miRNA display CGI


Results 1 - 20 of 49 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
24107 3' -56.7 NC_005262.1 + 20737 0.66 0.716857
Target:  5'- -gCUCGGCaGCUCGAccccUGCCCGGuCGa -3'
miRNA:   3'- cgGAGCCG-CGAGCUc---AUGGGCUuGUc -5'
24107 3' -56.7 NC_005262.1 + 5042 0.66 0.716857
Target:  5'- cGCCggcCGGCGCcugaucggCGGGcagGCCCGcGGCGGc -3'
miRNA:   3'- -CGGa--GCCGCGa-------GCUCa--UGGGC-UUGUC- -5'
24107 3' -56.7 NC_005262.1 + 43236 0.66 0.716857
Target:  5'- uCCUCguguGGCGCUCGAagcaGUACgUCGuGCAGa -3'
miRNA:   3'- cGGAG----CCGCGAGCU----CAUG-GGCuUGUC- -5'
24107 3' -56.7 NC_005262.1 + 35865 0.66 0.716857
Target:  5'- cGCCaUCGaGCGCUCGAacgGCgugugguucacgUCGGACAGg -3'
miRNA:   3'- -CGG-AGC-CGCGAGCUca-UG------------GGCUUGUC- -5'
24107 3' -56.7 NC_005262.1 + 53726 0.66 0.714775
Target:  5'- gGCCgUGGCGCUCGAacgcgacuucaACCCGAcccACAa -3'
miRNA:   3'- -CGGaGCCGCGAGCUca---------UGGGCU---UGUc -5'
24107 3' -56.7 NC_005262.1 + 19460 0.66 0.706416
Target:  5'- gGCCUCGaUGCUCaccgGAcGgcCCCGAAUAGg -3'
miRNA:   3'- -CGGAGCcGCGAG----CU-CauGGGCUUGUC- -5'
24107 3' -56.7 NC_005262.1 + 33499 0.66 0.706416
Target:  5'- gGCCU-GaCGCUCGAGgACUgGAACGGc -3'
miRNA:   3'- -CGGAgCcGCGAGCUCaUGGgCUUGUC- -5'
24107 3' -56.7 NC_005262.1 + 9594 0.66 0.695905
Target:  5'- cGgCUCgcgcgGGCGCUgGAGcacgcGCUCGGACAGg -3'
miRNA:   3'- -CgGAG-----CCGCGAgCUCa----UGGGCUUGUC- -5'
24107 3' -56.7 NC_005262.1 + 6755 0.66 0.695905
Target:  5'- cGCCUCGuuGUGCUCGuGg--CCGGGCAc -3'
miRNA:   3'- -CGGAGC--CGCGAGCuCaugGGCUUGUc -5'
24107 3' -56.7 NC_005262.1 + 4575 0.66 0.695905
Target:  5'- cGCCagcggCGGCGCUgcucgggcgUGAGcGCCCgcagGAACGGg -3'
miRNA:   3'- -CGGa----GCCGCGA---------GCUCaUGGG----CUUGUC- -5'
24107 3' -56.7 NC_005262.1 + 26780 0.66 0.694851
Target:  5'- cGCUUCGGCacauggcggauucGCUUGAGgcGCCCGGccuuGCAu -3'
miRNA:   3'- -CGGAGCCG-------------CGAGCUCa-UGGGCU----UGUc -5'
24107 3' -56.7 NC_005262.1 + 57179 0.66 0.674719
Target:  5'- cCCUCGcCGCUCGuGUcgcucccgcucgACCCGGACc- -3'
miRNA:   3'- cGGAGCcGCGAGCuCA------------UGGGCUUGuc -5'
24107 3' -56.7 NC_005262.1 + 31888 0.67 0.642678
Target:  5'- cGUC-CGGCGCgUCGAGcggguUGCCCGcgUAGc -3'
miRNA:   3'- -CGGaGCCGCG-AGCUC-----AUGGGCuuGUC- -5'
24107 3' -56.7 NC_005262.1 + 36603 0.67 0.636251
Target:  5'- cGCUUCGGCGCaaaggggaaugcgguUCG-GUugCUGGAUGGc -3'
miRNA:   3'- -CGGAGCCGCG---------------AGCuCAugGGCUUGUC- -5'
24107 3' -56.7 NC_005262.1 + 29565 0.67 0.621255
Target:  5'- -aCUCGGCGCccaugUCGAGcgugucGCCCGAagccgcgaucGCGGg -3'
miRNA:   3'- cgGAGCCGCG-----AGCUCa-----UGGGCU----------UGUC- -5'
24107 3' -56.7 NC_005262.1 + 25803 0.67 0.621255
Target:  5'- gGCa--GGCGCcCGAGUACCgGAugGa -3'
miRNA:   3'- -CGgagCCGCGaGCUCAUGGgCUugUc -5'
24107 3' -56.7 NC_005262.1 + 46026 0.67 0.621255
Target:  5'- uGCgCUCGGC-CUCGA--AUUCGAGCAGc -3'
miRNA:   3'- -CG-GAGCCGcGAGCUcaUGGGCUUGUC- -5'
24107 3' -56.7 NC_005262.1 + 59206 0.67 0.621255
Target:  5'- uCCUgCgGGCGCUCac--GCCCGAGCAGc -3'
miRNA:   3'- cGGA-G-CCGCGAGcucaUGGGCUUGUC- -5'
24107 3' -56.7 NC_005262.1 + 48563 0.67 0.610553
Target:  5'- gGCCgcuacaaGGUGCUCGA---CCCGAACGa -3'
miRNA:   3'- -CGGag-----CCGCGAGCUcauGGGCUUGUc -5'
24107 3' -56.7 NC_005262.1 + 22709 0.67 0.610553
Target:  5'- gGCCggCGGCGUUgaCGAgcGUGCCgGGACAc -3'
miRNA:   3'- -CGGa-GCCGCGA--GCU--CAUGGgCUUGUc -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.