miRNA display CGI


Results 1 - 20 of 50 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
14252 3' -56.4 NC_003521.1 + 7756 0.66 0.954507
Target:  5'- gCCGGACugcugAUCaUUGuGGCUuCGCuAGUGGGa -3'
miRNA:   3'- -GGCCUG-----UAG-AGC-CCGAuGCG-UCACCU- -5'
14252 3' -56.4 NC_003521.1 + 175301 0.67 0.928158
Target:  5'- aCGGGgGUCUCGGGCcuaaGCAcGUGa- -3'
miRNA:   3'- gGCCUgUAGAGCCCGaug-CGU-CACcu -5'
14252 3' -56.4 NC_003521.1 + 131102 0.67 0.933093
Target:  5'- uCCGGACggCg-GGGCgGCGCGGcugccgGGAa -3'
miRNA:   3'- -GGCCUGuaGagCCCGaUGCGUCa-----CCU- -5'
14252 3' -56.4 NC_003521.1 + 109449 0.67 0.937809
Target:  5'- gUGGGCAcggUCUCGGGUauggGCGCGucugGGAa -3'
miRNA:   3'- gGCCUGU---AGAGCCCGa---UGCGUca--CCU- -5'
14252 3' -56.4 NC_003521.1 + 123169 0.67 0.942306
Target:  5'- gCCGGcgcacCGUCUCGcGGCgcaguCGCAGgcGGAa -3'
miRNA:   3'- -GGCCu----GUAGAGC-CCGau---GCGUCa-CCU- -5'
14252 3' -56.4 NC_003521.1 + 239793 0.67 0.946587
Target:  5'- gCCGGcCAUCU--GGCUGCGCGGcGuGAu -3'
miRNA:   3'- -GGCCuGUAGAgcCCGAUGCGUCaC-CU- -5'
14252 3' -56.4 NC_003521.1 + 135752 0.67 0.946587
Target:  5'- cCCGGACGUUccCGGGaccgaAgGCGGUGGc -3'
miRNA:   3'- -GGCCUGUAGa-GCCCga---UgCGUCACCu -5'
14252 3' -56.4 NC_003521.1 + 193292 0.67 0.946587
Target:  5'- aCGGGCGUCggagUCGGcGCggGgGUGGUGGGc -3'
miRNA:   3'- gGCCUGUAG----AGCC-CGa-UgCGUCACCU- -5'
14252 3' -56.4 NC_003521.1 + 200325 0.66 0.953753
Target:  5'- gUCGGACGUguUUCGGGCcggcgggucguCGCGG-GGAc -3'
miRNA:   3'- -GGCCUGUA--GAGCCCGau---------GCGUCaCCU- -5'
14252 3' -56.4 NC_003521.1 + 78656 0.67 0.928158
Target:  5'- --cGAUGUCgUCGGGCUucucgGCGCAGgGGAa -3'
miRNA:   3'- ggcCUGUAG-AGCCCGA-----UGCGUCaCCU- -5'
14252 3' -56.4 NC_003521.1 + 228266 0.67 0.928158
Target:  5'- cCCGGGCAUCUCcagacGCUcgGCGUccuccacggcgaAGUGGAa -3'
miRNA:   3'- -GGCCUGUAGAGcc---CGA--UGCG------------UCACCU- -5'
14252 3' -56.4 NC_003521.1 + 112375 0.67 0.927652
Target:  5'- gCUGcGGCGUCUCGuccaccuGGCUgGCGCAGUGc- -3'
miRNA:   3'- -GGC-CUGUAGAGC-------CCGA-UGCGUCACcu -5'
14252 3' -56.4 NC_003521.1 + 92080 0.7 0.820694
Target:  5'- aCCGGGgGUCggGGGgUGCGCAG-GGc -3'
miRNA:   3'- -GGCCUgUAGagCCCgAUGCGUCaCCu -5'
14252 3' -56.4 NC_003521.1 + 131044 0.7 0.836806
Target:  5'- cCUGGGCGgcggCggCGGGCcucuggACGCGGUGGc -3'
miRNA:   3'- -GGCCUGUa---Ga-GCCCGa-----UGCGUCACCu -5'
14252 3' -56.4 NC_003521.1 + 192667 0.69 0.859677
Target:  5'- uUGGGCGUCUUGGGCU-CGCcgauGUacacGGAg -3'
miRNA:   3'- gGCCUGUAGAGCCCGAuGCGu---CA----CCU- -5'
14252 3' -56.4 NC_003521.1 + 222106 0.69 0.86693
Target:  5'- gCCGGcaGCGUCUCGaGGCgcUGCGCcG-GGAa -3'
miRNA:   3'- -GGCC--UGUAGAGC-CCG--AUGCGuCaCCU- -5'
14252 3' -56.4 NC_003521.1 + 105628 0.69 0.876758
Target:  5'- -aGGGCGUgCUCGGGCgugUGCGUgaagcccagcucgggGGUGGGc -3'
miRNA:   3'- ggCCUGUA-GAGCCCG---AUGCG---------------UCACCU- -5'
14252 3' -56.4 NC_003521.1 + 125822 0.69 0.88085
Target:  5'- gCCGuaaACGUCugcgcgUCGGGCU-CGCGGUGGu -3'
miRNA:   3'- -GGCc--UGUAG------AGCCCGAuGCGUCACCu -5'
14252 3' -56.4 NC_003521.1 + 136874 0.68 0.887508
Target:  5'- cCCGacaagcGCAUCUCGGGCU-CGCAGa--- -3'
miRNA:   3'- -GGCc-----UGUAGAGCCCGAuGCGUCaccu -5'
14252 3' -56.4 NC_003521.1 + 224408 0.68 0.887508
Target:  5'- gCCGGuACAcCUCgccggccaGGcGCUGCGUGGUGGGc -3'
miRNA:   3'- -GGCC-UGUaGAG--------CC-CGAUGCGUCACCU- -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.