genome.fa.s3.2.7.7.80.10.50.1000.10.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: CP032247.1 Gossypioides kirkii chromosome KI_05
Parameters: 2 7 7 80 10 50 1000
Length:  50980411

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   

This is table  10  of  171  ( 20472 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)
4622996--4623081	34	2.6	33	78	9	77	45	3	1	50	1.26
4628393--4628510	62	1.9	62	89	0	182	32	11	24	31	1.91
4634416--4634442	2	13.5	2	100	0	54	51	0	0	48	1.00
4641603--4641652	24	2.1	23	85	3	64	56	0	2	42	1.11
4648502--4648538	19	1.9	19	88	0	56	54	5	0	40	1.24
4651390--4651449	23	2.7	22	71	5	57	46	3	1	48	1.28
4652978--4653054	27	2.7	27	82	13	75	27	6	5	61	1.42
4653317--4653356	20	2.0	20	100	0	80	50	5	20	25	1.68
4656547--4656592	23	2.0	23	86	0	65	32	13	19	34	1.90
4656810--4656986	58	3.1	58	90	4	279	46	17	0	35	1.48
4657279--4657392	53	2.1	56	85	4	153	21	6	8	64	1.44
4658285--4658354	29	2.4	29	73	7	70	52	4	8	34	1.51
4658788--4658832	19	2.4	19	85	7	65	37	0	0	62	0.96
4659765--4659806	10	4.3	10	81	6	50	45	4	0	50	1.23
4659893--4659933	13	3.1	13	89	6	64	53	12	0	34	1.38
4659894--4659933	7	5.9	7	91	5	64	55	12	0	32	1.38
4661455--4661493	18	2.2	19	86	9	55	56	0	23	20	1.42
4663634--4663691	3	19.7	3	86	10	84	29	0	1	68	0.99
4664112--4664183	30	2.4	30	97	0	135	37	11	5	45	1.63
4672703--4672828	23	5.6	22	91	4	173	13	20	27	38	1.90
4672703--4672828	45	2.8	44	89	6	173	13	20	27	38	1.90
4674173--4674247	31	2.6	27	71	18	62	34	6	6	52	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4676331--4676424	23	4.0	23	77	10	109	12	22	22	42	1.87
4677344--4677383	18	2.1	20	86	9	57	35	0	2	62	1.09
4677605--4677696	28	3.2	28	71	14	89	59	3	7	29	1.41
4692891--4692998	52	2.1	52	98	0	207	29	11	18	40	1.85
4698534--4698611	18	4.3	19	77	21	71	35	2	0	61	1.10
4700405--4700444	17	2.4	17	87	8	55	47	0	0	52	1.00
4701082--4701112	2	16.0	2	93	6	55	48	0	0	51	1.00
4705039--4705282	75	3.4	72	80	10	209	34	9	11	44	1.73
4705073--4705298	75	3.0	75	85	5	300	34	8	11	45	1.71
4705083--4705305	72	3.1	71	83	6	268	34	8	11	46	1.70
4707958--4708040	42	2.0	42	100	0	166	36	18	26	19	1.94
4717226--4717264	15	2.4	16	87	8	53	35	2	0	61	1.10
4728109--4728141	10	3.4	10	83	8	50	33	0	0	66	0.92
4730073--4730122	19	2.5	20	81	9	59	62	4	4	30	1.32
4730379--4730414	17	2.1	17	90	10	56	66	2	0	30	1.06
4731007--4731039	17	1.9	17	93	0	57	45	0	3	51	1.16
4733236--4733316	42	1.9	42	82	5	101	24	9	4	60	1.48
4751730--4751775	16	2.7	17	83	10	58	45	8	2	43	1.47
4752264--4752303	20	2.0	20	85	4	55	45	0	7	47	1.31
4754579--4754634	29	2.0	28	89	3	85	42	0	0	57	0.99
4754579--4754639	28	2.2	29	85	5	81	45	0	0	54	1.00
4758348--4758372	13	1.9	13	100	0	50	12	0	0	88	0.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4760330--4760451	23	5.2	24	88	7	128	10	22	22	43	1.84
4760330--4760451	46	2.6	47	85	5	158	10	22	22	43	1.84
4760354--4760503	69	2.1	69	81	11	173	12	22	21	44	1.84
4761645--4761722	23	3.3	23	81	3	93	46	23	19	11	1.82
4763677--4763713	2	18.5	2	88	0	56	45	0	2	51	1.15
4765196--4765257	31	2.0	31	100	0	124	32	16	12	38	1.86
4766943--4767014	36	2.0	36	100	0	144	36	16	11	36	1.84
4790343--4790385	5	8.6	5	92	0	59	2	0	25	72	0.97
4803749--4803870	57	2.1	57	87	3	174	43	20	7	28	1.79
4803766--4803879	57	2.0	57	96	0	210	42	18	7	31	1.79
4805355--4805431	24	3.4	21	68	21	57	31	46	5	16	1.69
4804769--4805574	48	16.8	48	77	9	668	26	50	2	20	1.62
4804734--4805517	96	8.2	96	89	3	1094	26	49	2	20	1.62
4815654--4815728	30	2.5	30	82	6	80	42	1	2	53	1.23
4815729--4815759	8	3.8	8	91	8	53	51	0	0	48	1.00
4819423--4819479	30	1.9	30	82	13	73	68	3	3	24	1.21
4822362--4822741	60	6.5	59	77	10	264	38	17	16	26	1.92
4822371--4822687	60	5.3	61	78	11	275	40	17	16	25	1.90
4822900--4822958	29	2.0	29	86	0	82	33	1	3	61	1.23
4823255--4823282	7	4.0	7	100	0	56	0	57	0	42	0.99
4823556--4823641	30	2.8	30	79	8	102	52	4	1	41	1.30
4823627--4823853	115	2.0	115	100	0	454	28	18	15	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4841032--4841081	25	2.1	23	85	10	66	54	4	0	42	1.19
4843481--4843507	9	3.0	9	100	0	54	22	0	0	77	0.76
4843684--4843766	42	2.0	42	97	0	157	31	16	15	36	1.91
4847920--4847944	3	8.3	3	100	0	50	36	0	32	32	1.58
4857037--4857082	23	2.0	24	82	4	58	39	10	17	32	1.84
4857150--4857187	16	2.4	16	82	4	51	68	2	0	28	1.03
4857943--4858022	31	2.6	30	86	7	108	53	6	3	36	1.44
4871187--4871488	151	2.0	151	100	0	604	37	20	15	26	1.92
4874839--4874868	2	15.0	2	100	0	60	50	0	0	50	1.00
4889439--4889476	4	9.5	4	100	0	76	23	0	26	50	1.50
4899529--4899680	63	2.4	62	81	12	177	23	15	10	50	1.75
4904958--4904997	18	2.4	17	87	8	55	55	0	0	45	0.99
4904958--4904992	15	2.2	16	90	5	54	60	0	0	40	0.97
4915009--4915062	27	2.0	27	85	7	74	38	18	5	37	1.74
4917608--4917642	6	5.8	6	96	0	52	17	37	34	11	1.85
4918988--4919063	30	2.5	30	91	0	116	21	32	13	32	1.91
4932511--4932552	19	2.2	19	83	8	50	21	11	7	59	1.56
4947938--4947962	6	4.2	6	100	0	50	0	32	16	52	1.44
4960331--4960378	24	2.0	24	88	8	71	45	0	8	45	1.33
4960340--4960388	24	2.0	24	84	0	62	53	2	6	38	1.38
4971427--4971451	13	1.9	13	100	0	50	24	0	0	76	0.80
4974977--4975052	31	2.5	31	89	4	109	40	2	6	50	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4975006--4975077	31	2.3	31	83	4	83	43	1	5	50	1.34
4976143--4976187	22	2.0	22	100	0	90	31	15	17	35	1.92
4978028--4978062	3	11.7	3	100	0	70	65	0	34	0	0.93
4998921--4998991	25	2.9	25	80	2	72	35	8	0	56	1.30
5001695--5001721	2	13.5	2	100	0	54	48	0	0	51	1.00
5006820--5006844	12	2.1	12	100	0	50	40	12	8	40	1.72
5013460--5013501	13	2.9	14	80	13	50	50	2	2	45	1.27
5013509--5013565	15	3.6	15	77	13	69	52	1	0	45	1.11
5013647--5013829	94	1.9	95	91	3	298	26	15	10	46	1.78
5019901--5019985	42	2.0	42	95	0	152	50	12	20	16	1.77
5024525--5024600	36	2.1	36	100	0	152	39	10	25	25	1.87
5025952--5025998	26	1.9	25	83	12	62	44	4	4	46	1.42
5031893--5031932	2	20.0	2	100	0	80	50	0	0	50	1.00
5033290--5033324	18	2.0	17	94	5	61	57	0	0	42	0.99
5033652--5033695	14	2.8	16	80	16	56	47	0	0	52	1.00
5045346--5045509	80	2.0	80	92	0	274	42	4	25	28	1.74
5050194--5050237	19	2.3	19	84	0	61	68	0	4	27	1.09
5050503--5050555	23	2.3	23	83	6	63	18	1	3	75	1.05
5050507--5050556	21	2.3	21	83	16	59	20	2	4	74	1.08
5050605--5050695	46	2.0	46	91	2	148	28	5	1	64	1.22
5051620--5051651	11	2.8	12	86	13	50	37	0	0	62	0.95
5070388--5070430	16	2.7	16	82	10	52	37	0	2	60	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5070718--5070754	3	12.3	3	100	0	74	32	0	0	67	0.91
5073421--5073470	18	2.7	18	81	3	55	70	2	6	22	1.20
5084177--5084207	6	5.2	6	100	0	62	0	32	19	48	1.49
5085170--5085203	15	2.2	16	89	5	52	29	8	20	41	1.82
5095418--5095459	22	1.9	23	85	9	61	61	0	16	21	1.34
5097408--5097465	29	2.0	29	100	0	116	17	17	17	48	1.82
5100722--5100802	41	2.0	41	97	0	153	34	19	16	29	1.94
5103085--5103315	117	2.0	117	95	0	417	32	8	22	36	1.85
5107270--5107541	134	2.0	134	96	0	499	32	13	17	36	1.89
5108352--5108377	13	2.0	13	100	0	52	15	15	7	61	1.55

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