miRNA display CGI


Results 1 - 20 of 28 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
21452 3' -59.9 NC_004812.1 + 9384 0.69 0.55364
Target:  5'- -aCUUCgUGGCCgCGCUGGCgccccgCCUa -3'
miRNA:   3'- cgGAAGgACCGGaGCGACCGaca---GGA- -5'
21452 3' -59.9 NC_004812.1 + 15190 0.7 0.480844
Target:  5'- cGCCcUCCgGGCCUCGCU-GCUGgacuuugcgcgcggCCUg -3'
miRNA:   3'- -CGGaAGGaCCGGAGCGAcCGACa-------------GGA- -5'
21452 3' -59.9 NC_004812.1 + 27812 0.66 0.741974
Target:  5'- cGCCUUCgacccgcgcgcgCUGGCCUCGCUcgccgcGcGCUGcggCCc -3'
miRNA:   3'- -CGGAAG------------GACCGGAGCGA------C-CGACa--GGa -5'
21452 3' -59.9 NC_004812.1 + 58946 0.66 0.722724
Target:  5'- gGCCg-CCUGGCCUgcCGUgaGGCUGggggCCg -3'
miRNA:   3'- -CGGaaGGACCGGA--GCGa-CCGACa---GGa -5'
21452 3' -59.9 NC_004812.1 + 59131 0.66 0.722724
Target:  5'- aCCUUCgcagaaCUGGUCgaugcCGCUGGCgccGUCCg -3'
miRNA:   3'- cGGAAG------GACCGGa----GCGACCGa--CAGGa -5'
21452 3' -59.9 NC_004812.1 + 60108 0.67 0.683394
Target:  5'- cGCCgauggCCgUGGCC-CGCgccagcGGCgUGUCCUg -3'
miRNA:   3'- -CGGaa---GG-ACCGGaGCGa-----CCG-ACAGGA- -5'
21452 3' -59.9 NC_004812.1 + 65083 0.67 0.683394
Target:  5'- cGCCgcCCUGGCCgcgCGCcccgcggaggagUGGCUGgcgcggCCc -3'
miRNA:   3'- -CGGaaGGACCGGa--GCG------------ACCGACa-----GGa -5'
21452 3' -59.9 NC_004812.1 + 74088 0.68 0.623337
Target:  5'- cGCCUcCCggGGCCUCGCgGGCc--CCg -3'
miRNA:   3'- -CGGAaGGa-CCGGAGCGaCCGacaGGa -5'
21452 3' -59.9 NC_004812.1 + 79225 0.7 0.514812
Target:  5'- cGCCgaCCUGGCCgccugGCUGGC-GUCgCUg -3'
miRNA:   3'- -CGGaaGGACCGGag---CGACCGaCAG-GA- -5'
21452 3' -59.9 NC_004812.1 + 81317 0.67 0.69331
Target:  5'- cGCCUUCgUGGCCcggCGCgaccugGGCgaggCCa -3'
miRNA:   3'- -CGGAAGgACCGGa--GCGa-----CCGaca-GGa -5'
21452 3' -59.9 NC_004812.1 + 87694 0.69 0.52057
Target:  5'- gGCCccaUCCUGGCC-CGCagcggcggcaucgGGCUGUgCCUg -3'
miRNA:   3'- -CGGa--AGGACCGGaGCGa------------CCGACA-GGA- -5'
21452 3' -59.9 NC_004812.1 + 90380 1.1 0.001035
Target:  5'- cGCCUUCCUGGCCUCGCUGGCUGUCCUg -3'
miRNA:   3'- -CGGAAGGACCGGAGCGACCGACAGGA- -5'
21452 3' -59.9 NC_004812.1 + 92576 0.66 0.739108
Target:  5'- gGCCgucgucgCCUGGCUggCGgcggcgaagcggccCUGGUUGUCCg -3'
miRNA:   3'- -CGGaa-----GGACCGGa-GC--------------GACCGACAGGa -5'
21452 3' -59.9 NC_004812.1 + 94742 0.68 0.633375
Target:  5'- aCCUUUCUGGUCgccgcggCGCUGGCcG-CCg -3'
miRNA:   3'- cGGAAGGACCGGa------GCGACCGaCaGGa -5'
21452 3' -59.9 NC_004812.1 + 100061 0.69 0.573385
Target:  5'- cGCCUUCCUGGUUggCGCgguggggucggGGCUcgucGUCCc -3'
miRNA:   3'- -CGGAAGGACCGGa-GCGa----------CCGA----CAGGa -5'
21452 3' -59.9 NC_004812.1 + 100427 0.66 0.751465
Target:  5'- cGUCUUCCaGGCCaccaCGCccgGGCUGUacgCCa -3'
miRNA:   3'- -CGGAAGGaCCGGa---GCGa--CCGACA---GGa -5'
21452 3' -59.9 NC_004812.1 + 101471 0.66 0.703175
Target:  5'- gGCCagcUCCUGGCC---CUGGCgcaggGUCCg -3'
miRNA:   3'- -CGGa--AGGACCGGagcGACCGa----CAGGa -5'
21452 3' -59.9 NC_004812.1 + 104176 0.71 0.440875
Target:  5'- uGCUggUCCUGGCCggGCUGGCggcggCCUu -3'
miRNA:   3'- -CGGa-AGGACCGGagCGACCGaca--GGA- -5'
21452 3' -59.9 NC_004812.1 + 105384 0.7 0.486432
Target:  5'- cGCCgcgaUGGUCUCGCUGGCgccgGUgCCg -3'
miRNA:   3'- -CGGaaggACCGGAGCGACCGa---CA-GGa -5'
21452 3' -59.9 NC_004812.1 + 113958 0.7 0.514812
Target:  5'- cGCCUgggaUGGCgUCGCgggGGCguUGUCCUg -3'
miRNA:   3'- -CGGAagg-ACCGgAGCGa--CCG--ACAGGA- -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.