genome.fa.s20.2.7.7.80.10.50.1000.14.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_D07
Parameters: 2 7 7 80 10 50 1000
Length:  56457815

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   

This is table  14  of  189  ( 22580 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)
4556573--4556619	21	2.2	22	88	11	71	44	6	19	29	1.75
4560656--4560680	7	3.6	7	100	0	50	88	0	0	12	0.53
4560954--4560984	16	1.9	16	100	0	62	51	9	12	25	1.70
4561639--4561691	13	4.1	13	78	7	54	43	5	1	49	1.37
4564253--4564307	23	2.4	24	78	9	69	47	14	1	36	1.55
4568404--4568428	13	1.9	13	100	0	50	76	0	8	16	1.02
4568481--4568517	17	2.2	17	86	13	51	56	0	2	40	1.13
4568790--4568874	19	4.5	19	72	15	61	29	3	2	64	1.22
4568726--4568823	46	2.1	48	84	7	130	31	6	3	59	1.37
4568779--4568861	29	2.9	28	83	5	94	30	3	2	63	1.24
4568773--4568878	29	3.7	29	74	10	87	29	3	1	65	1.21
4568864--4568896	18	1.9	17	88	11	50	36	0	3	60	1.12
4568952--4569174	93	2.5	87	80	9	288	30	9	21	38	1.86
4574115--4574180	28	2.4	27	81	16	75	51	0	1	46	1.10
4588611--4588640	14	2.1	15	93	6	53	60	0	0	40	0.97
4588604--4588641	13	2.8	13	82	17	51	52	0	0	47	1.00
4588734--4588780	23	2.0	23	88	8	69	48	0	6	44	1.28
4594806--4594847	13	3.1	13	83	16	50	52	4	0	42	1.22
4608908--4609184	138	2.0	138	100	0	554	26	19	16	37	1.93
4610365--4610400	17	2.1	18	89	5	56	36	0	2	61	1.11
4615267--4616013	373	2.0	377	85	7	1018	43	16	11	28	1.82
4615990--4616150	84	1.9	84	86	5	227	47	12	11	29	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4621665--4621747	36	2.3	36	91	0	130	20	24	32	22	1.98
4622425--4622536	36	3.2	36	72	7	104	17	25	19	37	1.94
4639811--4639891	25	3.2	24	76	10	81	16	24	23	35	1.94
4639818--4639891	26	2.9	25	79	4	76	17	24	22	35	1.95
4640896--4640999	3	33.7	3	83	9	120	1	25	1	70	1.08
4642111--4642146	18	2.0	18	100	0	72	38	5	0	55	1.23
4644971--4645031	17	3.4	17	70	12	59	31	3	14	50	1.59
4644966--4645040	37	2.0	37	100	0	150	33	5	16	45	1.69
4645039--4645069	9	3.4	9	95	0	53	25	9	22	41	1.84
4646640--4646675	18	2.0	18	100	0	72	44	0	16	38	1.48
4655179--4655245	23	3.0	23	69	20	61	14	13	10	61	1.57
4655711--4655753	19	2.3	19	80	8	52	30	6	2	60	1.35
4657429--4657485	30	1.9	30	85	7	80	50	8	5	35	1.56
4661477--4661661	42	4.3	43	80	2	185	30	30	16	22	1.96
4661477--4661661	85	2.2	85	82	3	221	30	30	16	22	1.96
4664155--4664214	30	2.0	30	100	0	120	26	23	10	40	1.86
4665955--4666013	22	2.6	22	81	2	64	28	3	40	27	1.72
4666997--4667030	15	2.3	15	95	5	61	35	26	0	38	1.57
4667623--4667648	12	2.2	12	100	0	52	46	30	15	7	1.74
4676285--4676335	9	5.7	9	95	0	84	23	9	27	39	1.86
4676496--4676520	12	2.1	12	100	0	50	16	24	36	24	1.94
4684931--4684956	3	8.7	3	100	0	52	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)
4685651--4685720	31	2.3	31	89	0	113	32	22	10	34	1.88
4685919--4685983	30	2.2	30	80	2	78	61	3	3	32	1.27
4685920--4685999	40	2.0	40	83	9	101	57	2	5	35	1.34
4685927--4685985	29	2.0	29	83	6	75	59	3	3	33	1.31
4686084--4686140	25	2.2	25	84	15	71	64	7	3	24	1.34
4686742--4686789	20	2.5	19	83	9	62	37	0	2	60	1.09
4686742--4686846	41	2.5	42	82	14	110	40	1	2	55	1.26
4687883--4687931	18	3.0	16	82	8	55	38	0	0	61	0.96
4702073--4702422	188	1.9	188	85	1	486	40	19	17	22	1.91
4703014--4703046	16	2.1	16	100	0	66	24	33	18	24	1.97
4709289--4709321	16	2.1	16	100	0	66	24	33	18	24	1.97
4722968--4723018	25	2.0	25	84	3	66	41	9	3	45	1.56
4731246--4731305	4	15.0	4	100	0	120	25	0	25	50	1.50
4733390--4733427	15	2.5	15	100	0	76	13	26	5	55	1.59
4734059--4734100	11	3.8	11	80	0	57	61	9	7	21	1.50
4734057--4734100	22	2.0	22	90	0	70	63	9	6	20	1.46
4743611--4743649	18	2.2	18	95	0	69	20	20	17	41	1.91
4744061--4744086	13	2.0	13	100	0	52	23	23	15	38	1.92
4749866--4750054	63	3.0	63	93	1	308	18	22	15	43	1.87
4765985--4766026	21	2.0	21	100	0	84	42	19	0	38	1.51
4771818--4771857	20	2.0	20	90	0	62	27	10	12	50	1.72
4771804--4771869	35	1.9	34	90	6	107	31	7	13	46	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4773115--4773155	20	2.2	19	86	8	57	58	2	4	34	1.32
4773257--4773303	24	2.0	24	95	0	85	42	0	10	46	1.38
4775155--4775181	7	3.9	7	100	0	54	14	0	0	85	0.61
4780374--4780415	18	2.3	18	84	8	50	57	2	2	38	1.25
4781107--4781364	125	2.1	125	87	0	363	30	15	23	30	1.96
4781992--4782090	14	6.9	14	70	17	69	54	0	3	42	1.15
4781992--4782084	13	6.5	14	71	20	68	56	0	2	40	1.11
4782006--4782076	23	3.2	22	66	18	58	57	0	1	40	1.07
4781990--4782090	43	2.3	43	94	0	175	54	0	2	42	1.15
4782689--4782738	25	2.0	25	88	0	73	36	18	12	34	1.87
4782792--4782826	15	2.2	16	90	5	54	45	0	2	51	1.16
4785710--4785772	30	2.2	29	75	8	67	55	3	0	41	1.16
4785810--4785840	16	1.9	16	93	0	53	25	22	6	45	1.76
4791600--4791654	21	2.6	21	85	0	74	32	38	5	23	1.78
4791942--4791992	24	2.1	24	88	0	75	62	1	0	35	1.06
4797335--4797367	14	2.3	15	89	5	50	42	0	0	57	0.98
4802296--4802339	22	2.0	22	100	0	88	36	22	9	31	1.86
4808280--4808545	103	2.6	104	90	3	419	19	20	29	29	1.97
4814627--4814662	16	2.2	16	95	0	63	27	0	33	38	1.57
4814898--4814932	18	2.0	17	88	5	52	54	0	0	45	0.99
4814857--4815103	79	3.1	79	67	14	229	46	3	3	46	1.35
4814785--4815101	157	2.0	157	96	0	589	43	3	5	47	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4815035--4815076	15	2.7	16	82	14	52	52	2	0	45	1.13
4815044--4815085	15	2.9	15	82	10	52	52	0	0	47	1.00
4815038--4815569	120	4.4	120	99	0	1048	49	5	2	42	1.39
4815154--4815205	15	3.6	15	80	12	56	53	1	0	44	1.11
4815274--4815325	15	3.6	15	80	12	56	53	1	0	44	1.11
4815394--4815445	15	3.6	15	80	12	56	53	1	0	44	1.11
4815535--4815568	17	2.0	17	88	11	52	52	0	2	44	1.16
4815585--4815792	91	2.3	91	88	4	285	46	3	3	45	1.39
4821878--4821905	11	2.5	11	100	0	56	42	10	39	7	1.67
4835164--4835217	25	2.2	24	83	9	65	61	3	3	31	1.31
4838527--4838620	31	3.1	31	79	13	113	27	9	19	43	1.82
4838538--4838620	31	2.7	30	87	3	121	28	10	19	40	1.85
4838735--4838905	43	4.0	43	91	0	279	25	15	25	33	1.95
4840842--4841090	50	4.8	50	84	4	275	20	29	24	26	1.99
4840841--4841090	100	2.4	104	87	6	348	20	29	24	26	1.99
4841185--4841216	13	2.5	13	94	0	55	56	12	0	31	1.37
4841428--4841485	30	1.9	30	89	0	89	31	24	3	41	1.71
4856483--4856550	4	16.8	4	72	17	52	70	4	23	1	1.13
4856481--4856550	33	2.1	34	86	2	97	71	4	22	1	1.12
4858715--4858764	15	3.2	15	76	20	57	36	0	14	50	1.43
4858922--4858998	37	2.1	38	82	7	95	24	14	24	36	1.93
4868632--4868836	85	2.4	85	83	8	231	26	29	18	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4868632--4868838	43	4.9	43	75	11	194	26	28	18	26	1.98
4868717--4868857	43	3.3	43	80	4	117	29	28	18	23	1.98
4876035--4876221	92	2.0	92	93	0	320	44	20	8	26	1.80
4876814--4876844	14	2.2	14	94	0	53	48	12	0	38	1.42
4879506--4879577	6	11.7	6	78	10	65	75	5	4	15	1.15
4880168--4880198	15	2.0	16	93	6	55	41	0	51	6	1.27
4883954--4883984	14	2.2	14	94	0	53	48	12	0	38	1.42
4891327--4891357	16	1.9	16	93	0	53	9	41	3	45	1.53
4898977--4899031	24	2.2	26	81	12	71	45	0	1	52	1.11
4899169--4899263	45	2.1	45	88	1	138	32	27	5	34	1.79

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