miRNA display CGI


Results 1 - 18 of 18 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
22260 3' -66.5 NC_005045.1 + 10402 0.66 0.1781
Target:  5'- cGCCaUGGUCCGCAGCCucauGGaagauuGCCgGCGg -3'
miRNA:   3'- uCGGaGCCGGGCGUCGG----CC------UGGgCGU- -5'
22260 3' -66.5 NC_005045.1 + 11384 0.66 0.16912
Target:  5'- gAGCaUCGcuUCCGCAGCCGGGCCgaaGCc -3'
miRNA:   3'- -UCGgAGCc-GGGCGUCGGCCUGGg--CGu -5'
22260 3' -66.5 NC_005045.1 + 9984 0.67 0.148815
Target:  5'- cGGCCUUGGCUCGCAuuuucucgcaucguuCCGGcagacgugaGCCUGCAc -3'
miRNA:   3'- -UCGGAGCCGGGCGUc--------------GGCC---------UGGGCGU- -5'
22260 3' -66.5 NC_005045.1 + 23115 0.67 0.148424
Target:  5'- cGGCCUgGGCCugCGCGGCCugcuGACgCUGCu -3'
miRNA:   3'- -UCGGAgCCGG--GCGUCGGc---CUG-GGCGu -5'
22260 3' -66.5 NC_005045.1 + 10775 0.68 0.126648
Target:  5'- aGGCCgguggCGGCCaCGguGCCGGAaCCa-- -3'
miRNA:   3'- -UCGGa----GCCGG-GCguCGGCCUgGGcgu -5'
22260 3' -66.5 NC_005045.1 + 22414 0.68 0.120071
Target:  5'- gAGaaaCUCGGCCUGUacgAGCUGGAgUCGCu -3'
miRNA:   3'- -UCg--GAGCCGGGCG---UCGGCCUgGGCGu -5'
22260 3' -66.5 NC_005045.1 + 6241 0.69 0.113814
Target:  5'- gAGCCUCGGCCUcaGCcuucgccacggaAGCgCGGAagguauaCCGCAc -3'
miRNA:   3'- -UCGGAGCCGGG--CG------------UCG-GCCUg------GGCGU- -5'
22260 3' -66.5 NC_005045.1 + 26223 0.69 0.107862
Target:  5'- cGGCCaccguggCGGCCCGUAGCU--GCCUGUAa -3'
miRNA:   3'- -UCGGa------GCCGGGCGUCGGccUGGGCGU- -5'
22260 3' -66.5 NC_005045.1 + 14264 0.69 0.104997
Target:  5'- gGGCgaCGugaaCCCGCAgGCCGGuaACCCGCAa -3'
miRNA:   3'- -UCGgaGCc---GGGCGU-CGGCC--UGGGCGU- -5'
22260 3' -66.5 NC_005045.1 + 5823 0.69 0.104997
Target:  5'- cGCgUCGGCCUGgcacaAGCUGGccgcuACCCGCGc -3'
miRNA:   3'- uCGgAGCCGGGCg----UCGGCC-----UGGGCGU- -5'
22260 3' -66.5 NC_005045.1 + 26048 0.69 0.104151
Target:  5'- cGGCCUCGGCCagggcuggucgguaUGCAGCagguGGGCCaucaGCu -3'
miRNA:   3'- -UCGGAGCCGG--------------GCGUCGg---CCUGGg---CGu -5'
22260 3' -66.5 NC_005045.1 + 11783 0.69 0.102203
Target:  5'- aAGCUUCaGGCCCGUGGCauguGGGCUgGCu -3'
miRNA:   3'- -UCGGAG-CCGGGCGUCGg---CCUGGgCGu -5'
22260 3' -66.5 NC_005045.1 + 30632 0.7 0.093982
Target:  5'- gGGCUucgCGGCCCGUgucGCUGGugagcagACCCGCAu -3'
miRNA:   3'- -UCGGa--GCCGGGCGu--CGGCC-------UGGGCGU- -5'
22260 3' -66.5 NC_005045.1 + 30021 0.7 0.084527
Target:  5'- cGCCUCGuGCaggguaCGCAGCUcGGCCUGCGc -3'
miRNA:   3'- uCGGAGC-CGg-----GCGUCGGcCUGGGCGU- -5'
22260 3' -66.5 NC_005045.1 + 15351 0.72 0.057381
Target:  5'- cGCCUUGGCCCcaccuGCuGCCgugagguGGACCCGUg -3'
miRNA:   3'- uCGGAGCCGGG-----CGuCGG-------CCUGGGCGu -5'
22260 3' -66.5 NC_005045.1 + 39289 0.73 0.051361
Target:  5'- gGGCCUCGacggcaCCCGUGGCUGGgcggcugACCCGCAg -3'
miRNA:   3'- -UCGGAGCc-----GGGCGUCGGCC-------UGGGCGU- -5'
22260 3' -66.5 NC_005045.1 + 4061 0.74 0.04482
Target:  5'- uGCCUCGGCCUGCuGGCaGGcGCCUGCu -3'
miRNA:   3'- uCGGAGCCGGGCG-UCGgCC-UGGGCGu -5'
22260 3' -66.5 NC_005045.1 + 20157 1.07 0.000087
Target:  5'- cAGCCUCGGCCCGCAGCCGGACCCGCAc -3'
miRNA:   3'- -UCGGAGCCGGGCGUCGGCCUGGGCGU- -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.