genome.fa.s4.2.7.7.80.10.50.1000.217.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: A04
Parameters: 2 7 7 80 10 50 1000
Length:  82679320

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   

This is table  217  of  255  ( 30512 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
72486018--72486049	8	4.0	8	91	0	55	50	21	25	3	1.64
72488605--72488644	19	2.0	19	85	9	53	52	12	0	35	1.39
72496531--72497048	259	2.0	259	96	0	955	27	18	16	38	1.92
72501355--72501387	10	3.4	10	95	4	59	66	15	0	18	1.25
72501352--72501400	20	2.6	18	75	15	53	61	10	0	28	1.29
72504484--72504559	31	2.5	30	82	4	82	26	14	7	51	1.69
72507800--72507834	18	1.9	18	88	0	52	51	2	0	45	1.16
72511069--72511103	8	4.1	8	86	13	52	28	0	0	71	0.86
72511070--72511114	18	2.4	18	92	3	72	31	0	2	66	1.04
72511044--72511118	11	7.5	10	73	16	57	32	1	2	64	1.16
72512213--72512284	23	3.0	23	76	9	74	43	0	0	56	0.99
72521022--72521074	26	2.0	26	82	7	63	39	20	13	26	1.89
72522937--72523012	9	8.4	9	71	15	59	28	2	1	67	1.12
72522932--72522981	19	2.7	19	84	3	75	32	4	0	64	1.12
72522932--72522987	28	2.1	26	83	6	67	32	3	0	64	1.11
72528860--72528892	2	17.0	2	90	6	50	0	54	0	45	0.99
72532247--72532305	28	2.1	29	81	9	68	59	1	13	25	1.44
72536628--72536654	2	13.5	2	100	0	54	48	0	0	51	1.00
72536793--72536859	33	2.0	34	82	8	84	49	16	2	31	1.61
72537852--72537880	3	9.7	3	100	0	58	65	0	0	34	0.93
72537723--72538253	290	1.9	282	82	11	672	59	4	4	31	1.38
72538095--72538134	2	20.0	2	84	0	53	50	2	2	45	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
72538196--72538332	3	45.0	3	68	12	59	59	2	4	32	1.32
72538909--72538949	20	2.0	20	86	9	57	26	0	2	70	0.99
72538980--72539006	14	1.9	14	100	0	54	88	0	0	11	0.50
72540047--72540160	56	2.0	56	84	0	147	35	19	14	29	1.92
72540219--72540397	89	2.0	87	88	2	259	39	17	17	25	1.92
72543549--72543718	46	3.7	46	74	7	173	30	30	19	20	1.97
72543557--72543727	93	1.8	93	88	2	263	29	30	19	20	1.97
72556217--72556330	54	2.1	54	98	0	219	31	2	3	62	1.26
72568367--72569068	177	4.0	178	85	0	924	27	25	16	30	1.97
72568520--72568963	44	10.0	45	66	12	123	28	24	15	31	1.96
72571723--72571990	125	2.1	126	89	4	409	33	15	14	36	1.88
72572462--72572543	41	2.0	41	97	0	155	24	8	9	57	1.59
72572627--72572668	22	2.0	21	86	13	59	33	0	4	61	1.17
72572627--72572668	21	2.0	22	85	4	59	33	0	4	61	1.17
72573016--72573045	15	2.0	15	100	0	60	66	0	0	33	0.92
72583738--72583770	17	1.9	17	93	0	57	33	0	0	66	0.92
72583944--72584034	44	2.0	44	85	2	119	34	26	5	34	1.80
72584016--72584082	16	4.2	16	88	1	100	29	26	4	38	1.76
72584310--72584343	18	1.9	18	94	5	61	32	2	5	58	1.37
72586285--72586318	18	1.9	18	88	5	52	29	0	5	64	1.17
72588374--72588410	17	2.2	17	100	0	74	27	0	32	40	1.57
72589266--72589334	29	2.3	29	85	5	84	47	13	14	24	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
72590655--72590717	32	2.0	32	83	0	81	42	6	6	44	1.55
72591514--72591546	2	16.0	2	93	6	57	48	48	0	3	1.17
72596456--72596480	2	12.5	2	100	0	50	48	0	0	52	1.00
72598835--72598874	19	2.0	19	85	9	53	25	17	10	47	1.78
72598889--72598932	18	2.4	19	85	11	65	72	2	0	25	0.96
72598897--72598954	31	1.9	31	82	6	75	68	5	1	24	1.19
72599022--72599070	7	7.3	7	79	9	57	69	2	0	28	1.00
72605943--72606028	46	1.9	44	90	4	136	32	13	24	29	1.94
72605936--72606050	44	2.6	45	84	2	133	35	13	21	28	1.92
72616260--72616526	47	5.7	47	82	9	305	41	13	23	20	1.88
72616250--72616521	142	1.9	138	85	5	368	42	13	24	20	1.87
72618717--72618752	16	2.2	16	90	0	54	52	2	0	44	1.15
72640843--72640968	46	2.7	46	93	0	216	29	28	20	21	1.98
72643358--72643446	30	3.0	30	79	8	92	58	15	15	10	1.63
72643358--72643437	15	5.4	15	77	7	83	60	13	16	10	1.59
72643369--72643446	15	5.2	15	77	9	70	57	15	15	11	1.65
72646336--72646505	93	1.8	93	90	0	277	28	27	21	22	1.99
72646327--72646502	46	3.8	46	78	10	187	29	27	21	22	1.99
72646378--72646521	46	3.1	45	75	18	145	29	27	20	23	1.99
72649387--72649434	24	2.0	23	88	4	69	12	2	27	58	1.46
72655192--72655237	24	1.9	24	90	0	74	32	15	30	21	1.94
72656352--72656388	14	2.7	14	80	19	51	21	5	0	72	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
72667577--72667652	35	2.2	35	100	0	152	55	11	7	25	1.63
72669114--72669286	46	3.8	45	79	10	188	21	19	29	28	1.98
72669108--72669278	93	1.8	93	91	0	279	21	20	29	28	1.98
72672214--72672282	15	4.6	15	83	0	84	11	17	13	57	1.64
72672205--72672292	30	3.0	30	81	8	99	10	17	15	56	1.66
72674003--72674175	46	3.8	45	79	10	197	21	19	30	28	1.98
72673997--72674167	93	1.8	93	92	0	288	21	20	29	28	1.98
72676826--72676860	16	2.2	16	94	0	61	82	0	17	0	0.66
72681959--72681991	17	1.9	17	88	11	50	24	0	6	69	1.10
72687449--72687483	13	2.7	13	95	0	61	20	22	17	40	1.92
72694768--72694822	20	2.7	21	75	8	60	41	1	10	45	1.50
72706811--72706857	21	2.2	22	92	3	78	21	38	19	21	1.94
72714283--72714321	8	4.9	8	90	0	51	35	0	12	51	1.40
72715382--72715411	12	2.6	12	94	5	53	63	0	10	26	1.26
72715544--72715577	13	2.5	13	90	9	50	70	2	0	26	1.01
72721942--72721995	28	1.9	28	92	0	90	27	14	31	25	1.95
72722646--72723034	172	2.3	172	87	1	557	35	19	9	35	1.84
72723012--72723082	32	2.3	31	80	9	81	36	14	12	36	1.84
72723148--72723191	3	14.7	3	95	0	79	68	0	29	2	1.02
72724661--72724823	79	2.1	79	96	0	299	30	14	10	44	1.78
72725077--72725138	23	2.7	23	84	0	88	19	8	4	67	1.34
72727731--72727864	66	2.0	66	82	5	164	13	23	20	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
72734376--72734975	59	10.3	58	83	4	728	45	2	5	46	1.39
72734376--72734975	176	3.4	175	85	4	800	45	2	5	46	1.39
72734376--72734975	235	2.6	233	88	5	876	45	2	5	46	1.39
72743397--72744006	122	4.8	122	69	18	356	29	13	20	35	1.92
72743135--72744130	191	5.2	192	99	0	1942	30	13	20	35	1.91
72743135--72744130	383	2.6	384	98	0	1942	30	13	20	35	1.91
72743970--72744288	123	2.6	123	93	1	539	27	14	21	36	1.92
72744047--72744252	54	3.5	54	65	17	142	28	14	20	37	1.91
72744272--72744305	16	2.1	17	88	5	52	17	11	5	64	1.45
72744211--72744617	191	2.2	181	82	10	470	27	17	17	37	1.92
72744211--72744469	91	2.9	87	79	12	289	27	17	17	37	1.92
72744461--72744489	15	1.9	15	100	0	58	13	6	6	72	1.26
72744565--72744671	54	2.0	55	92	1	180	31	14	14	38	1.88
72744498--72744901	141	2.9	141	88	5	541	28	16	18	36	1.92
72744706--72744818	55	2.1	55	93	3	192	28	16	17	37	1.92
72745061--72745094	14	2.3	15	90	5	52	67	2	0	29	1.05
72745090--72745191	30	3.4	31	83	5	122	29	22	3	44	1.71
72745454--72745503	10	5.2	10	80	7	59	70	0	30	0	0.88
72745457--72745499	19	2.3	19	88	11	63	69	0	30	0	0.88
72745565--72745635	3	23.0	3	78	13	65	70	0	29	0	0.88
72745566--72745636	10	7.2	10	75	19	69	71	0	28	0	0.86
72745568--72745634	34	2.0	34	88	5	100	70	0	29	0	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
72745569--72745636	17	4.0	18	74	14	65	72	0	27	0	0.85
72745719--72745748	6	5.2	6	96	4	53	86	13	0	0	0.57
72745713--72745755	20	2.1	20	87	12	61	83	13	2	0	0.74
72745908--72745972	19	3.2	19	79	16	67	78	0	21	0	0.75
72745908--72745969	11	6.1	9	85	14	61	79	0	20	0	0.74
72746112--72746149	16	2.3	17	86	4	51	21	0	5	73	1.02
72746302--72746818	17	29.8	18	70	15	265	32	11	11	44	1.77
72746312--72746671	35	10.1	37	72	16	178	33	12	11	42	1.78
72746359--72746531	73	2.4	73	82	5	190	35	12	9	42	1.76
72746384--72746664	35	8.0	35	74	11	200	33	12	11	42	1.78

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255