genome.fa.s25.2.7.7.80.10.50.1000.186.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_D12
Parameters: 2 7 7 80 10 50 1000
Length:  58873029

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   

This is table  186  of  196  ( 23409 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)
54814493--54814540	20	2.3	21	78	3	53	60	10	2	27	1.41
54816136--54816306	72	2.4	72	88	4	258	55	13	5	25	1.59
54818643--54818695	25	2.2	24	86	6	72	52	20	24	1	1.56
54818765--54818794	14	2.1	14	100	0	60	50	23	26	0	1.50
54819392--54819458	34	1.9	35	87	3	100	46	8	8	35	1.67
54821339--54821373	17	2.0	18	88	5	54	62	2	11	22	1.41
54823324--54823379	22	2.5	23	75	16	64	33	5	0	60	1.19
54826866--54826897	13	2.5	13	95	5	57	46	6	6	40	1.54
54832373--54832453	41	2.0	41	87	0	117	29	8	12	49	1.70
54835552--54835577	3	8.7	3	100	0	52	69	0	30	0	0.89
54837362--54837396	17	2.1	17	88	0	52	40	5	2	51	1.40
54842856--54842895	12	3.3	12	82	0	53	25	10	25	40	1.86
54855258--54855300	18	2.4	18	80	7	52	46	2	0	51	1.13
54858506--54858537	13	2.6	13	85	14	50	53	0	15	31	1.43
54865481--54865774	84	3.5	84	87	1	385	32	21	14	30	1.94
54865703--54865864	83	2.0	83	80	4	184	37	20	14	27	1.92
54866275--54866433	82	2.0	81	92	2	266	45	28	1	24	1.61
54866341--54866761	100	4.1	101	80	11	458	43	31	1	23	1.64
54866347--54866660	114	2.9	115	80	12	342	44	30	1	23	1.64
54866668--54866822	81	1.9	81	97	0	292	44	27	0	27	1.59
54866669--54866846	81	2.2	81	91	0	275	43	29	1	25	1.62
54867725--54867757	6	5.5	6	100	0	66	84	0	15	0	0.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54874687--54874753	19	3.2	23	61	30	58	37	8	10	43	1.71
54876459--54876528	27	2.6	27	80	8	79	25	2	21	50	1.63
54877907--54877948	14	3.0	14	82	0	57	42	16	9	30	1.80
54877872--54877938	34	1.9	35	87	3	100	44	13	10	31	1.77
54882390--54882414	8	3.1	8	100	0	50	52	0	0	48	1.00
54884314--54884352	18	2.1	18	85	4	51	58	2	10	28	1.44
54886188--54886286	34	3.2	33	65	21	86	50	13	0	36	1.41
54886179--54886297	60	2.0	60	93	3	204	52	13	0	33	1.40
54888057--54888083	6	4.5	6	100	0	54	44	37	18	0	1.50
54916627--54916660	17	2.0	17	100	0	68	52	17	0	29	1.45
54916737--54916767	16	1.9	16	93	0	53	67	6	16	9	1.39
54918675--54918756	31	2.8	30	71	12	73	25	14	10	48	1.76
54932399--54932442	23	1.9	22	82	17	54	38	0	25	36	1.56
54932430--54932511	38	2.2	38	82	12	98	43	2	20	32	1.65
54934447--54934639	51	3.7	51	82	8	205	22	27	23	25	2.00
54934447--54934639	50	3.7	52	81	11	211	22	27	23	25	2.00
54934744--54934770	13	2.1	13	100	0	54	62	7	0	29	1.22
54934982--54935039	30	1.9	30	89	0	89	31	24	3	41	1.71
54941991--54942239	50	4.8	50	85	4	284	20	29	24	26	1.99
54941990--54942239	100	2.4	104	88	6	357	20	29	24	26	1.99
54942334--54942365	13	2.5	13	94	0	55	56	12	0	31	1.37
54942577--54942634	30	1.9	30	89	0	89	31	24	3	41	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54945966--54946094	43	3.0	42	82	15	174	21	19	29	29	1.98
54946929--54947281	23	15.2	23	69	12	148	27	16	16	39	1.89
54946929--54947145	47	4.7	47	93	3	377	25	17	15	41	1.88
54946935--54947187	47	5.4	47	89	3	280	26	17	16	40	1.90
54947106--54947269	71	2.3	69	80	8	179	28	14	18	39	1.90
54953412--54953450	15	2.5	15	83	8	51	12	0	33	53	1.39
54953537--54953627	34	2.8	32	80	6	110	34	1	15	49	1.52
54957200--54957245	24	1.9	24	95	0	83	15	4	50	30	1.63
54959145--54959184	18	2.2	18	86	0	53	37	20	10	32	1.85
54959183--54959257	37	2.0	37	92	0	123	48	13	2	36	1.57
54959385--54959462	38	2.0	39	90	7	124	17	3	26	51	1.63
54959443--54959467	13	1.9	13	100	0	50	12	0	48	40	1.40
54959444--54959493	18	2.8	19	85	11	70	14	2	42	42	1.56
54959444--54959493	17	2.8	18	88	11	68	14	2	42	42	1.56
54960798--54960860	29	2.2	29	82	0	72	34	12	7	44	1.72
54969135--54969160	9	2.9	9	100	0	52	30	34	0	34	1.58
54973120--54973205	43	2.0	43	100	0	172	23	13	16	46	1.83
54976179--54976218	21	1.9	21	84	0	53	32	10	0	57	1.32
54979613--54979715	53	1.9	53	84	7	138	8	21	13	56	1.64
54979860--54979890	15	2.1	15	93	0	53	90	0	6	3	0.55
54979886--54979911	3	8.7	3	100	0	52	69	0	30	0	0.89
54990097--54990137	7	5.6	7	91	8	64	41	31	0	26	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54994597--54994622	7	3.7	7	100	0	52	46	11	0	42	1.40
55002267--55002434	78	2.2	78	93	0	282	32	13	23	31	1.92
55018359--55018475	11	11.3	10	66	19	53	60	0	3	35	1.13
55018423--55018491	18	3.6	18	70	14	57	59	1	2	36	1.21
55018378--55018490	40	3.0	40	80	13	123	62	0	3	32	1.18
55026828--55027016	7	26.7	7	74	13	75	44	32	0	22	1.57
55026983--55027022	14	2.9	14	88	7	55	47	27	0	25	1.52
55027403--55027554	40	3.8	40	79	3	144	27	25	20	26	1.99
55027373--55027562	40	4.8	40	76	0	137	26	23	22	27	1.99
55027590--55027707	40	3.0	40	76	6	105	31	22	18	27	1.97
55027453--55027696	134	1.8	132	84	5	312	27	24	20	28	1.99
55030010--55030050	7	6.0	7	91	5	66	29	2	14	53	1.54
55033196--55033307	56	2.0	56	94	0	197	44	20	5	29	1.73
55037544--55037585	19	2.2	18	84	16	50	30	2	0	66	1.04
55038091--55038122	7	4.7	7	96	3	57	31	15	37	15	1.89
55042281--55042361	25	3.2	25	74	10	67	27	18	24	29	1.98
55042320--55042387	25	2.7	25	76	17	70	32	20	23	23	1.98
55049762--55049799	19	2.1	19	90	5	60	50	0	5	44	1.24
55049738--55049816	29	2.6	30	86	6	115	55	0	3	40	1.18
55049754--55049809	10	5.5	10	77	14	53	51	0	5	42	1.24
55049783--55049866	41	2.1	40	95	2	150	64	0	2	33	1.07
55050249--55050316	25	2.7	25	83	0	82	29	17	22	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55052550--55052602	27	2.0	27	88	0	79	30	16	16	35	1.92
55053391--55053415	11	2.3	11	100	0	50	32	0	32	36	1.58
55057106--55057253	73	2.0	73	100	0	296	25	13	18	41	1.87
55068640--55068679	18	2.2	18	86	0	53	45	0	22	32	1.53
55075500--55075568	33	2.1	34	94	2	122	44	21	7	26	1.78
55079579--55079773	26	7.8	26	67	18	92	39	23	19	17	1.92
55087602--55087631	15	2.0	15	100	0	60	13	26	13	46	1.80
55090885--55090943	30	2.0	30	87	9	77	30	1	15	52	1.52
55099342--55099375	3	11.3	3	100	0	68	35	32	0	32	1.58
55104107--55104146	21	2.0	20	90	5	62	30	10	5	55	1.54
55106736--55106767	14	2.3	14	100	0	64	6	15	46	31	1.71
55113818--55113864	22	2.1	22	84	7	60	55	19	14	10	1.68
55113896--55113934	21	2.0	21	90	10	64	38	28	10	23	1.87
55114460--55114525	21	3.2	21	61	26	50	39	1	10	48	1.47
55114443--55114527	41	2.1	41	95	2	154	44	1	10	43	1.46
55114443--55114538	41	2.3	41	91	3	140	44	1	11	42	1.47
55119974--55120007	18	2.0	17	88	11	52	35	35	14	14	1.87
55129487--55129525	20	2.0	20	84	0	51	35	2	38	23	1.68
55130118--55130179	29	2.1	29	93	0	106	3	32	1	62	1.20
55135645--55135683	20	2.0	20	84	0	51	35	2	38	23	1.68
55137178--55137253	23	3.3	23	96	0	143	31	26	21	21	1.98
55137340--55137368	8	3.6	8	100	0	58	34	27	13	24	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55137473--55137511	18	2.2	17	86	13	53	46	20	0	33	1.51
55138653--55138687	15	2.2	16	90	5	54	74	2	0	22	0.95
55138686--55138787	30	3.4	30	83	2	125	29	23	3	43	1.72
55139207--55139246	14	2.9	15	82	14	50	55	0	42	2	1.13
55139323--55139394	12	6.2	11	82	17	76	73	0	26	0	0.83
55139332--55139426	12	8.3	11	79	16	79	74	0	24	1	0.88
55139332--55139414	13	6.8	13	76	16	79	74	0	24	1	0.89
55139323--55139409	25	3.6	23	83	10	93	73	0	26	0	0.83
55139326--55139416	23	3.9	23	78	14	98	73	0	25	1	0.90
55139332--55139431	38	2.7	36	82	13	114	75	0	24	1	0.87

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