miRNA display CGI


Results 1 - 20 of 36 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
6999 5' -54.9 NC_001875.2 + 4448 0.66 0.886631
Target:  5'- --cGCCAGCacuUUGGCCaggcucugagcGCCGUCcGCg- -3'
miRNA:   3'- aaaCGGUCG---AACCGG-----------CGGUAGuUGac -5'
6999 5' -54.9 NC_001875.2 + 72739 0.66 0.886631
Target:  5'- --gGCCAGCga---CGCCGUCAGcCUGg -3'
miRNA:   3'- aaaCGGUCGaaccgGCGGUAGUU-GAC- -5'
6999 5' -54.9 NC_001875.2 + 4535 0.66 0.882277
Target:  5'- --cGCCGGCUgcgguuccugcgguuUgggGGCCGCCAgCAACg- -3'
miRNA:   3'- aaaCGGUCGA---------------A---CCGGCGGUaGUUGac -5'
6999 5' -54.9 NC_001875.2 + 108246 0.66 0.879326
Target:  5'- --gGCCGGCUgGGCUGCggCAUCA-UUGg -3'
miRNA:   3'- aaaCGGUCGAaCCGGCG--GUAGUuGAC- -5'
6999 5' -54.9 NC_001875.2 + 25187 0.66 0.879326
Target:  5'- --cGCCGGCaUUGacauguacaCCGCCGUCGACa- -3'
miRNA:   3'- aaaCGGUCG-AACc--------GGCGGUAGUUGac -5'
6999 5' -54.9 NC_001875.2 + 34761 0.66 0.871013
Target:  5'- --gGCCAGUUccugagcacgacgUGGuCCGCCAUCcACg- -3'
miRNA:   3'- aaaCGGUCGA-------------ACC-GGCGGUAGuUGac -5'
6999 5' -54.9 NC_001875.2 + 119489 0.66 0.871013
Target:  5'- --cGUCgGGCUUGGCgaaGCCGUCAaacacgaccucucGCUGg -3'
miRNA:   3'- aaaCGG-UCGAACCGg--CGGUAGU-------------UGAC- -5'
6999 5' -54.9 NC_001875.2 + 59448 0.66 0.871013
Target:  5'- --gGUCAGCUUGuuGCCGCCAaugaaauuagggcUCGuCUGg -3'
miRNA:   3'- aaaCGGUCGAAC--CGGCGGU-------------AGUuGAC- -5'
6999 5' -54.9 NC_001875.2 + 12298 0.66 0.864
Target:  5'- --aGCCGGCac-GCCGCCGUguGCg- -3'
miRNA:   3'- aaaCGGUCGaacCGGCGGUAguUGac -5'
6999 5' -54.9 NC_001875.2 + 117362 0.66 0.864
Target:  5'- --gGCCGGC-UGGCCGUCGgggaGGCg- -3'
miRNA:   3'- aaaCGGUCGaACCGGCGGUag--UUGac -5'
6999 5' -54.9 NC_001875.2 + 94399 0.66 0.855991
Target:  5'- aUUGCggCGGCUauuUGGCCGCCG---ACUGc -3'
miRNA:   3'- aAACG--GUCGA---ACCGGCGGUaguUGAC- -5'
6999 5' -54.9 NC_001875.2 + 127964 0.66 0.855991
Target:  5'- -cUGcCCAGCUUGGCgGCgCGgu-GCUGc -3'
miRNA:   3'- aaAC-GGUCGAACCGgCG-GUaguUGAC- -5'
6999 5' -54.9 NC_001875.2 + 96317 0.67 0.839315
Target:  5'- --gGCCAGCaccgUGGCCG-CGUCAuACUu -3'
miRNA:   3'- aaaCGGUCGa---ACCGGCgGUAGU-UGAc -5'
6999 5' -54.9 NC_001875.2 + 29282 0.67 0.839315
Target:  5'- --cGCCGGCggGG-CGCgGUCGugUGg -3'
miRNA:   3'- aaaCGGUCGaaCCgGCGgUAGUugAC- -5'
6999 5' -54.9 NC_001875.2 + 98749 0.67 0.830664
Target:  5'- -gUGCuCAGCcgcgacgGcGCCGCCAUCAAaguCUGg -3'
miRNA:   3'- aaACG-GUCGaa-----C-CGGCGGUAGUU---GAC- -5'
6999 5' -54.9 NC_001875.2 + 21982 0.68 0.794176
Target:  5'- --cGCCAGCUUGGCaaaCGCgCG-CAGCa- -3'
miRNA:   3'- aaaCGGUCGAACCG---GCG-GUaGUUGac -5'
6999 5' -54.9 NC_001875.2 + 114182 0.68 0.794176
Target:  5'- --cGCCAGCUUcaCCGCCAgcgcgCGAUUGc -3'
miRNA:   3'- aaaCGGUCGAAccGGCGGUa----GUUGAC- -5'
6999 5' -54.9 NC_001875.2 + 6507 0.68 0.794176
Target:  5'- --cGCCAacacGC-UGGCCGCCGUCcACc- -3'
miRNA:   3'- aaaCGGU----CGaACCGGCGGUAGuUGac -5'
6999 5' -54.9 NC_001875.2 + 74170 0.68 0.774933
Target:  5'- --cGCCAGCUUGGaCGCguUUugcgAGCUGg -3'
miRNA:   3'- aaaCGGUCGAACCgGCGguAG----UUGAC- -5'
6999 5' -54.9 NC_001875.2 + 85031 0.68 0.765097
Target:  5'- -gUGCUAaCUUGcGCCuCCGUCAACUGc -3'
miRNA:   3'- aaACGGUcGAAC-CGGcGGUAGUUGAC- -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.