Recap of used options and sequence file

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  • used_options, which contains all the necessary information so that the current job can be exactly reproduced. The info includes the version of MatrixREDUCE, the directory where MatrixREDUCE was run, and all the command line options.
  • logo_options, which contains all command line options used to generate affinity logo images.
  • logo_options_tn, which contains all command line options used to generate affinity logo thumbnail images.
  • Y5_600_Bst.fa, the cleaned up sequence file in FASTA format. The sequence ID is taken as the first word following the leading > and is converted into lowercase. Each sequence is also converted into lowercase, and broken into fragments at non-'acgt' bases. The cleaned up file is sorted into alphabetical order by the sequence ID.

Thumbnail images of 13 identified PSAMs

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matrix_001_tn.png matrix_002_tn.png matrix_003_tn.png matrix_004_tn.png matrix_005_tn.png matrix_006_tn.png matrix_007_tn.png matrix_008_tn.png matrix_009_tn.png matrix_010_tn.png matrix_011_tn.png matrix_012_tn.png matrix_013_tn.png

List of all matrices

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matrix_001.pngPSAM #1 Top | PSAM Thumbnail
expression file Spellman1998Alpha
experiment name alpha_factor_release_sample016 [4]
seed sequence ACGCGT
consensus sequence ACGCGT
based on leading strand
F 0.313491
t 16.1
P 0
  F t P
Spellman1998Alpha.alpha_factor_release_sample013[1] -0.214129 -12.1 0
Spellman1998Alpha.alpha_factor_release_sample014[2] -0.0812244 -3.7 1
Spellman1998Alpha.alpha_factor_release_sample015[3] 0.201117 9.7 0
Spellman1998Alpha.alpha_factor_release_sample016[4] 0.313491 16.1 0
Spellman1998Alpha.alpha_factor_release_sample017[5] 0.151645 9.1 0
Spellman1998Alpha.alpha_factor_release_sample018[6] 0.0474401 3.1 1
Spellman1998Alpha.alpha_factor_release_sample019[7] -0.0748213 -5.4 0.0051748
Spellman1998Alpha.alpha_factor_release_sample020[8] -0.156455 -10.3 0
Spellman1998Alpha.alpha_factor_release_sample021[9] -0.176547 -14.5 0
Spellman1998Alpha.alpha_factor_release_sample022[10] -0.0976551 -6.8 7.13763e-07
Spellman1998Alpha.alpha_factor_release_sample023[11] 0.0885045 5.5 0.00331178
Spellman1998Alpha.alpha_factor_release_sample024[12] 0.197185 14.8 0
Spellman1998Alpha.alpha_factor_release_sample025[13] 0.133324 14.1 0
Spellman1998Alpha.alpha_factor_release_sample026[14] 0.0711338 5.2 0.0166147
Spellman1998Alpha.alpha_factor_release_sample027[15] 0.0247904 1.5 1
Spellman1998Alpha.alpha_factor_release_sample028[16] -0.0200029 -1.5 1
Spellman1998Alpha.alpha_factor_release_sample029[17] -0.104587 -8.1 5.72982e-11
Spellman1998Alpha.alpha_factor_release_sample030[18] -0.128132 -9.0 0
matrix_002.pngPSAM #2 Top | PSAM Thumbnail
expression file Spellman1998Alpha
experiment name alpha_factor_release_sample014 [2]
seed sequence AAGGGG
consensus sequence AAGGGG
based on leading strand
F 0.182232
t 11.2
P 0
  F t P
Spellman1998Alpha.alpha_factor_release_sample013[1] 0.0139951 1.1 1
Spellman1998Alpha.alpha_factor_release_sample014[2] 0.182232 11.2 0
Spellman1998Alpha.alpha_factor_release_sample015[3] 0.161437 10.5 0
Spellman1998Alpha.alpha_factor_release_sample016[4] 0.0607726 4.2 0.844672
Spellman1998Alpha.alpha_factor_release_sample017[5] -0.000193348 -0.0 1
Spellman1998Alpha.alpha_factor_release_sample018[6] -0.0146701 -1.3 1
Spellman1998Alpha.alpha_factor_release_sample019[7] -0.0443486 -4.3 0.726025
Spellman1998Alpha.alpha_factor_release_sample020[8] -0.037934 -3.4 1
Spellman1998Alpha.alpha_factor_release_sample021[9] -0.0384213 -4.3 0.776406
Spellman1998Alpha.alpha_factor_release_sample022[10] -0.00322269 -0.3 1
Spellman1998Alpha.alpha_factor_release_sample023[11] -0.0034073 -0.3 1
Spellman1998Alpha.alpha_factor_release_sample024[12] 0.00213796 0.2 1
Spellman1998Alpha.alpha_factor_release_sample025[13] -0.00586676 -0.8 1
Spellman1998Alpha.alpha_factor_release_sample026[14] -0.0237392 -2.3 1
Spellman1998Alpha.alpha_factor_release_sample027[15] -0.0183611 -1.5 1
Spellman1998Alpha.alpha_factor_release_sample028[16] -0.00951682 -0.9 1
Spellman1998Alpha.alpha_factor_release_sample029[17] -0.0154726 -1.6 1
Spellman1998Alpha.alpha_factor_release_sample030[18] -0.0142319 -1.3 1
matrix_003.pngPSAM #3 Top | PSAM Thumbnail
expression file Spellman1998Alpha
experiment name alpha_factor_release_sample014 [2]
seed sequence GATGAG
consensus sequence GATGAG
based on leading strand
F -0.136861
t -10.0
P 0
  F t P
Spellman1998Alpha.alpha_factor_release_sample013[1] 0.00162513 0.1 1
Spellman1998Alpha.alpha_factor_release_sample014[2] -0.136861 -10.0 0
Spellman1998Alpha.alpha_factor_release_sample015[3] -0.103183 -8.0 8.18545e-11
Spellman1998Alpha.alpha_factor_release_sample016[4] -0.0587286 -4.9 0.0756714
Spellman1998Alpha.alpha_factor_release_sample017[5] 0.00629147 0.6 1
Spellman1998Alpha.alpha_factor_release_sample018[6] -0.0197681 -2.1 1
Spellman1998Alpha.alpha_factor_release_sample019[7] 0.0155258 1.8 1
Spellman1998Alpha.alpha_factor_release_sample020[8] 0.00765205 0.8 1
Spellman1998Alpha.alpha_factor_release_sample021[9] 0.0194427 2.6 1
Spellman1998Alpha.alpha_factor_release_sample022[10] -0.009513 -1.1 1
Spellman1998Alpha.alpha_factor_release_sample023[11] -0.0210881 -2.1 1
Spellman1998Alpha.alpha_factor_release_sample024[12] -0.0218261 -2.7 1
Spellman1998Alpha.alpha_factor_release_sample025[13] 0.00652422 1.1 1
Spellman1998Alpha.alpha_factor_release_sample026[14] -0.0037446 -0.4 1
Spellman1998Alpha.alpha_factor_release_sample027[15] -0.0209019 -2.0 1
Spellman1998Alpha.alpha_factor_release_sample028[16] -0.0108333 -1.3 1
Spellman1998Alpha.alpha_factor_release_sample029[17] 0.00192451 0.2 1
Spellman1998Alpha.alpha_factor_release_sample030[18] -0.00286579 -0.3 1
matrix_004.pngPSAM #4 Top | PSAM Thumbnail
expression file Spellman1998Alpha
experiment name alpha_factor_release_sample015 [3]
seed sequence AAATTT
consensus sequence AAATTT
based on leading strand
F -0.0334732
t -8.1
P 4.09273e-11
  F t P
Spellman1998Alpha.alpha_factor_release_sample013[1] 0.0171466 4.8 0.0917167
Spellman1998Alpha.alpha_factor_release_sample014[2] -0.0268914 -6.1 7.61847e-05
Spellman1998Alpha.alpha_factor_release_sample015[3] -0.0334732 -8.1 4.09273e-11
Spellman1998Alpha.alpha_factor_release_sample016[4] -0.0177185 -4.5 0.333051
Spellman1998Alpha.alpha_factor_release_sample017[5] -0.00775831 -2.3 1
Spellman1998Alpha.alpha_factor_release_sample018[6] -0.00604628 -2.0 1
Spellman1998Alpha.alpha_factor_release_sample019[7] -0.00297714 -1.1 1
Spellman1998Alpha.alpha_factor_release_sample020[8] 0.0064452 2.1 1
Spellman1998Alpha.alpha_factor_release_sample021[9] 0.0143982 5.9 0.000234512
Spellman1998Alpha.alpha_factor_release_sample022[10] 0.00666844 2.3 1
Spellman1998Alpha.alpha_factor_release_sample023[11] 0.0132332 4.1 0.959491
Spellman1998Alpha.alpha_factor_release_sample024[12] 0.00280625 1.1 1
Spellman1998Alpha.alpha_factor_release_sample025[13] 0.00341651 1.8 1
Spellman1998Alpha.alpha_factor_release_sample026[14] 0.00595048 2.2 1
Spellman1998Alpha.alpha_factor_release_sample027[15] 0.00953499 2.9 1
Spellman1998Alpha.alpha_factor_release_sample028[16] 0.00880479 3.2 1
Spellman1998Alpha.alpha_factor_release_sample029[17] 0.00617166 2.4 1
Spellman1998Alpha.alpha_factor_release_sample030[18] 0.0116121 4.1 0.963798
matrix_005.pngPSAM #5 Top | PSAM Thumbnail
expression file Spellman1998Alpha
experiment name alpha_factor_release_sample021 [9]
seed sequence CACGTG
consensus sequence CACGCG
based on leading strand
F 0.0945332
t 9.5
P 0
  F t P
Spellman1998Alpha.alpha_factor_release_sample013[1] 0.0536338 3.7 1
Spellman1998Alpha.alpha_factor_release_sample014[2] 0.0288516 1.6 1
Spellman1998Alpha.alpha_factor_release_sample015[3] -0.00944586 -0.6 1
Spellman1998Alpha.alpha_factor_release_sample016[4] 0.0107533 0.7 1
Spellman1998Alpha.alpha_factor_release_sample017[5] 0.0384903 2.8 1
Spellman1998Alpha.alpha_factor_release_sample018[6] 0.0523918 4.1 0.950332
Spellman1998Alpha.alpha_factor_release_sample019[7] 0.0860144 7.5 4.59204e-09
Spellman1998Alpha.alpha_factor_release_sample020[8] 0.0961282 7.7 7.44876e-10
Spellman1998Alpha.alpha_factor_release_sample021[9] 0.0945332 9.5 0
Spellman1998Alpha.alpha_factor_release_sample022[10] 0.0437996 3.7 1
Spellman1998Alpha.alpha_factor_release_sample023[11] 0.048669 3.7 1
Spellman1998Alpha.alpha_factor_release_sample024[12] 0.00487987 0.5 1
Spellman1998Alpha.alpha_factor_release_sample025[13] 0.00959698 1.2 1
Spellman1998Alpha.alpha_factor_release_sample026[14] 0.0529725 4.7 0.193383
Spellman1998Alpha.alpha_factor_release_sample027[15] 0.0904459 6.7 1.5021e-06
Spellman1998Alpha.alpha_factor_release_sample028[16] 0.0571085 5.1 0.0298475
Spellman1998Alpha.alpha_factor_release_sample029[17] 0.0539952 5.0 0.0341286
Spellman1998Alpha.alpha_factor_release_sample030[18] 0.0439994 3.8 0.999997
matrix_006.pngPSAM #6 Top | PSAM Thumbnail
expression file Spellman1998Alpha
experiment name alpha_factor_release_sample013 [1]
seed sequence AAACAA
consensus sequence AAACAA
based on leading strand
F -0.042967
t -10.5
P 0
  F t P
Spellman1998Alpha.alpha_factor_release_sample013[1] -0.042967 -10.5 0
Spellman1998Alpha.alpha_factor_release_sample014[2] -0.0164001 -3.2 1
Spellman1998Alpha.alpha_factor_release_sample015[3] -0.0280013 -5.8 0.000387854
Spellman1998Alpha.alpha_factor_release_sample016[4] -0.0209943 -4.7 0.19239
Spellman1998Alpha.alpha_factor_release_sample017[5] -0.0118509 -3.0 1
Spellman1998Alpha.alpha_factor_release_sample018[6] 0.0067468 1.9 1
Spellman1998Alpha.alpha_factor_release_sample019[7] -0.000155817 -0.0 1
Spellman1998Alpha.alpha_factor_release_sample020[8] 0.000543415 0.2 1
Spellman1998Alpha.alpha_factor_release_sample021[9] -0.010388 -3.7 1
Spellman1998Alpha.alpha_factor_release_sample022[10] -0.0124838 -3.8 0.999998
Spellman1998Alpha.alpha_factor_release_sample023[11] -0.0228304 -6.1 8.8938e-05
Spellman1998Alpha.alpha_factor_release_sample024[12] -0.0153737 -5.1 0.0279494
Spellman1998Alpha.alpha_factor_release_sample025[13] -0.0108649 -5.0 0.0493266
Spellman1998Alpha.alpha_factor_release_sample026[14] -0.000202174 -0.1 1
Spellman1998Alpha.alpha_factor_release_sample027[15] 0.00332989 0.9 1
Spellman1998Alpha.alpha_factor_release_sample028[16] 0.00310874 1.0 1
Spellman1998Alpha.alpha_factor_release_sample029[17] -0.00127737 -0.4 1
Spellman1998Alpha.alpha_factor_release_sample030[18] -0.00453933 -1.4 1
matrix_007.pngPSAM #7 Top | PSAM Thumbnail
expression file Spellman1998Alpha
experiment name alpha_factor_release_sample015 [3]
seed sequence CTCATC
consensus sequence CCCATC
based on leading strand
F -0.081483
t -7.1
P 8.5186e-08
  F t P
Spellman1998Alpha.alpha_factor_release_sample013[1] -0.00201246 -0.2 1
Spellman1998Alpha.alpha_factor_release_sample014[2] -0.0805252 -6.6 3.05618e-06
Spellman1998Alpha.alpha_factor_release_sample015[3] -0.081483 -7.1 8.5186e-08
Spellman1998Alpha.alpha_factor_release_sample016[4] -0.0345788 -3.2 1
Spellman1998Alpha.alpha_factor_release_sample017[5] 0.00179656 0.2 1
Spellman1998Alpha.alpha_factor_release_sample018[6] -0.00363969 -0.4 1
Spellman1998Alpha.alpha_factor_release_sample019[7] 0.0130985 1.7 1
Spellman1998Alpha.alpha_factor_release_sample020[8] 0.0138038 1.7 1
Spellman1998Alpha.alpha_factor_release_sample021[9] 0.0190183 2.8 1
Spellman1998Alpha.alpha_factor_release_sample022[10] 0.0111517 1.4 1
Spellman1998Alpha.alpha_factor_release_sample023[11] 0.00408181 0.5 1
Spellman1998Alpha.alpha_factor_release_sample024[12] 0.0104681 1.4 1
Spellman1998Alpha.alpha_factor_release_sample025[13] 0.0128802 2.5 1
Spellman1998Alpha.alpha_factor_release_sample026[14] 0.0233999 3.1 1
Spellman1998Alpha.alpha_factor_release_sample027[15] -0.00259601 -0.3 1
Spellman1998Alpha.alpha_factor_release_sample028[16] 0.00707404 0.9 1
Spellman1998Alpha.alpha_factor_release_sample029[17] 0.00621513 0.9 1
Spellman1998Alpha.alpha_factor_release_sample030[18] 0.00893939 1.1 1
matrix_008.pngPSAM #8 Top | PSAM Thumbnail
expression file Spellman1998Alpha
experiment name alpha_factor_release_sample027 [15]
seed sequence CCTTAA
consensus sequence CCTTAA
based on leading strand
F -0.0723535
t -6.3
P 2.58202e-05
  F t P
Spellman1998Alpha.alpha_factor_release_sample013[1] -0.0185679 -1.5 1
Spellman1998Alpha.alpha_factor_release_sample014[2] 0.000647592 0.0 1
Spellman1998Alpha.alpha_factor_release_sample015[3] -0.00668014 -0.5 1
Spellman1998Alpha.alpha_factor_release_sample016[4] -0.00764403 -0.6 1
Spellman1998Alpha.alpha_factor_release_sample017[5] -0.0273823 -2.3 1
Spellman1998Alpha.alpha_factor_release_sample018[6] -0.0234255 -2.2 1
Spellman1998Alpha.alpha_factor_release_sample019[7] -0.0189732 -2.0 1
Spellman1998Alpha.alpha_factor_release_sample020[8] -0.0194925 -1.8 1
Spellman1998Alpha.alpha_factor_release_sample021[9] -0.0251355 -3.0 1
Spellman1998Alpha.alpha_factor_release_sample022[10] -0.00459852 -0.5 1
Spellman1998Alpha.alpha_factor_release_sample023[11] -0.0256444 -2.3 1
Spellman1998Alpha.alpha_factor_release_sample024[12] -0.012128 -1.3 1
Spellman1998Alpha.alpha_factor_release_sample025[13] -0.0180318 -2.7 1
Spellman1998Alpha.alpha_factor_release_sample026[14] -0.0401617 -4.2 0.897409
Spellman1998Alpha.alpha_factor_release_sample027[15] -0.0723535 -6.3 2.58202e-05
Spellman1998Alpha.alpha_factor_release_sample028[16] -0.021133 -2.2 1
Spellman1998Alpha.alpha_factor_release_sample029[17] -0.0110871 -1.2 1
Spellman1998Alpha.alpha_factor_release_sample030[18] 0.0135876 1.4 1
matrix_009.pngPSAM #9 Top | PSAM Thumbnail
expression file Spellman1998Alpha
experiment name alpha_factor_release_sample014 [2]
seed sequence CCCCTG
consensus sequence CCCCTG
based on leading strand
F 0.147804
t 8.2
P 2.45564e-11
  F t P
Spellman1998Alpha.alpha_factor_release_sample013[1] 0.0453913 3.1 1
Spellman1998Alpha.alpha_factor_release_sample014[2] 0.147804 8.2 2.45564e-11
Spellman1998Alpha.alpha_factor_release_sample015[3] 0.113033 6.6 2.48539e-06
Spellman1998Alpha.alpha_factor_release_sample016[4] 0.0503956 3.1 1
Spellman1998Alpha.alpha_factor_release_sample017[5] 0.00279205 0.2 1
Spellman1998Alpha.alpha_factor_release_sample018[6] 0.000847962 0.1 1
Spellman1998Alpha.alpha_factor_release_sample019[7] -0.0119216 -1.0 1
Spellman1998Alpha.alpha_factor_release_sample020[8] -0.0129187 -1.0 1
Spellman1998Alpha.alpha_factor_release_sample021[9] -0.00270935 -0.3 1
Spellman1998Alpha.alpha_factor_release_sample022[10] 0.0276914 2.3 1
Spellman1998Alpha.alpha_factor_release_sample023[11] 0.0194224 1.5 1
Spellman1998Alpha.alpha_factor_release_sample024[12] 0.0174609 1.6 1
Spellman1998Alpha.alpha_factor_release_sample025[13] -0.00202245 -0.3 1
Spellman1998Alpha.alpha_factor_release_sample026[14] 0.0175523 1.5 1
Spellman1998Alpha.alpha_factor_release_sample027[15] 0.0110837 0.8 1
Spellman1998Alpha.alpha_factor_release_sample028[16] -0.00164483 -0.1 1
Spellman1998Alpha.alpha_factor_release_sample029[17] -0.00395598 -0.4 1
Spellman1998Alpha.alpha_factor_release_sample030[18] 0.0181392 1.5 1
matrix_010.pngPSAM #10 Top | PSAM Thumbnail
expression file Spellman1998Alpha
experiment name alpha_factor_release_sample013 [1]
seed sequence TATAAA
consensus sequence TATAAA
based on leading strand
F 0.0377592
t 6.3
P 2.94802e-05
  F t P
Spellman1998Alpha.alpha_factor_release_sample013[1] 0.0377592 6.3 2.94802e-05
Spellman1998Alpha.alpha_factor_release_sample014[2] 0.0389119 5.2 0.0188081
Spellman1998Alpha.alpha_factor_release_sample015[3] 0.0400925 5.7 0.000977586
Spellman1998Alpha.alpha_factor_release_sample016[4] 0.0193975 2.9 1
Spellman1998Alpha.alpha_factor_release_sample017[5] 0.0121447 2.1 1
Spellman1998Alpha.alpha_factor_release_sample018[6] 0.0136595 2.6 1
Spellman1998Alpha.alpha_factor_release_sample019[7] 0.00881637 1.9 1
Spellman1998Alpha.alpha_factor_release_sample020[8] 0.0129108 2.5 1
Spellman1998Alpha.alpha_factor_release_sample021[9] 0.0114833 2.8 1
Spellman1998Alpha.alpha_factor_release_sample022[10] 0.0133645 2.7 1
Spellman1998Alpha.alpha_factor_release_sample023[11] 0.00704854 1.3 1
Spellman1998Alpha.alpha_factor_release_sample024[12] 0.000421302 0.1 1
Spellman1998Alpha.alpha_factor_release_sample025[13] 0.00423931 1.3 1
Spellman1998Alpha.alpha_factor_release_sample026[14] 0.00126621 0.3 1
Spellman1998Alpha.alpha_factor_release_sample027[15] 0.00162849 0.3 1
Spellman1998Alpha.alpha_factor_release_sample028[16] -0.00103202 -0.2 1
Spellman1998Alpha.alpha_factor_release_sample029[17] 0.000887156 0.2 1
Spellman1998Alpha.alpha_factor_release_sample030[18] 0.00895775 1.8 1
matrix_011.pngPSAM #11 Top | PSAM Thumbnail
expression file Spellman1998Alpha
experiment name alpha_factor_release_sample013 [1]
seed sequence GAAACA
consensus sequence GTAACA
based on leading strand
F 0.0500403
t 6.8
P 9.34713e-07
  F t P
Spellman1998Alpha.alpha_factor_release_sample013[1] 0.0500403 6.8 9.34713e-07
Spellman1998Alpha.alpha_factor_release_sample014[2] 0.0215663 2.3 1
Spellman1998Alpha.alpha_factor_release_sample015[3] 0.014266 1.7 1
Spellman1998Alpha.alpha_factor_release_sample016[4] -0.00565399 -0.7 1
Spellman1998Alpha.alpha_factor_release_sample017[5] -8.27136e-05 -0.0 1
Spellman1998Alpha.alpha_factor_release_sample018[6] -0.0128286 -2.0 1
Spellman1998Alpha.alpha_factor_release_sample019[7] -0.00760004 -1.3 1
Spellman1998Alpha.alpha_factor_release_sample020[8] -0.0148491 -2.4 1
Spellman1998Alpha.alpha_factor_release_sample021[9] -0.00403472 -0.8 1
Spellman1998Alpha.alpha_factor_release_sample022[10] -0.00503348 -0.8 1
Spellman1998Alpha.alpha_factor_release_sample023[11] 0.00547243 0.8 1
Spellman1998Alpha.alpha_factor_release_sample024[12] 0.00134084 0.2 1
Spellman1998Alpha.alpha_factor_release_sample025[13] -0.00202114 -0.5 1
Spellman1998Alpha.alpha_factor_release_sample026[14] -0.00598204 -1.0 1
Spellman1998Alpha.alpha_factor_release_sample027[15] -0.00499573 -0.7 1
Spellman1998Alpha.alpha_factor_release_sample028[16] -0.00369735 -0.6 1
Spellman1998Alpha.alpha_factor_release_sample029[17] 0.00627059 1.2 1
Spellman1998Alpha.alpha_factor_release_sample030[18] -0.00084165 -0.1 1
matrix_012.pngPSAM #12 Top | PSAM Thumbnail
expression file Spellman1998Alpha
experiment name alpha_factor_release_sample024 [12]
seed sequence TCCGTC
consensus sequence TCCGTC
based on leading strand
F -0.0958443
t -6.8
P 7.30699e-07
  F t P
Spellman1998Alpha.alpha_factor_release_sample013[1] 0.000104141 0.0 1
Spellman1998Alpha.alpha_factor_release_sample014[2] 0.00477438 0.2 1
Spellman1998Alpha.alpha_factor_release_sample015[3] -0.0267607 -1.2 1
Spellman1998Alpha.alpha_factor_release_sample016[4] -0.0836215 -4.0 0.989162
Spellman1998Alpha.alpha_factor_release_sample017[5] -0.023926 -1.3 1
Spellman1998Alpha.alpha_factor_release_sample018[6] -0.0154318 -0.9 1
Spellman1998Alpha.alpha_factor_release_sample019[7] 0.00517254 0.3 1
Spellman1998Alpha.alpha_factor_release_sample020[8] -0.0357277 -2.2 1
Spellman1998Alpha.alpha_factor_release_sample021[9] -0.026883 -2.1 1
Spellman1998Alpha.alpha_factor_release_sample022[10] -0.0300528 -1.9 1
Spellman1998Alpha.alpha_factor_release_sample023[11] -0.0374705 -2.2 1
Spellman1998Alpha.alpha_factor_release_sample024[12] -0.0958443 -6.8 7.30699e-07
Spellman1998Alpha.alpha_factor_release_sample025[13] -0.0391869 -3.9 0.999784
Spellman1998Alpha.alpha_factor_release_sample026[14] -0.0247781 -1.7 1
Spellman1998Alpha.alpha_factor_release_sample027[15] 0.0153934 0.9 1
Spellman1998Alpha.alpha_factor_release_sample028[16] -0.0358789 -2.4 1
Spellman1998Alpha.alpha_factor_release_sample029[17] -0.00651892 -0.5 1
Spellman1998Alpha.alpha_factor_release_sample030[18] -0.0263962 -1.7 1
matrix_013.pngPSAM #13 Top | PSAM Thumbnail
expression file Spellman1998Alpha
experiment name alpha_factor_release_sample025 [13]
seed sequence CGCGAA
consensus sequence CGCGAA
based on leading strand
F 0.0548129
t 6.5
P 5.66678e-06
  F t P
Spellman1998Alpha.alpha_factor_release_sample013[1] -0.0500507 -3.1 1
Spellman1998Alpha.alpha_factor_release_sample014[2] -0.031721 -1.6 1
Spellman1998Alpha.alpha_factor_release_sample015[3] 0.0512525 2.8 1
Spellman1998Alpha.alpha_factor_release_sample016[4] 0.0732585 4.2 0.809136
Spellman1998Alpha.alpha_factor_release_sample017[5] 0.0679607 4.5 0.351694
Spellman1998Alpha.alpha_factor_release_sample018[6] 0.026248 1.9 1
Spellman1998Alpha.alpha_factor_release_sample019[7] 0.00878033 0.7 1
Spellman1998Alpha.alpha_factor_release_sample020[8] -0.0138335 -1.0 1
Spellman1998Alpha.alpha_factor_release_sample021[9] -0.0333957 -3.1 1
Spellman1998Alpha.alpha_factor_release_sample022[10] -0.00900024 -0.7 1
Spellman1998Alpha.alpha_factor_release_sample023[11] -0.00693049 -0.5 1
Spellman1998Alpha.alpha_factor_release_sample024[12] 0.0592417 5.1 0.0255987
Spellman1998Alpha.alpha_factor_release_sample025[13] 0.0548129 6.5 5.66678e-06
Spellman1998Alpha.alpha_factor_release_sample026[14] 0.0356667 2.9 1
Spellman1998Alpha.alpha_factor_release_sample027[15] 0.0427387 2.9 1
Spellman1998Alpha.alpha_factor_release_sample028[16] 0.0189716 1.5 1
Spellman1998Alpha.alpha_factor_release_sample029[17] -0.00387742 -0.3 1
Spellman1998Alpha.alpha_factor_release_sample030[18] -0.0140812 -1.1 1

Summary table of F-values

Top | Recap | PSAM Thumbnail | PSAM Logo | F-value | t-value | P-value | Expression Summary

  intercept 1 2 3 4 5 6 7 8 9 10 11 12 13
Spellman1998Alpha.alpha_factor_release_sample013[1] -0.102372 -0.214129 0.0139951 0.00162513 0.0171466 0.0536338 -0.042967 -0.00201246 -0.0185679 0.0453913 0.0377592 0.0500403 0.000104141 -0.0500507
Spellman1998Alpha.alpha_factor_release_sample014[2] -0.104738 -0.0812244 0.182232 -0.136861 -0.0268914 0.0288516 -0.0164001 -0.0805252 0.000647592 0.147804 0.0389119 0.0215663 0.00477438 -0.031721
Spellman1998Alpha.alpha_factor_release_sample015[3] -0.14357 0.201117 0.161437 -0.103183 -0.0334732 -0.00944586 -0.0280013 -0.081483 -0.00668014 0.113033 0.0400925 0.014266 -0.0267607 0.0512525
Spellman1998Alpha.alpha_factor_release_sample016[4] -0.129095 0.313491 0.0607726 -0.0587286 -0.0177185 0.0107533 -0.0209943 -0.0345788 -0.00764403 0.0503956 0.0193975 -0.00565399 -0.0836215 0.0732585
Spellman1998Alpha.alpha_factor_release_sample017[5] -0.138079 0.151645 -0.000193348 0.00629147 -0.00775831 0.0384903 -0.0118509 0.00179656 -0.0273823 0.00279205 0.0121447 -8.27136e-05 -0.023926 0.0679607
Spellman1998Alpha.alpha_factor_release_sample018[6] -0.085575 0.0474401 -0.0146701 -0.0197681 -0.00604628 0.0523918 0.0067468 -0.00363969 -0.0234255 0.000847962 0.0136595 -0.0128286 -0.0154318 0.026248
Spellman1998Alpha.alpha_factor_release_sample019[7] -0.0584641 -0.0748213 -0.0443486 0.0155258 -0.00297714 0.0860144 -0.000155817 0.0130985 -0.0189732 -0.0119216 0.00881637 -0.00760004 0.00517254 0.00878033
Spellman1998Alpha.alpha_factor_release_sample020[8] -0.0521151 -0.156455 -0.037934 0.00765205 0.0064452 0.0961282 0.000543415 0.0138038 -0.0194925 -0.0129187 0.0129108 -0.0148491 -0.0357277 -0.0138335
Spellman1998Alpha.alpha_factor_release_sample021[9] -0.00178053 -0.176547 -0.0384213 0.0194427 0.0143982 0.0945332 -0.010388 0.0190183 -0.0251355 -0.00270935 0.0114833 -0.00403472 -0.026883 -0.0333957
Spellman1998Alpha.alpha_factor_release_sample022[10] -0.0846395 -0.0976551 -0.00322269 -0.009513 0.00666844 0.0437996 -0.0124838 0.0111517 -0.00459852 0.0276914 0.0133645 -0.00503348 -0.0300528 -0.00900024
Spellman1998Alpha.alpha_factor_release_sample023[11] -0.0408117 0.0885045 -0.0034073 -0.0210881 0.0132332 0.048669 -0.0228304 0.00408181 -0.0256444 0.0194224 0.00704854 0.00547243 -0.0374705 -0.00693049
Spellman1998Alpha.alpha_factor_release_sample024[12] -0.0840752 0.197185 0.00213796 -0.0218261 0.00280625 0.00487987 -0.0153737 0.0104681 -0.012128 0.0174609 0.000421302 0.00134084 -0.0958443 0.0592417
Spellman1998Alpha.alpha_factor_release_sample025[13] -0.0674666 0.133324 -0.00586676 0.00652422 0.00341651 0.00959698 -0.0108649 0.0128802 -0.0180318 -0.00202245 0.00423931 -0.00202114 -0.0391869 0.0548129
Spellman1998Alpha.alpha_factor_release_sample026[14] -0.124732 0.0711338 -0.0237392 -0.0037446 0.00595048 0.0529725 -0.000202174 0.0233999 -0.0401617 0.0175523 0.00126621 -0.00598204 -0.0247781 0.0356667
Spellman1998Alpha.alpha_factor_release_sample027[15] -0.132734 0.0247904 -0.0183611 -0.0209019 0.00953499 0.0904459 0.00332989 -0.00259601 -0.0723535 0.0110837 0.00162849 -0.00499573 0.0153934 0.0427387
Spellman1998Alpha.alpha_factor_release_sample028[16] -0.0101213 -0.0200029 -0.00951682 -0.0108333 0.00880479 0.0571085 0.00310874 0.00707404 -0.021133 -0.00164483 -0.00103202 -0.00369735 -0.0358789 0.0189716
Spellman1998Alpha.alpha_factor_release_sample029[17] -0.0420711 -0.104587 -0.0154726 0.00192451 0.00617166 0.0539952 -0.00127737 0.00621513 -0.0110871 -0.00395598 0.000887156 0.00627059 -0.00651892 -0.00387742
Spellman1998Alpha.alpha_factor_release_sample030[18] -0.084828 -0.128132 -0.0142319 -0.00286579 0.0116121 0.0439994 -0.00453933 0.00893939 0.0135876 0.0181392 0.00895775 -0.00084165 -0.0263962 -0.0140812

Summary table of t-values

Top | Recap | PSAM Thumbnail | PSAM Logo | F-value | t-value | P-value | Expression Summary

  intercept 1 2 3 4 5 6 7 8 9 10 11 12 13
Spellman1998Alpha.alpha_factor_release_sample013[1] -5.9 -12.1 1.1 0.1 4.8 3.7 -10.5 -0.2 -1.5 3.1 6.3 6.8 0.0 -3.1
Spellman1998Alpha.alpha_factor_release_sample014[2] -4.9 -3.7 11.2 -10.0 -6.1 1.6 -3.2 -6.6 0.0 8.2 5.2 2.3 0.2 -1.6
Spellman1998Alpha.alpha_factor_release_sample015[3] -7.1 9.7 10.5 -8.0 -8.1 -0.6 -5.8 -7.1 -0.5 6.6 5.7 1.7 -1.2 2.8
Spellman1998Alpha.alpha_factor_release_sample016[4] -6.8 16.1 4.2 -4.9 -4.5 0.7 -4.7 -3.2 -0.6 3.1 2.9 -0.7 -4.0 4.2
Spellman1998Alpha.alpha_factor_release_sample017[5] -8.4 9.1 -0.0 0.6 -2.3 2.8 -3.0 0.2 -2.3 0.2 2.1 -0.0 -1.3 4.5
Spellman1998Alpha.alpha_factor_release_sample018[6] -5.7 3.1 -1.3 -2.1 -2.0 4.1 1.9 -0.4 -2.2 0.1 2.6 -2.0 -0.9 1.9
Spellman1998Alpha.alpha_factor_release_sample019[7] -4.3 -5.4 -4.3 1.8 -1.1 7.5 -0.0 1.7 -2.0 -1.0 1.9 -1.3 0.3 0.7
Spellman1998Alpha.alpha_factor_release_sample020[8] -3.6 -10.3 -3.4 0.8 2.1 7.7 0.2 1.7 -1.8 -1.0 2.5 -2.4 -2.2 -1.0
Spellman1998Alpha.alpha_factor_release_sample021[9] -0.2 -14.5 -4.3 2.6 5.9 9.5 -3.7 2.8 -3.0 -0.3 2.8 -0.8 -2.1 -3.1
Spellman1998Alpha.alpha_factor_release_sample022[10] -6.0 -6.8 -0.3 -1.1 2.3 3.7 -3.8 1.4 -0.5 2.3 2.7 -0.8 -1.9 -0.7
Spellman1998Alpha.alpha_factor_release_sample023[11] -2.6 5.5 -0.3 -2.1 4.1 3.7 -6.1 0.5 -2.3 1.5 1.3 0.8 -2.2 -0.5
Spellman1998Alpha.alpha_factor_release_sample024[12] -6.6 14.8 0.2 -2.7 1.1 0.5 -5.1 1.4 -1.3 1.6 0.1 0.2 -6.8 5.1
Spellman1998Alpha.alpha_factor_release_sample025[13] -7.3 14.1 -0.8 1.1 1.8 1.2 -5.0 2.5 -2.7 -0.3 1.3 -0.5 -3.9 6.5
Spellman1998Alpha.alpha_factor_release_sample026[14] -9.2 5.2 -2.3 -0.4 2.2 4.7 -0.1 3.1 -4.2 1.5 0.3 -1.0 -1.7 2.9
Spellman1998Alpha.alpha_factor_release_sample027[15] -8.3 1.5 -1.5 -2.0 2.9 6.7 0.9 -0.3 -6.3 0.8 0.3 -0.7 0.9 2.9
Spellman1998Alpha.alpha_factor_release_sample028[16] -0.8 -1.5 -0.9 -1.3 3.2 5.1 1.0 0.9 -2.2 -0.1 -0.2 -0.6 -2.4 1.5
Spellman1998Alpha.alpha_factor_release_sample029[17] -3.3 -8.1 -1.6 0.2 2.4 5.0 -0.4 0.9 -1.2 -0.4 0.2 1.2 -0.5 -0.3
Spellman1998Alpha.alpha_factor_release_sample030[18] -6.1 -9.0 -1.3 -0.3 4.1 3.8 -1.4 1.1 1.4 1.5 1.8 -0.1 -1.7 -1.1

Summary table of P-values

Top | Recap | PSAM Thumbnail | PSAM Logo | F-value | t-value | P-value | Expression Summary

  intercept 1 2 3 4 5 6 7 8 9 10 11 12 13
Spellman1998Alpha.alpha_factor_release_sample013[1] 0.00020677 0 1 1 0.0917167 1 0 1 1 1 2.94802e-05 9.34713e-07 1 1
Spellman1998Alpha.alpha_factor_release_sample014[2] 0.0730917 1 0 0 7.61847e-05 1 1 3.05618e-06 1 2.45564e-11 0.0188081 1 1 1
Spellman1998Alpha.alpha_factor_release_sample015[3] 8.49486e-08 0 0 8.18545e-11 4.09273e-11 1 0.000387854 8.5186e-08 1 2.48539e-06 0.000977586 1 1 1
Spellman1998Alpha.alpha_factor_release_sample016[4] 6.17682e-07 0 0.844672 0.0756714 0.333051 1 0.19239 1 1 1 1 1 0.989162 0.809136
Spellman1998Alpha.alpha_factor_release_sample017[5] 0 0 1 1 1 1 1 1 1 1 1 1 1 0.351694
Spellman1998Alpha.alpha_factor_release_sample018[6] 0.000864558 1 1 1 1 0.950332 1 1 1 1 1 1 1 1
Spellman1998Alpha.alpha_factor_release_sample019[7] 0.690244 0.0051748 0.726025 1 1 4.59204e-09 1 1 1 1 1 1 1 1
Spellman1998Alpha.alpha_factor_release_sample020[8] 1 0 1 1 1 7.44876e-10 1 1 1 1 1 1 1 1
Spellman1998Alpha.alpha_factor_release_sample021[9] 1 0 0.776406 1 0.000234512 0 1 1 1 1 1 1 1 1
Spellman1998Alpha.alpha_factor_release_sample022[10] 0.0001168 7.13763e-07 1 1 1 1 0.999998 1 1 1 1 1 1 1
Spellman1998Alpha.alpha_factor_release_sample023[11] 1 0.00331178 1 1 0.959491 1 8.8938e-05 1 1 1 1 1 1 1
Spellman1998Alpha.alpha_factor_release_sample024[12] 2.77526e-06 0 1 1 1 1 0.0279494 1 1 1 1 1 7.30699e-07 0.0255987
Spellman1998Alpha.alpha_factor_release_sample025[13] 1.59862e-08 0 1 1 1 1 0.0493266 1 1 1 1 1 0.999784 5.66678e-06
Spellman1998Alpha.alpha_factor_release_sample026[14] 0 0.0166147 1 1 1 0.193383 1 1 0.897409 1 1 1 1 1
Spellman1998Alpha.alpha_factor_release_sample027[15] 8.18545e-12 1 1 1 1 1.5021e-06 1 1 2.58202e-05 1 1 1 1 1
Spellman1998Alpha.alpha_factor_release_sample028[16] 1 1 1 1 1 0.0298475 1 1 1 1 1 1 1 1
Spellman1998Alpha.alpha_factor_release_sample029[17] 1 5.72982e-11 1 1 1 0.0341286 1 1 1 1 1 1 1 1
Spellman1998Alpha.alpha_factor_release_sample030[18] 6.94099e-05 0 1 1 0.963798 0.999997 1 1 1 1 1 1 1 1

Summary of expression data

Top | Recap | PSAM Thumbnail | PSAM Logo | F-value | t-value | P-value | Expression Summary

Spellman1998Alpha: [the expression file], [filtered], [residuals], [fitted]. Note: there are 526 expression IDs without matching sequences.

  # R² raw-mean raw-var mean variance fit-var res-var
alpha_factor_release_sample013[1] 5550 0.0630644 -0.0662054 0.197567 -0.0662054 0.197567 0.0124594 0.185107
alpha_factor_release_sample014[2] 5541 0.0746524 -0.0850063 0.308523 -0.0850063 0.308523 0.023032 0.285491
alpha_factor_release_sample015[3] 5568 0.0879345 -0.108391 0.277953 -0.108391 0.277953 0.0244417 0.253511
alpha_factor_release_sample016[4] 5514 0.0791958 -0.0995085 0.240132 -0.0995085 0.240132 0.0190174 0.221114
alpha_factor_release_sample017[5] 5524 0.0329926 -0.0977643 0.172341 -0.0977643 0.172341 0.00568598 0.166655
alpha_factor_release_sample018[6] 5553 0.013182 -0.0570791 0.142724 -0.0570791 0.142724 0.00188139 0.140842
alpha_factor_release_sample019[7] 5624 0.0174463 -0.0559531 0.117795 -0.0559531 0.117795 0.00205509 0.11574
alpha_factor_release_sample020[8] 5577 0.0318447 -0.0607154 0.139257 -0.0607154 0.139257 0.0044346 0.134823
alpha_factor_release_sample021[9] 5592 0.0644752 -0.00988019 0.0936221 -0.00988019 0.0936221 0.0060363 0.0875858
alpha_factor_release_sample022[10] 5576 0.0168771 -0.084991 0.125141 -0.084991 0.125141 0.00211201 0.123029
alpha_factor_release_sample023[11] 5561 0.0210277 -0.0233951 0.158145 -0.0233951 0.158145 0.00332541 0.154819
alpha_factor_release_sample024[12] 5591 0.0639854 -0.0664389 0.108602 -0.0664389 0.108602 0.00694892 0.101653
alpha_factor_release_sample025[13] 5605 0.0627957 -0.0350437 0.0567074 -0.0350437 0.0567074 0.00356098 0.0531464
alpha_factor_release_sample026[14] 5524 0.0234843 -0.080143 0.114637 -0.080143 0.114637 0.00269217 0.111945
alpha_factor_release_sample027[15] 5548 0.0223394 -0.0881561 0.164308 -0.0881561 0.164308 0.00367055 0.160638
alpha_factor_release_sample028[16] 5594 0.0087954 0.0114712 0.113368 0.0114712 0.113368 0.000997117 0.112371
alpha_factor_release_sample029[17] 5552 0.0157407 -0.0400648 0.101897 -0.0400648 0.101897 0.00160394 0.100293
alpha_factor_release_sample030[18] 5576 0.023109 -0.0648135 0.123227 -0.0648135 0.123227 0.00284765 0.120379