Results for the job "XrPsVu Wed Jul 21 17:36:00 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        20                                        
Human_GS3 aagcggttcctggagaacagaatg------------------------------------
          |  |     |  | |  ||                                         
Mouse_mlphacacacacacacgcgcgcacgcgcgcgcgcgcacacacacacatctgcagatgacccaaa
                  10        20        30        40        50        60

                                                                      
Human_GS3 ------------------------------------------------------------
                                                                      
Mouse_mlphgcatgtcttctaaggttccctttcctctcctgctgacagggaataaatgctactatcaca
                  70        80        90       100       110       120

                                                                      
Human_GS3 ------------------------------------------------------------
                                                                      
Mouse_mlphtctgtccaccctggagctagttattgtttacggccctgtctctatgttgcagatgccagc
                 130       140       150       160       170       180

                                                                      
Human_GS3 ------------------------------------------------------------
                                                                      
Mouse_mlphactgagttgtaaaagttgtcctcaaagagtagaggcctctctctgtagctcaggctggcc
                 190       200       210       220       230       240

                                                                      
Human_GS3 ------------------------------------------------------------
                                                                      
Mouse_mlphtggctggaactcaatactaaaacaggttggtctgaaactttcagcaatcctcctgcttca
                 250       260       270       280       290       300

                                                                      
Human_GS3 ------------------------------------------------------------
                                                                      
Mouse_mlphgcctcccaagtgttgggattttgggtgtgaactagcacacacttggctaagtgaattttt
                 310       320       330       340       350       360

                                                                      
Human_GS3 ------------------------------------------------------------
                                                                      
Mouse_mlphgtttggttggttttttaatatagccatagggaaggggtcagggtgctcttatgctgcggc
                 370       380       390       400       410       420

                                                                      
Human_GS3 ------------------------------------------------------------
                                                                      
Mouse_mlphatggggggaggttatgttctttcaacatccagggcagatctctgggtggagcttctcaga
                 430       440       450       460       470       480

                             30        40        50        60        7
Human_GS3 ---------------TGAGTTTttaagtgACAAGGgagagggagggggagggagagaaaa
                            ||||| ||  | |||||    ||                   
Mouse_mlphccacagacctactggACTGTTTtcaatagTCAAGGccttggcc-----------------
                 490       500       510       520                    

          0        80        90       100       110       120       13
Human_GS3 ttctgaagcgcccagtcttggaggatgagggaggagggcaattccctaatgtccattgga
                                                                      
Mouse_mlph------------------------------------------------------------
                                                                      

          0       140       150       160       170       180       19
Human_GS3 attcggaaggacaggcaggccgggcGGACTGGAGACGGCGGctcgccttgggaccctctg
                                   ||||||| |  || ||  ||| |  |         
Mouse_mlph-------------------------GGACTGGGGGGGGGGGgccgcttgtgag-------
                                       530       540       550        

          0       200       210       220       230       240       25
Human_GS3 agcttgcgggCCCCGCTGAGcacccaaaggccggccctagagtccaggagaagagcgcag
                     ||  |||||  ||    || | ||        |  | |           
Mouse_mlph----------TCCATCTGAGggcctgggggacagcgactccagctggaaacct-------
                          560       570       580       590           

          0       260       270       280       290       300       31
Human_GS3 cggcgcggagctcccaggcgttccccgcagcgcgtcctcggtcctggaaccaccgcgccg
                                                                      
Mouse_mlph------------------------------------------------------------
                                                                      

          0       320       330       340       350       360       37
Human_GS3 cgcgtcctggcttccacatctgccccatttgcccgcggatcttgactttttcttggcggg
                                                                      
Mouse_mlph------------------------------------------------------------
                                                                      

          0       380       390       400       410       420       43
Human_GS3 caaggcctcggtctcctccccgcagcagggctgcccgcggctgcgggaccctcctggtcc
                                                                      
Mouse_mlph------------------------------------------------------------
                                                                      

          0       440       450       460       470       480       49
Human_GS3 tgatgcctggcagaatcgaaggggtgagggtacgctctctgcagcagaaagccctGGGCT
                                                                 |||||
Mouse_mlph-------------------------------------------------------GGGCT
                                                                    60

          0       500       510       520       530       540       55
Human_GS3 TAAAGTCCTATTtattatttggcgttgccacttactggTCGGTGGCTTTGGTAGGGCgcg
           | ||||  | | |  |                     | |||| ||||||   ||    
Mouse_mlphCACAGTCTCACTaaaaag--------------------TTGGTGACTTTGGGTAGGGcgc
          0       610                           620       630       64

          0       560       570       580       590       600       61
Human_GS3 tttctgagCCTCAGTTTCCCcatttgtaaagccgaagtacatagcgctttccctgcagag
          |||     ||||||||||||  | ||| ||||  |   |          |   |      
Mouse_mlphtttt----CCTCAGTTTCCCtgtctgtgaagctaagtaaagagttaaaatggatatttg-
          0           650       660       670       680       690     

          0       620       630       640       650       660       67
Human_GS3 ttagaaatttcgACGATGTGCCGCgcgctctagagcgcgctcagcaagcgggtcccaccg
                        || |||||| |  ||| |  |                   ||  | 
Mouse_mlph------------CGGAGGTGCCGTgttctcaaaggatgcggtttgccagcaaatccctcc
                         700       710       720       730       740  

          0       680       690       700       710       720       73
Human_GS3 tgcccaaggcaggaccgcggcgcgatgtcacctatgcaaagtcgccgcaactcacgggaa
          |      | |   | | | | |                || ||           | |   
Mouse_mlphtatgggggaccaaaacccagtggtggaaatgagcgcacaactccaacgcgtgttctg---
               750       760       770       780       790            

          0       740       750       760       770       780       79
Human_GS3 tcgcagctgtgtgctcaactttcccctccccgccgccgtctttctCCCCAAACTGGCTTG
                                                       | |  ||| ||||||
Mouse_mlph---------------------------------------------CTCTCAACCGGCTTG
                                                     800       810    

          0       800       810       820         830       840       
Human_GS3 GGGgtcgagtatccggggctctcccccgcactgg--CGCTTCCCgcgcggGCGCCCCAGG
          |||     ||  |   | |   |   | ||||    ||| ||||  |   | ||| | ||
Mouse_mlphGGGacaaggtgcctctgtcctccatacccacttcagCGCCTCCCagga--GGGCCACTGG
             820       830       840       850       860         870  

          850       860       870       880       890        900      
Human_GS3 TGTCCgttccgttccgccctctgcctggcaGGGCATCCagaggtgtcc-GCGCTCCCGGA
           ||||| || | ||    |    ||      |||| || | ||||  |  || |||||||
Mouse_mlphAGTCCgctctgctcttggcctgtcc-----AGGCACCCtggggtgcacgTCGATCCCGGA
               880       890            900       910       920       

           910       920       930       940       950       960      
Human_GS3 GCTGGGCGGAGCGgggCGCAGCCCACGTGGTTCGGGCGGGAGGcgccgggacgtggccag
          |||||||||  | ||  | |||||||||| |  | || | | |    |       | |  
Mouse_mlphGCTGGGCGGGTCAgg-AGTAGCCCACGTGATCTGAGCCGCAAGttgggcaggaccggcgc
          930       940        950       960       970       980      

           970       980       990      1000      1010      1020      
Human_GS3 ttgcccgcctgccccggagagccaggcgctaaccagccgctctgcgccccgcgccctgct
               |  |             ||         |   | |  ||| ||| |         
Mouse_mlphcacagctgcctggatccccgcacacagctctgtctagctcagtgcaccctg---------
           990      1000      1010      1020      1030                

          1030      1040      1050      1060      1070      1080      
Human_GS3 tgcccccattatccagccttgccccggcgccctgacctgacGCCCTGGCCTgacgccctg
                                                    | |||||||  | |  ||
Mouse_mlph-----------------------------------------ACACTGGCCTcgctcggtg
                                                  1040      1050      

          1090      1100      1110      1120      1130                
Human_GS3 cttcgtcgcctcctttctctcccAGGTGCTggaccagggactgagcgtccccc-------
          | | |       || ||      ||| |||     |  |    || | ||          
Mouse_mlphcctggggtttctctctc------AGGAGCTaagagaaaggagcagaggccaggacccacc
          1060      1070            1080      1090      1100      1110

                                    1140      1150      1160      1170
Human_GS3 -----------------------------GGAGAGGGtccggtgtgaccccgacaagaag
                                       |||||| | | |||||| ||  ||  ||  |
Mouse_mlphgagccagagctacaggctgggcattcccaGGAGAGAGgctggtgtggcctggatgaggcg
                1120      1130      1140      1150      1160      1170

               
Human_GS3 cagaa
          | || 
Mouse_mlphccgag

CONREAL aligned hits:

Matrix Identity Seq1 from Seq1 to Seq2 from Seq2 to Strand Score1 Score2 Rel.Score1 Rel.Score2 Factor
M00148 0.51 25 31 496 502 2 7.141 4.325 0.92 0.81 SRY
M00805* 0.53 39 44 510 515 1 5.430 7.031 0.81 0.88 Pro only
M00704* 0.50 155 160 524 529 1 5.117 5.117 0.82 0.82 Pro only
M00690* 0.50 157 164 526 533 2 6.536 5.276 0.88 0.83 Pro only
M00695* 0.54 161 167 530 536 1 5.555 6.198 0.83 0.86 Pro only
M00706* 0.56 162 170 531 539 1 7.094 6.736 0.83 0.82 Pro only
M00695* 0.59 164 170 533 539 1 6.047 6.198 0.85 0.86 Pro only
M00176 0.53 200 209 552 561 2 9.836 8.070 0.92 0.85 AP-4
M00175 0.53 200 209 552 561 2 9.315 6.870 0.92 0.83 AP-4
M00644* 0.51 201 207 553 559 2 5.975 5.975 0.82 0.82 Pro only
M00646* 0.50 485 492 595 602 1 6.254 7.363 0.83 0.87 Pro only
M00805* 0.56 489 494 599 604 1 5.774 5.774 0.83 0.83 Pro only
M00630* 0.59 493 501 603 611 2 6.978 5.260 0.87 0.81 Pro only
M00792* 0.56 528 536 618 626 2 5.040 5.804 0.82 0.85 Pro only
M00727* 0.58 532 539 622 629 1 7.195 7.940 0.84 0.87 Pro only
M00486* 0.56 533 541 623 631 2 7.190 7.293 0.94 0.94 Pro only
M00159 0.51 534 546 624 636 1 6.069 6.958 0.83 0.86 C/EBP
M00805* 0.56 535 540 625 630 2 6.098 6.098 0.84 0.84 Pro only
M00801* 0.64 558 563 644 649 1 4.845 4.845 0.82 0.82 Pro only
M00670* 0.66 559 566 645 652 1 6.475 6.475 0.83 0.83 Pro only
M00747* 0.65 559 565 645 651 1 6.075 6.075 0.82 0.82 Pro only
M00183 0.62 559 568 645 654 2 5.361 5.361 0.80 0.80 c-Myb
M00148 0.65 560 566 646 652 2 6.186 6.186 0.88 0.88 SRY
M00415 0.62 561 569 647 655 1 5.770 5.770 0.83 0.83 AREB6
M00486* 0.62 561 569 647 655 2 5.562 5.562 0.87 0.87 Pro only
M00492* 0.61 561 568 647 654 1 5.424 5.424 0.80 0.80 Pro only
M00497* 0.61 561 568 647 654 1 3.745 3.745 0.80 0.80 Pro only
M00492* 0.63 562 569 648 655 1 6.087 6.087 0.83 0.83 Pro only
M00500* 0.63 562 569 648 655 1 7.384 7.384 0.93 0.93 Pro only
M00499* 0.63 562 569 648 655 1 5.050 5.050 0.86 0.86 Pro only
M00493* 0.63 562 569 648 655 1 6.385 6.385 0.89 0.89 Pro only
M00496* 0.63 562 569 648 655 1 6.972 6.972 0.93 0.93 Pro only
M00494* 0.63 562 569 648 655 1 6.159 6.159 0.88 0.88 Pro only
M00497* 0.63 562 569 648 655 1 6.345 6.345 0.92 0.92 Pro only
M00750* 0.62 562 568 648 654 2 6.728 6.728 0.88 0.88 Pro only
M00655* 0.51 622 628 695 701 2 6.158 6.553 0.84 0.86 Pro only
M00428* 0.50 626 633 699 706 1 7.661 4.837 0.95 0.84 Pro only
M00004 0.50 775 792 800 817 2 8.001 8.871 0.81 0.83 c-Myb
M00690* 0.53 776 783 801 808 1 7.538 6.201 0.91 0.86 Pro only
M00183 0.53 777 786 802 811 1 8.781 8.328 0.94 0.92 c-Myb
M00773* 0.54 779 789 804 814 2 7.479 6.907 0.89 0.86 Pro only
M00072 0.54 782 792 807 817 2 9.845 6.413 0.91 0.80 CP2
M00497* 0.50 824 831 851 858 1 7.974 4.174 1.00 0.82 Pro only
M00428* 0.58 838 845 863 870 2 4.531 5.138 0.83 0.85 Pro only
M00469* 0.59 840 848 865 873 1 8.151 4.365 0.93 0.80 Pro only
M00792* 0.56 844 852 869 877 2 5.660 6.155 0.84 0.87 Pro only
M00497* 0.61 878 885 898 905 2 5.255 3.807 0.87 0.80 Pro only
M00087 0.60 896 907 917 928 2 6.036 7.575 0.80 0.85 Ik-2
M00800* 0.59 899 914 920 935 1 7.275 7.275 0.81 0.81 Pro only
M00002 0.58 901 915 922 936 1 8.360 8.360 0.81 0.81 E47
M00189 0.60 903 914 924 935 2 6.978 6.978 0.82 0.82 AP-2
M00176 0.57 903 912 924 933 1 7.355 7.355 0.83 0.83 AP-4
M00175 0.57 903 912 924 933 1 7.089 7.089 0.84 0.84 AP-4
M00175 0.57 903 912 924 933 2 6.386 6.386 0.81 0.81 AP-4
M00644* 0.62 904 910 925 931 2 6.737 6.737 0.86 0.86 Pro only
M00720* 0.59 904 912 925 933 1 8.036 8.036 0.86 0.86 Pro only
M00644* 0.59 905 911 926 932 1 5.975 5.975 0.82 0.82 Pro only
M00196 0.56 907 919 928 940 1 12.140 9.614 0.89 0.84 Sp1
M00430* 0.63 908 915 929 936 1 6.593 6.593 0.82 0.82 Pro only
M00428* 0.63 908 915 929 936 1 3.824 3.824 0.80 0.80 Pro only
M00807* 0.59 908 918 929 939 1 8.726 7.902 0.87 0.84 Pro only
M00695* 0.65 909 915 930 936 1 7.466 7.466 0.91 0.91 Pro only
M00008 0.60 909 918 930 939 1 7.228 7.401 0.84 0.84 Sp1
M00803* 0.64 911 916 932 937 1 5.589 8.271 0.84 0.97 Pro only
M00615* 0.50 923 942 943 962 1 12.598 10.780 0.90 0.85 Pro only
M00615* 0.50 923 942 943 962 2 12.598 10.780 0.90 0.85 Pro only
M00236 0.54 925 940 945 960 1 8.113 9.834 0.82 0.85 Arnt
M00236 0.54 925 940 945 960 2 10.737 10.732 0.87 0.87 Arnt
M00624* 0.62 926 932 946 952 1 4.879 4.879 0.83 0.83 Pro only
M00118 0.57 926 939 946 959 1 13.393 10.928 0.89 0.85 c-Myc/Max
M00118 0.57 926 939 946 959 2 13.393 10.928 0.89 0.85 c-Myc/Max
M00119 0.57 926 939 946 959 1 12.624 12.369 0.91 0.90 Max
M00119 0.57 926 939 946 959 2 12.624 12.369 0.91 0.90 Max
M00121 0.57 926 939 946 959 1 11.954 13.559 0.91 0.94 USF
M00121 0.57 926 939 946 959 2 11.954 13.559 0.91 0.94 USF
M00122 0.57 926 939 946 959 1 9.894 11.105 0.91 0.94 USF
M00122 0.57 926 939 946 959 2 9.894 11.105 0.91 0.94 USF
M00470* 0.59 927 935 947 955 1 5.561 5.561 0.82 0.82 Pro only
M00469* 0.59 927 935 947 955 1 5.200 5.200 0.83 0.83 Pro only
M00123 0.55 927 938 947 958 1 8.987 8.085 0.86 0.83 c-Myc/Max
M00123 0.55 927 938 947 958 2 10.843 9.699 0.91 0.88 c-Myc/Max
M00055 0.55 927 938 947 958 1 10.332 10.546 0.90 0.91 N-Myc
M00055 0.55 927 938 947 958 2 10.003 8.111 0.89 0.84 N-Myc
M00796* 0.55 927 938 947 958 1 9.403 11.550 0.87 0.92 Pro only
M00796* 0.55 927 938 947 958 2 12.204 10.216 0.94 0.89 Pro only
M00468* 0.59 928 934 948 954 2 5.427 5.427 0.84 0.84 Pro only
M00184 0.55 928 937 948 957 1 6.299 6.299 0.80 0.80 MyoD
M00322* 0.55 928 937 948 957 1 9.148 8.161 0.90 0.87 Pro only
M00322* 0.55 928 937 948 957 2 9.629 7.533 0.92 0.85 Pro only
M00187 0.55 928 937 948 957 1 9.850 9.249 0.92 0.90 USF
M00187 0.55 928 937 948 957 2 8.368 8.865 0.87 0.88 USF
M00799* 0.59 929 935 949 955 2 10.927 10.927 1.00 1.00 Pro only
M00726* 0.61 930 935 950 955 1 8.133 8.133 1.00 1.00 Pro only
M00726* 0.61 930 935 950 955 2 8.133 8.133 1.00 1.00 Pro only
M00799* 0.59 930 936 950 956 1 10.927 7.811 1.00 0.89 Pro only
M00396 0.57 933 939 953 959 1 4.504 4.063 0.85 0.83 En-1
M00431* 0.50 942 949 962 969 2 6.173 5.815 0.84 0.83 Pro only
M00428* 0.50 942 949 962 969 2 5.955 6.332 0.89 0.90 Pro only
M00761* 0.53 1068 1077 1038 1047 2 5.167 6.054 0.80 0.83 Pro only
M00624* 0.51 1110 1116 1074 1080 2 5.583 4.314 0.86 0.81 Pro only
M00649* 0.71 1140 1147 1140 1147 1 8.703 6.920 0.87 0.81 Pro only