genome.fa.s17.2.7.7.80.10.50.1000.16.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: Gbar_D04
Parameters: 2 7 7 80 10 50 1000
Length:  52479919

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   

This is table  16  of  173  ( 20651 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)
4154500--4154529	3	10.0	3	100	0	60	33	0	0	66	0.92
4154864--4154890	13	2.1	13	100	0	54	59	0	0	40	0.98
4159809--4159834	6	4.3	6	100	0	52	34	0	0	65	0.93
4165550--4165577	13	2.2	13	100	0	56	14	7	21	57	1.61
4165665--4165730	13	5.1	13	79	0	78	34	6	22	36	1.79
4165922--4165971	24	2.1	23	81	3	55	54	2	0	44	1.11
4166342--4166380	20	2.0	20	94	0	69	38	5	41	15	1.69
4167412--4168080	154	4.4	154	87	6	957	29	11	8	50	1.67
4173037--4173104	30	2.2	31	86	2	102	30	17	20	30	1.96
4172989--4173184	89	2.2	90	84	4	254	39	16	18	25	1.91
4174135--4174207	3	24.3	3	100	0	146	34	0	0	65	0.93
4180358--4180392	16	2.2	16	89	0	52	42	0	0	57	0.99
4180352--4180415	29	2.2	29	83	10	78	45	1	0	53	1.10
4180351--4180494	32	4.5	31	71	15	91	47	0	0	51	1.05
4180388--4180439	17	3.2	16	83	8	61	42	1	0	55	1.10
4180422--4180446	13	1.9	13	100	0	50	52	0	0	48	1.00
4180442--4180486	23	1.9	24	86	13	67	48	0	0	51	1.00
4180443--4180494	14	3.5	15	79	10	54	50	0	0	50	1.00
4180442--4180497	21	2.6	22	76	18	55	48	0	0	51	1.00
4183398--4183454	29	2.0	29	86	6	80	29	21	33	15	1.94
4185736--4185803	30	2.2	31	86	2	102	30	17	20	30	1.96
4185710--4185884	90	2.0	88	85	6	237	38	16	19	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4185849--4185915	31	2.2	31	83	5	82	29	16	22	31	1.96
4191291--4191396	55	1.9	55	84	3	142	28	10	19	41	1.84
4198804--4198850	7	6.7	7	100	0	94	42	0	44	12	1.42
4207135--4207210	23	3.3	23	83	12	111	28	26	19	25	1.99
4207297--4207324	8	3.5	8	100	0	56	35	28	10	25	1.89
4207444--4207481	17	2.2	17	86	9	51	42	21	2	34	1.67
4210509--4210544	17	2.0	19	89	10	58	33	0	5	61	1.19
4217493--4217564	11	6.9	11	70	20	57	58	0	1	40	1.07
4217533--4217592	9	6.6	9	82	3	75	71	0	0	28	0.86
4217522--4217583	28	2.2	28	97	0	115	67	0	0	32	0.91
4217609--4217634	5	5.2	5	100	0	52	0	42	57	0	0.98
4223029--4223069	21	2.0	21	86	9	59	39	0	4	56	1.21
4227026--4227076	20	2.5	20	87	0	66	45	21	7	25	1.79
4227395--4227450	19	2.9	19	81	2	67	33	14	8	42	1.77
4234682--4234712	14	2.2	14	94	0	53	19	6	12	61	1.53
4234929--4234962	12	2.8	12	90	0	50	67	0	0	32	0.91
4235211--4235289	33	2.5	32	87	6	108	24	8	8	58	1.57
4237356--4237397	13	3.4	12	84	12	50	9	0	19	71	1.13
4240205--4240250	23	2.0	23	86	0	65	45	17	8	28	1.78
4241252--4241281	6	5.0	6	100	0	60	16	0	0	83	0.65
4241941--4242118	69	2.5	70	80	9	191	36	15	5	42	1.71
4242386--4242648	141	1.9	142	83	5	345	32	15	14	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4242848--4242913	27	2.4	28	80	10	73	42	7	0	50	1.31
4243383--4243433	19	2.7	18	82	8	66	68	1	0	29	1.00
4250669--4250739	28	2.5	29	93	2	117	26	8	8	56	1.58
4260885--4260909	4	6.2	4	100	0	50	48	24	0	28	1.52
4262394--4262456	33	1.9	33	81	12	76	65	7	9	17	1.46
4262852--4262981	60	2.2	61	80	5	140	40	15	4	39	1.68
4265233--4265278	15	3.1	15	70	17	51	58	8	4	28	1.47
4274122--4274169	24	2.0	25	87	4	71	66	2	0	31	1.03
4274122--4274197	12	6.6	11	74	19	59	65	2	0	31	1.06
4274779--4274839	23	2.5	23	81	7	68	3	32	18	45	1.65
4276866--4276893	8	3.5	8	100	0	56	50	0	0	50	1.00
4277148--4277224	13	5.9	13	84	0	109	40	29	9	20	1.83
4277148--4277224	26	3.0	26	92	0	127	40	29	9	20	1.83
4277424--4277483	27	2.2	28	82	8	79	50	30	0	20	1.49
4285904--4285946	20	2.2	20	91	4	70	41	0	4	53	1.21
4285900--4285951	20	2.5	20	84	3	68	36	1	5	55	1.35
4287604--4287644	22	1.9	21	85	5	55	9	12	4	73	1.24
4289995--4290045	2	25.5	2	100	0	102	50	0	49	0	1.00
4291107--4291176	19	3.7	19	78	3	61	61	4	4	30	1.34
4291034--4291159	56	2.2	56	82	9	141	60	2	3	34	1.26
4291466--4291512	10	4.8	10	78	5	60	34	0	0	65	0.93
4291466--4291512	19	2.4	20	82	7	60	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4291466--4291531	29	2.3	29	84	5	80	34	1	0	63	1.04
4291518--4291559	13	3.0	14	86	6	50	23	2	0	73	0.94
4291576--4291743	88	1.9	88	81	2	203	36	11	14	37	1.83
4297521--4297574	27	2.0	28	86	10	78	48	1	9	40	1.46
4301244--4301270	3	9.0	3	100	0	54	0	33	0	66	0.92
4305297--4305361	32	2.0	32	100	0	130	36	15	9	38	1.79
4306700--4306748	12	4.2	12	80	15	50	26	2	2	69	1.10
4313769--4313800	16	2.0	17	88	11	50	59	0	34	6	1.23
4318658--4318730	23	3.2	23	88	7	121	31	24	20	23	1.98
4318817--4318845	8	3.6	8	100	0	58	34	27	13	24	1.93
4321518--4321555	3	12.7	3	100	0	76	68	31	0	0	0.90
4321823--4321899	27	2.9	27	94	0	127	16	28	27	27	1.97
4321964--4322025	27	2.4	27	94	5	110	46	0	11	41	1.39
4326530--4326554	8	3.1	8	100	0	50	64	0	0	36	0.94
4327816--4327868	15	3.5	15	75	10	54	54	7	0	37	1.29
4327943--4328056	57	2.0	57	94	1	203	43	10	17	28	1.82
4328123--4328177	28	2.0	28	100	0	110	47	14	21	16	1.82
4333931--4334060	43	3.0	42	78	12	147	30	26	19	24	1.98
4335463--4335504	18	2.3	18	87	0	57	23	26	7	42	1.80
4335998--4336222	23	9.7	23	81	1	252	42	19	12	26	1.86
4338831--4338878	24	2.0	24	84	8	62	37	0	4	58	1.18
4339034--4339165	34	4.0	33	85	6	189	43	15	0	40	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4339131--4339189	28	2.1	29	90	6	95	40	16	0	42	1.49
4348740--4348787	25	1.9	25	82	0	60	31	12	14	41	1.83
4370980--4371012	16	2.1	16	100	0	66	57	12	6	24	1.57
4373328--4373518	97	1.9	100	91	3	316	44	6	17	31	1.74
4384129--4384187	18	3.2	18	81	13	59	67	1	5	25	1.20
4393447--4393633	90	2.1	90	95	0	338	31	8	11	48	1.70
4394022--4394065	15	2.7	18	80	20	60	0	11	52	36	1.38
4398091--4398174	42	2.0	42	100	0	168	59	9	2	28	1.41
4414972--4415166	97	2.0	97	88	4	286	38	15	15	29	1.89
4417169--4417417	50	4.8	50	83	3	273	21	28	24	26	1.99
4417168--4417417	100	2.4	104	85	5	328	21	28	24	26	1.99
4417512--4417542	13	2.4	13	94	0	53	54	12	0	32	1.38
4417755--4417812	30	1.9	30	89	0	89	31	24	3	41	1.71
4424756--4425003	50	4.8	50	85	4	300	20	29	23	26	1.99
4424755--4425003	100	2.4	103	88	6	353	20	29	23	26	1.99
4425098--4425129	13	2.5	13	94	0	55	56	12	0	31	1.37
4425341--4425398	30	1.9	30	89	0	89	31	24	3	41	1.71
4427234--4427290	26	2.2	26	84	6	71	52	3	1	42	1.28
4438190--4438363	65	2.6	65	74	11	149	20	16	18	44	1.86
4442428--4442478	22	2.3	22	93	0	84	60	13	5	19	1.53
4446642--4446675	16	2.1	16	100	0	68	35	5	23	35	1.79
4450106--4450150	22	2.1	21	84	8	56	26	8	8	55	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4452312--4452354	16	2.5	18	77	7	54	41	2	0	55	1.12
4452757--4452821	32	2.0	32	93	0	112	53	0	0	46	1.00
4452833--4452882	23	2.3	23	82	6	59	30	2	4	64	1.23
4460061--4460087	7	3.9	7	100	0	54	59	11	14	14	1.62
4460546--4460679	70	1.9	69	87	1	196	42	12	11	33	1.78
4462874--4462925	24	2.2	24	89	0	77	51	9	5	32	1.58
4467975--4468026	12	4.4	12	81	11	63	42	7	21	28	1.80
4469356--4469440	9	9.4	9	85	0	107	27	8	21	43	1.80
4469999--4470059	5	11.2	5	85	13	77	75	0	6	18	1.01
4477792--4477836	20	2.2	20	92	0	72	35	0	4	60	1.17

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