3'
miRNA:   3'- cagCGG-CUGCUGCGUACCGuGU---AGUU- -5'
1411 3' -55.7 NC_001335.1 + 38206 0.72 0.307463
Target:  5'- aUCGCCGAauCGACG-GUGGCACAcCGAa -3'
miRNA:   3'- cAGCGGCU--GCUGCgUACCGUGUaGUU- -5'
1411 3' -55.7 NC_001335.1 + 32863 0.73 0.277766
Target:  5'- cGUCGCCGACGGCGCGgucucaGGCuCAg--- -3'
miRNA:   3'- -CAGCGGCUGCUGCGUa-----CCGuGUaguu -5'
1411 3' -55.7 NC_001335.1 + 40696 0.73 0.277766
Target:  5'- -aCGCCGACGuCGCAUcGGagaACGUCAGc -3'
miRNA:   3'- caGCGGCUGCuGCGUA-CCg--UGUAGUU- -5'
1411 3' -55.7 NC_001335.1 + 45660 0.73 0.270709
Target:  5'- cUCGCCaACGAUGaacUGGCGCAUCAGa -3'
miRNA:   3'- cAGCGGcUGCUGCgu-ACCGUGUAGUU- -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.