genome.fa.s21.2.7.7.80.10.50.1000.17.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_D08
Parameters: 2 7 7 80 10 50 1000
Length:  65987480

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   

This is table  17  of  211  ( 25274 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)
5410460--5410492	17	1.9	17	93	0	57	78	0	21	0	0.75
5411935--5412032	45	2.2	45	85	3	126	21	15	19	43	1.87
5417279--5417322	23	1.9	23	95	0	79	40	20	9	29	1.83
5417279--5417328	23	2.2	23	88	0	73	42	20	10	28	1.84
5427503--5427552	25	2.0	24	84	3	64	22	2	0	76	0.89
5434324--5434413	45	2.0	45	95	0	162	36	14	16	32	1.89
5438325--5438458	67	2.0	66	92	1	223	28	33	18	19	1.96
5438523--5438636	57	2.0	57	84	6	151	29	26	14	29	1.95
5439382--5439411	2	15.0	2	100	0	60	50	0	0	50	1.00
5441624--5441689	14	4.8	13	77	17	64	59	1	1	37	1.16
5441624--5441689	6	9.8	6	73	20	51	59	1	1	37	1.16
5454678--5454785	54	2.0	54	87	0	153	49	11	12	27	1.74
5455713--5455785	31	2.4	31	83	0	83	45	10	16	27	1.81
5457858--5457963	49	2.2	46	85	5	140	42	12	13	32	1.81
5461721--5461776	23	2.5	22	77	16	62	42	0	1	55	1.10
5461721--5461776	22	2.5	21	77	16	60	42	0	1	55	1.10
5465286--5465321	18	2.0	18	94	0	63	19	11	5	63	1.46
5474497--5474528	3	10.7	3	93	0	55	62	0	3	34	1.11
5474491--5474525	15	2.2	16	95	5	63	60	0	8	31	1.27
5475643--5475682	16	2.5	17	84	11	50	5	5	35	55	1.44
5477441--5477491	18	2.9	18	80	13	61	62	1	0	35	1.06
5481033--5481079	24	2.1	23	84	11	62	42	2	10	44	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5482907--5482960	23	2.4	23	81	9	58	33	1	5	59	1.31
5489448--5489487	14	2.9	14	92	0	62	42	15	2	40	1.60
5493552--5493577	12	2.2	12	100	0	52	61	0	0	38	0.96
5504203--5504241	9	4.3	9	90	6	53	71	5	0	23	1.05
5504325--5504353	13	2.1	14	93	6	51	13	10	6	68	1.37
5509633--5510027	9	44.3	9	81	5	426	49	16	0	33	1.51
5510211--5510282	21	3.4	21	90	3	110	34	16	44	4	1.67
5510657--5510748	40	2.2	40	90	3	148	21	19	21	36	1.95
5511264--5511329	34	1.9	34	87	6	98	31	7	15	45	1.74
5517940--5517991	26	2.0	26	100	0	104	30	15	11	42	1.82
5518015--5518086	36	2.0	36	100	0	144	36	8	22	33	1.84
5518165--5518270	51	2.1	51	94	0	185	29	9	22	38	1.86
5518484--5518526	19	2.3	19	88	11	63	39	0	0	60	0.97
5531714--5532156	220	2.0	220	97	0	832	25	31	14	27	1.95
5548646--5548686	21	2.0	21	90	0	64	19	29	21	29	1.98
5553120--5553157	19	2.0	19	85	10	51	44	0	2	52	1.14
5559609--5559642	18	1.9	18	94	5	61	76	2	2	17	1.04
5559727--5559795	13	5.2	13	75	19	63	63	0	36	0	0.94
5559749--5559815	5	13.4	5	74	12	57	67	0	32	0	0.91
5559728--5559813	30	2.9	29	79	14	79	66	0	33	0	0.92
5559732--5559803	20	3.6	20	84	3	92	66	0	33	0	0.92
5559741--5559803	20	3.2	20	88	0	99	66	0	33	0	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5560227--5560494	130	2.1	131	93	0	457	50	8	11	29	1.68
5560358--5561109	153	4.9	154	90	3	1119	51	7	10	30	1.63
5560694--5560729	16	2.1	18	90	10	58	69	0	5	25	1.10
5560356--5561101	305	2.4	302	89	4	1129	51	7	10	30	1.63
5561149--5561247	42	2.4	40	75	17	96	46	15	4	34	1.64
5561457--5561504	21	2.3	20	85	3	60	2	29	0	68	1.01
5561513--5561548	15	2.4	15	95	0	63	0	25	0	75	0.81
5562114--5562146	16	2.1	16	88	11	50	54	6	30	9	1.56
5563816--5563887	16	4.4	16	72	10	65	44	1	1	52	1.18
5570621--5570731	45	2.5	46	82	4	136	22	17	15	45	1.85
5572098--5572151	13	4.1	13	78	4	63	37	22	7	33	1.82
5572098--5572151	27	2.0	26	89	3	81	37	22	7	33	1.82
5574113--5574157	17	2.6	17	75	10	56	68	0	17	13	1.20
5575567--5575628	29	2.1	30	85	8	83	41	9	11	37	1.74
5586124--5586164	12	3.4	12	86	0	55	56	2	0	41	1.13
5587325--5587367	21	2.0	21	81	0	50	58	6	0	34	1.25
5587464--5587531	35	1.9	35	85	5	93	45	5	1	47	1.36
5588127--5588153	14	1.9	14	100	0	54	44	0	18	37	1.50
5593263--5593289	11	2.5	11	100	0	54	92	0	7	0	0.38
5593262--5593293	17	1.9	16	93	6	55	90	0	9	0	0.45
5599677--5599765	46	1.9	46	100	0	178	33	6	34	24	1.82
5603626--5603958	109	3.1	105	85	8	454	33	13	18	35	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5616671--5616699	1	29.0	1	100	0	58	100	0	0	0	0.00
5623524--5623591	16	4.2	16	94	0	118	27	0	33	38	1.57
5623807--5623848	15	2.7	16	82	14	52	52	2	0	45	1.13
5623816--5623857	15	2.9	15	82	10	52	52	0	0	47	1.00
5624023--5624083	28	2.2	28	85	5	81	50	3	0	45	1.17
5627973--5628009	19	2.0	20	84	10	51	56	2	2	37	1.28
5644465--5644497	2	16.5	2	100	0	66	51	48	0	0	1.00
5648576--5648604	14	2.0	15	93	6	51	44	6	6	41	1.58
5649770--5649872	6	16.8	6	89	4	161	50	15	0	33	1.51
5649769--5649860	8	11.5	8	71	0	58	50	15	1	33	1.51
5655100--5655132	16	1.9	18	88	11	52	39	0	12	48	1.40
5661051--5661126	21	3.7	21	92	3	120	42	10	10	36	1.74
5668662--5668705	18	2.3	19	88	7	63	56	0	0	43	0.99
5669770--5669799	15	2.0	15	100	0	60	33	20	0	46	1.51
5669922--5670070	76	2.0	76	95	0	271	34	18	2	45	1.61
5670086--5670134	18	2.7	18	78	6	55	46	10	0	42	1.37
5672046--5672077	15	2.1	15	94	0	55	50	0	9	40	1.35
5680632--5680660	15	1.9	15	100	0	58	62	3	0	34	1.12
5681316--5681377	29	2.1	30	81	3	72	29	0	8	62	1.23
5681336--5681396	22	2.7	23	84	5	79	29	0	1	68	0.99
5681353--5681395	17	2.5	18	78	21	56	27	0	0	72	0.85
5691022--5691517	89	5.6	89	91	1	714	25	23	18	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5691024--5691507	45	10.9	43	72	4	329	26	23	19	30	1.98
5691042--5691484	133	3.3	131	72	6	379	25	23	19	30	1.98
5690941--5691491	44	12.4	44	71	6	324	26	23	19	30	1.98
5692783--5692824	7	6.0	7	79	20	52	14	16	0	69	1.20
5693689--5693733	22	2.0	22	91	0	72	66	6	15	11	1.42
5696590--5696795	101	2.0	102	97	2	387	36	19	15	28	1.93
5699371--5699434	17	3.6	17	72	15	58	26	10	14	48	1.76
5699363--5699433	36	2.0	36	94	0	124	25	11	15	47	1.78
5699362--5699418	19	3.1	19	71	19	66	26	12	15	45	1.82
5704274--5704318	17	2.6	17	92	0	72	31	13	8	46	1.74
5707352--5707390	15	2.6	15	84	8	53	58	2	2	35	1.25
5718546--5718615	29	2.3	30	85	4	88	52	7	4	35	1.48
5718546--5718635	29	3.0	28	80	12	81	52	8	3	35	1.49
5730503--5730535	12	2.7	13	86	13	52	45	0	0	54	0.99
5731177--5731234	29	1.9	29	86	6	80	50	13	3	32	1.59
5733379--5733431	23	2.5	22	81	9	56	54	3	0	41	1.18
5733813--5733841	8	3.8	8	90	9	51	55	0	0	44	0.99
5740900--5740998	50	2.0	50	85	0	135	42	11	16	30	1.82
5743377--5743411	3	11.7	3	87	0	52	0	40	0	60	0.97
5755588--5755616	14	2.0	15	93	6	51	82	0	17	0	0.66
5764132--5764330	53	3.9	52	79	7	185	32	28	17	22	1.96
5767499--5767527	13	2.1	14	93	6	51	27	0	10	62	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5769180--5769236	21	2.7	21	77	0	69	21	15	14	49	1.80
5769224--5769318	21	4.5	21	75	0	82	14	24	16	44	1.86
5769180--5769318	42	3.3	42	84	2	145	17	20	15	46	1.85
5769545--5769580	19	1.9	18	88	5	54	38	19	2	38	1.66
5772975--5773076	50	2.0	50	98	0	195	36	18	18	26	1.94
5782144--5782187	2	22.5	2	95	4	81	47	0	0	52	1.00
5782484--5782725	88	2.7	86	81	9	245	35	18	9	35	1.84
5782877--5782931	26	2.1	27	82	3	67	56	0	0	43	0.99
5782926--5782960	11	3.3	11	92	4	54	74	0	2	22	0.95
5782925--5783007	19	4.3	19	73	15	80	67	1	1	30	1.06

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