Results for the job "6yFnGP Wed Jul 28 20:06:19 2004":

Parameters:
  PWM threshold: 80 %
  Homology threshold: 50 %
  Flank length: 15 bp


Plain files:
  Raw TFBSs data
  List of CONREAL aligned TFBSs
  CONREAL alignment

Graphical representation of aligned TFBSs.

Bars represent number of aligned hits found within 20 bp window calculated in coordinates of the longer sequence.
Each black line represents an aligned TFBS.

CONREAL:



CONREAL alignment:

Aligned TFBSs are shown in uppercase.
No attempts were made to align regions not covered by TFBSs (lowercase).

                  10                                                  
OCA4(humantgtgcaatagtgtgtga-------------------------------------------
            |      || || |                                            
Matp(mouse)gctatcccggtatgagcagaatcaaagagccaggactagacctagggctgcagtaacaat
                  10        20        30        40        50        60

                                                                      
OCA4(human------------------------------------------------------------
                                                                      
Matp(mouse)agctacggagagttaaagggacccagcagtccagtgtggctactagacaactactagatt
                  70        80        90       100       110       120

                                                                      
OCA4(human------------------------------------------------------------
                                                                      
Matp(mouse)catagtgggcattcagtcaatgccaaaaatatctcaggatgaagaaaattgggacatact
                 130       140       150       160       170       180

                                                                      
OCA4(human------------------------------------------------------------
                                                                      
Matp(mouse)tggtttttttgtttgtttgtttgcttgcttgttgttttcccacccctgacttttcaccaa
                 190       200       210       220       230       240

                                                  20        30        
OCA4(human---------------------------------------GAGAGAAGCTgtcatgtgtaa
                                                  || ||| |||          
Matp(mouse)agcttcctgctgtccaagtatgcctagaagccagggagcAAGGGAACCTgg---------
                 250       260       270       280       290          

          40        50        60        70        80        90       1
OCA4(humantaatgtgtgagagaagccatgtatgatcatgtgtaataacgtgagagaagccatgtgtga
                                                                      
Matp(mouse)------------------------------------------------------------
                                                                      

          00       110       120       130       140       150       1
OCA4(humanccatgtgtaataacgtgtgtgagagaagccatgtgtgtggtcatgtgtaataaaatgcat
                                                                      
Matp(mouse)------------------------------------------------------------
                                                                      

          60       170       180       190       200       210       2
OCA4(humangagaagccatgtgtgatcatgtgtaatagcatgtgagagagaagccatgtatgatcatgt
                                                                      
Matp(mouse)------------------------------------------------------------
                                                                      

          20       230       240       250       260       270       2
OCA4(humangtaataacgcatgtgagagaagccatgtgtgaccatgtgtaatgtgtgtgagagaagcca
                                                                      
Matp(mouse)------------------------------------------------------------
                                                                      

          80       290       300       310       320       330       3
OCA4(humantgtgtgatcatgtgtaatagcatgtgtgtgagaagccatgtgtatgatcatgtgtaataa
                                                                      
Matp(mouse)------------------------------------------------------------
                                                                      

          40       350       360       370       380       390       4
OCA4(humancatgcatgagagaagccgtgtgtgatcatgtgtaatagcatgtatgtgagaaaccatgtg
                                                                      
Matp(mouse)------------------------------------------------------------
                                                                      

          00       410       420       430       440       450       4
OCA4(humantgatcatgtgtaatgtgtgtgagagaagccatgtgtgtgatcatgtgtaatagcatgtgt
                                                                      
Matp(mouse)------------------------------------------------------------
                                                                      

          60       470       480       490       500       510       5
OCA4(humangtgagaagccgtgtgtgatcatgtgtaatagcatgtgtgtgtgagaagccaggtgtgatc
                                                                      
Matp(mouse)------------------------------------------------------------
                                                                      

          20       530       540       550       560       570       5
OCA4(humanacgtttaatagcgtgtgtgtgagagaagccatgtgtgtgatcatgtgtaataatgtgtgt
                                                                      
Matp(mouse)------------------------------------------------------------
                                                                      

          80       590       600       610       620       630       6
OCA4(humangtgagagaagccacgtgtgtgatcatgtgtaatagcatgtgtgtgtgagagagaaaccat
                                                                      
Matp(mouse)------------------------------------------------------------
                                                                      

          40       650       660       670       680       690       7
OCA4(humangtgtgtgatcatgtGTAATACtgtctgagagagcccatgtgtgtgatcacgtgtaataac
                        | |||   |||  | || ||| |     ||   |          ||
Matp(mouse)--------------GAAATGTagtcccatagggccaagtaaagtaggcggtgactggtac
                              300       310       320       330       

          00       710       720                                      
OCA4(humangtgtgtgtgagagggagagaagccatgt--------------------------------
                |   |                |                                
Matp(mouse)aaaacagactgtatatactctattcattcaactcctgtttgttagcagatattttgggag
          340       350       360       370       380       390       

                                                                      
OCA4(human------------------------------------------------------------
                                                                      
Matp(mouse)gacctaagaggtgcaaggctagatgctagggatgccataacgaccaaaatcgacctgatc
          400       410       420       430       440       450       

                                                                      
OCA4(human------------------------------------------------------------
                                                                      
Matp(mouse)tctgtcctgagagcaagaccggttaacacaggatgtaaaaagcaccgagtgcagcgagag
          460       470       480       490       500       510       

                                                                      
OCA4(human------------------------------------------------------------
                                                                      
Matp(mouse)agaaaagttcacggagttaagtgacagccagtggttggggtgaagactggggcctggcac
          520       530       540       550       560       570       

              730       740       750                                 
OCA4(human---GTGTGATcacgtgtaattgtgtgtgtgtgt---------------------------
              |  | ||  ||  | |||| | |     |                           
Matp(mouse)agtTTTAGCTctagttaatttgtcttttaagctttgggtagaaagtgtgaattctggaaa
          580       590       600       610       620       630       

                                                                      
OCA4(human------------------------------------------------------------
                                                                      
Matp(mouse)acagaatatccagatctatagagagaagtttatagaaattattggattatttacattttt
          640       650       660       670       680       690       

                                                                      
OCA4(human------------------------------------------------------------
                                                                      
Matp(mouse)agttagtctctgtctaaggaaactttatgatttttaagctatgaaactaagaggtgtaca
          700       710       720       730       740       750       

                                               760       770       780
OCA4(human------------------------------------GAGAGAGAGAGAAAGAGAGAGGGA
                                              |||||||||||| |||||||| ||
Matp(mouse)attgtgtgtgtggaaagacagacagagagagagagaGAGAGAGAGAGAGAGAGAGAGAGA
          760       770       780       790       800       810       

                 790       800       810       820       830       840
OCA4(humanaCAGTACAAAGGAGGatccctttagaaaagtattccaacgtcttatggagccagagggct
               | | ||   ||     |  |  ||| |            | | |     |     
Matp(mouse)gAGAGAGAGAGAGAGactgactgtgtgaaggaagatctttagagaggcacaagcattcta
          820       830       840       850       860       870       

                            850       860       870       880       89
OCA4(humangat-----------TCACAGCTGCTAATCTCTGTCATGCTTTCCAGCACCACCCCCTCcc
                        ||||||| ||||||||||||||||||| | ||  ||| | || || 
Matp(mouse)aggaccccgagggcTCACAGCAGCTAATCTCTGTCATGCTTCCGAGTGCCAACGCCCCct
          880       890       900       910       920       930       

          0            900       910       920       930       940    
OCA4(humantctcat-----CATAACTTGTGATCTTAGAGGCAGGAAAGAATTTGAGCCCCTCCCCCAG
          |  | |     | |||||||||||||| |||||| |||||||||| ||||||||| ||||
Matp(mouse)ttgcttctcacCGTAACTTGTGATCTTGGAGGCATGAAAGAATTTCAGCCCCTCCTCCAG
          940       950       960       970       980       990      1

             950       960       970       980       990      1000    
OCA4(humanCCTGACcatctctgttggttgctcggccaggctccacgtcaaatccagtttgaaacacag
          |||||||||||||||||||||||| | ||||||||| |||| | || ||||| | |||| 
Matp(mouse)CCTGACcatctctgttggttgctctgacaggctccatgtcagacccggtttggagcacaa
          000      1010      1020      1030      1040      1050      1

            1010      1020      1030      1040      1050      1060  
OCA4(humanaccctaGGACCACGcaggaggtggtgggctcgcAGGAAGGTtcctctcccagtggcc-
          | |    |  |                         |                     
Matp(mouse)atctg-AGGACCAC-------------------GCAAGAAG----------------G
          060       1070

CONREAL aligned hits:

Matrix Identity Seq1 from Seq1 to Seq2 from Seq2 to Strand Score1 Score2 Rel.Score1 Rel.Score2 Factor
M00747* 0.54 18 24 280 286 2 5.565 7.250 0.80 0.87 Pro only
M00500* 0.50 20 27 282 289 2 6.451 4.848 0.89 0.84 Pro only
M00499* 0.50 20 27 282 289 2 5.440 4.179 0.88 0.82 Pro only
M00497* 0.50 20 27 282 289 2 5.560 6.888 0.88 0.95 Pro only
M00396 0.54 653 659 292 298 1 4.705 4.132 0.86 0.83 En-1
M00624* 0.51 727 733 581 587 2 6.272 7.068 0.88 0.92 Pro only
M00077 0.74 757 765 794 802 1 5.599 5.599 0.82 0.82 GATA-3
M00286 0.66 758 771 795 808 1 6.788 7.258 0.81 0.82 GKLF
M00077 0.72 759 767 796 804 1 5.599 5.599 0.82 0.82 GATA-3
M00286 0.66 759 772 796 809 1 6.906 6.393 0.81 0.80 GKLF
M00286 0.68 760 773 797 810 1 8.372 7.258 0.85 0.82 GKLF
M00286 0.66 761 774 798 811 1 6.393 6.393 0.80 0.80 GKLF
M00286 0.68 762 775 799 812 1 7.258 7.258 0.82 0.82 GKLF
M00286 0.68 763 776 800 813 1 6.793 6.393 0.81 0.80 GKLF
M00286 0.68 764 777 801 814 1 8.038 7.258 0.84 0.82 GKLF
M00286 0.66 765 778 802 815 1 10.629 6.393 0.90 0.80 GKLF
M00286 0.66 766 779 803 816 1 11.376 7.258 0.92 0.82 GKLF
M00286 0.66 767 780 804 817 1 8.677 6.393 0.86 0.80 GKLF
M00077 0.67 771 779 808 816 1 6.822 5.599 0.86 0.82 GATA-3
M00286 0.52 782 795 819 832 1 6.366 7.258 0.80 0.82 GKLF
M00805* 0.67 844 849 892 897 1 5.774 5.774 0.83 0.83 Pro only
M00176 0.70 845 854 893 902 1 10.908 7.880 0.96 0.85 AP-4
M00175 0.70 845 854 893 902 1 9.943 8.175 0.94 0.88 AP-4
M00175 0.70 845 854 893 902 2 9.703 6.169 0.93 0.80 AP-4
M00698* 0.74 847 854 895 902 2 7.881 7.405 0.85 0.83 Pro only
M00712* 0.74 847 854 895 902 2 10.611 6.910 0.99 0.85 Pro only
M00644* 0.73 847 853 895 901 1 9.765 6.451 1.00 0.85 Pro only
M00623* 0.72 850 862 898 910 1 9.595 8.329 0.89 0.85 Pro only
M00077 0.79 852 860 900 908 2 6.511 6.511 0.85 0.85 GATA-3
M00462* 0.78 852 861 900 909 2 7.808 7.808 0.94 0.94 Pro only
M00640* 0.82 853 860 901 908 2 5.430 5.430 0.81 0.81 Pro only
M00789* 0.81 853 859 901 907 2 7.427 7.427 0.91 0.91 Pro only
M00162 0.80 856 869 904 917 1 7.396 7.396 0.84 0.84 Oct-1
M00701* 0.82 857 865 905 913 1 7.346 7.346 0.82 0.82 Pro only
M00173 0.80 857 867 905 915 2 6.841 6.841 0.81 0.81 AP-1
M00172 0.80 857 867 905 915 2 6.566 6.566 0.81 0.81 AP-1
M00419 0.79 857 868 905 916 2 8.182 8.182 0.91 0.91 MEIS1
M00801* 0.83 861 866 909 914 1 6.673 6.673 0.90 0.90 Pro only
M00272 0.82 861 870 909 918 1 6.361 6.361 0.84 0.84 p53
M00761* 0.82 861 870 909 918 2 7.324 7.324 0.87 0.87 Pro only
M00285 0.79 862 874 910 922 1 9.658 9.349 0.95 0.94 TCF11
M00624* 0.81 863 869 911 917 2 4.291 4.291 0.81 0.81 Pro only
M00497* 0.79 866 873 914 921 1 3.918 7.395 0.81 0.97 Pro only
M00428* 0.68 875 882 923 930 2 4.061 4.482 0.81 0.83 Pro only
M00695* 0.59 881 887 929 935 2 6.198 5.555 0.86 0.83 Pro only
M00183 0.80 896 905 949 958 1 6.525 6.525 0.85 0.85 c-Myb
M00395 0.79 896 904 949 957 1 4.292 4.885 0.84 0.87 HOXA3
M00122 0.82 897 910 950 963 1 7.487 6.701 0.85 0.83 USF
M00122 0.82 897 910 950 963 2 7.487 6.701 0.85 0.83 USF
M00794* 0.81 897 908 950 961 2 6.119 6.240 0.81 0.81 Pro only
M00123 0.81 898 909 951 962 2 8.093 8.093 0.83 0.83 c-Myc/Max
M00624* 0.84 902 908 955 961 2 5.420 5.420 0.85 0.85 Pro only
M00462* 0.88 903 912 956 965 2 4.904 5.183 0.82 0.83 Pro only
M00722* 0.87 903 910 956 963 1 6.847 6.847 0.83 0.83 Pro only
M00751* 0.86 903 908 956 961 1 6.346 6.346 0.83 0.83 Pro only
M00271 0.86 903 908 956 961 1 5.827 5.827 0.84 0.84 AML-1a
M00285 0.86 904 916 957 969 1 6.047 6.180 0.83 0.83 TCF11
M00396 0.86 904 910 957 963 1 4.063 4.063 0.83 0.83 En-1
M00805* 0.89 909 914 962 967 2 5.774 5.774 0.83 0.83 Pro only
M00469* 0.87 909 917 962 970 2 4.665 5.747 0.81 0.85 Pro only
M00008 0.93 913 922 966 975 1 7.440 6.408 0.85 0.81 Sp1
M00486* 0.90 918 926 971 979 1 5.109 5.724 0.85 0.87 Pro only
M00500* 0.89 918 925 971 978 2 7.810 5.912 0.94 0.87 Pro only
M00498* 0.89 918 925 971 978 2 6.097 5.233 0.90 0.87 Pro only
M00734* 0.90 920 928 973 981 1 6.429 6.429 0.83 0.83 Pro only
M00630* 0.90 921 929 974 982 2 5.906 5.906 0.83 0.83 Pro only
M00377 0.90 921 931 974 984 1 6.936 7.664 0.82 0.84 Pax-4
M00148 0.89 921 927 974 980 1 5.137 5.137 0.84 0.84 SRY
M00500* 0.89 922 929 975 982 2 5.617 5.617 0.86 0.86 Pro only
M00498* 0.89 922 929 975 982 2 3.999 3.999 0.82 0.82 Pro only
M00499* 0.89 922 929 975 982 2 6.898 6.898 0.94 0.94 Pro only
M00493* 0.89 922 929 975 982 2 7.114 7.114 0.93 0.93 Pro only
M00496* 0.89 922 929 975 982 2 4.235 4.235 0.81 0.81 Pro only
M00494* 0.89 922 929 975 982 2 5.631 5.631 0.85 0.85 Pro only
M00497* 0.89 922 929 975 982 2 4.422 4.422 0.83 0.83 Pro only
M00750* 0.89 923 929 976 982 1 4.867 4.867 0.81 0.81 Pro only
M00486* 0.90 924 932 977 985 2 6.372 6.241 0.90 0.90 Pro only
M00396 0.89 924 930 977 983 1 4.743 3.690 0.87 0.81 En-1
M00646* 0.84 928 935 981 988 2 9.492 6.254 0.96 0.83 Pro only
M00491* 0.70 930 942 983 995 2 13.459 10.761 0.91 0.86 Pro only
M00084 0.70 930 942 983 995 2 10.310 9.047 0.89 0.85 MZF1
M00196 0.67 931 943 984 996 2 14.002 11.777 0.93 0.89 Sp1
M00083 0.74 932 939 985 992 2 6.039 6.039 0.81 0.81 MZF1
M00428* 0.74 932 939 985 992 2 4.138 4.138 0.81 0.81 Pro only
M00008 0.70 932 941 985 994 2 7.358 6.523 0.84 0.81 Sp1
M00286 0.61 933 946 986 999 2 7.655 8.055 0.83 0.84 GKLF
M00649* 0.68 934 941 987 994 2 12.480 8.587 1.00 0.87 Pro only
M00720* 0.67 934 942 987 995 2 10.627 7.295 0.95 0.83 Pro only
M00665* 0.59 934 947 987 1000 2 12.411 9.498 0.90 0.83 Pro only
M00695* 0.70 935 941 988 994 2 8.909 8.909 0.97 0.97 Pro only
M00706* 0.67 935 943 988 996 2 9.335 6.665 0.92 0.82 Pro only
M00378 0.60 936 947 989 1000 1 7.092 6.679 0.86 0.84 Pax-4
M00285 0.53 938 950 991 1003 2 6.180 6.343 0.83 0.84 TCF11
M00396 0.51 1011 1017 1064 1070 2 3.725 3.725 0.81 0.81 En-1
M00751* 0.53 1013 1018 1066 1071 2 6.346 6.346 0.83 0.83 Pro only
M00271 0.53 1013 1018 1066 1071 2 5.987 5.987 0.85 0.85 AML-1a
M00500* 0.61 1038 1045 1073 1080 2 8.565 8.276 0.97 0.96 Pro only
M00499* 0.61 1038 1045 1073 1080 2 5.596 6.749 0.88 0.93 Pro only
M00497* 0.61 1038 1045 1073 1080 2 5.504 4.563 0.88 0.84 Pro only