genome.fa.s1.2.7.7.80.10.50.1000.15.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: CP032244.1 Gossypioides kirkii chromosome KI_01
Parameters: 2 7 7 80 10 50 1000
Length:  38174113

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   

This is table  15  of  126  ( 15035 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)
4948588--4948621	17	2.1	17	89	10	54	0	38	0	61	0.96
4948991--4949020	6	4.8	6	95	4	51	20	0	0	80	0.72
4949077--4949115	19	2.1	19	90	0	60	56	12	7	23	1.62
4949472--4949897	220	1.9	220	95	0	771	31	15	19	34	1.93
4950688--4950747	29	2.1	29	87	0	84	36	0	6	56	1.26
4951202--4951234	15	2.3	15	89	5	50	39	3	0	57	1.14
4953992--4954031	15	2.5	16	84	8	55	35	2	0	62	1.09
4955120--4955163	21	2.1	21	83	8	54	34	9	2	54	1.44
4955210--4955240	16	1.9	16	93	0	53	58	6	0	35	1.24
4955731--4955755	2	12.5	2	100	0	50	52	0	0	48	1.00
4959613--4959677	27	2.4	28	75	12	64	53	1	1	43	1.19
4961189--4961264	22	3.4	21	85	7	98	36	27	23	11	1.90
4968009--4968047	17	2.3	17	86	0	51	48	25	10	15	1.76
4975244--4975278	3	11.7	3	100	0	70	31	0	0	68	0.90
4975779--4975840	26	2.3	28	74	20	69	48	3	0	48	1.17
4984560--4984625	30	2.2	31	81	13	75	50	12	3	34	1.55
4984998--4985068	31	2.3	31	85	4	90	53	5	0	40	1.24
4985051--4985096	15	2.9	16	84	12	60	58	0	0	41	0.98
4985018--4985086	31	2.2	31	84	5	84	57	1	0	40	1.07
4991984--4992010	14	1.9	14	100	0	54	40	0	0	59	0.98
5013058--5013117	25	2.7	21	80	14	66	63	3	1	31	1.20
5013255--5013300	11	4.2	11	82	0	56	67	6	4	21	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5023236--5023370	70	1.9	70	90	3	218	34	10	26	28	1.89
5023614--5023716	10	11.4	9	67	18	54	61	0	4	33	1.24
5034487--5034547	21	3.0	20	72	13	52	70	1	1	26	1.06
5034496--5034547	20	2.5	20	78	3	59	71	0	1	26	0.97
5034520--5034567	17	2.7	19	84	12	66	72	2	2	22	1.05
5054892--5054944	22	2.4	22	100	0	106	24	20	18	35	1.95
5054990--5055035	23	2.0	23	83	8	58	39	8	15	36	1.78
5059276--5059309	3	11.7	3	87	6	52	61	0	35	2	1.11
5061038--5061271	52	4.5	52	93	0	387	37	26	13	23	1.91
5074652--5074683	15	2.1	16	94	5	57	46	0	0	53	1.00
5079589--5079627	16	2.4	16	84	12	53	20	0	10	69	1.17
5089764--5089804	20	2.0	20	90	0	64	48	0	0	51	1.00
5089748--5089806	26	2.2	27	81	3	75	49	0	0	50	1.00
5091807--5091845	19	2.1	19	85	9	53	28	0	0	71	0.86
5093317--5093353	20	2.0	20	89	10	60	5	0	35	59	1.20
5094993--5095033	17	2.4	18	76	12	50	56	7	17	19	1.64
5100014--5100043	4	7.5	4	100	0	60	76	0	0	23	0.78
5107757--5107782	10	2.6	10	100	0	52	26	0	0	73	0.84
5108819--5108860	19	2.2	20	82	4	50	35	0	0	64	0.94
5120210--5120289	39	2.1	39	90	0	124	33	12	35	18	1.89
5122386--5122446	26	2.3	26	80	5	70	42	0	3	54	1.17
5122590--5122657	21	3.2	20	76	17	66	32	1	20	45	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5122793--5122857	6	10.5	6	75	18	53	64	12	1	21	1.35
5125187--5125357	60	2.8	59	80	15	215	44	0	4	51	1.20
5125661--5125686	11	2.4	11	100	0	52	11	42	0	46	1.40
5127501--5127566	33	2.0	34	87	3	98	34	1	3	60	1.21
5129167--5129206	19	2.1	19	86	9	55	57	5	2	35	1.34
5129575--5129703	56	2.3	58	83	5	174	41	2	3	52	1.29
5129590--5129672	17	4.6	18	75	16	64	42	2	2	53	1.27
5135934--5135984	17	3.2	16	78	10	59	52	0	1	45	1.12
5136451--5136583	49	2.7	50	84	3	162	28	16	24	30	1.96
5136470--5136609	49	2.9	50	84	4	169	25	17	27	29	1.97
5138537--5138639	23	4.5	23	77	17	99	42	22	23	11	1.86
5138537--5138659	23	5.3	23	77	14	85	42	21	23	12	1.87
5143639--5143684	18	2.5	20	83	16	64	52	0	0	47	1.00
5162522--5162633	26	4.2	27	71	12	88	50	15	8	26	1.71
5172225--5172249	11	2.3	11	100	0	50	56	0	0	44	0.99
5174756--5174794	7	5.6	7	82	11	53	35	12	17	33	1.88
5174755--5174801	14	3.4	14	77	11	51	34	10	21	34	1.88
5174995--5175075	38	2.1	38	90	0	126	24	4	11	59	1.51
5179858--5179909	18	3.1	17	72	16	54	44	11	30	13	1.79
5179858--5179921	15	4.1	15	75	11	56	46	10	31	10	1.74
5179887--5179935	21	2.3	21	85	0	62	51	10	32	6	1.61
5181467--5181521	28	2.0	28	96	0	101	27	12	29	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5185185--5185211	2	13.5	2	100	0	54	48	0	0	51	1.00
5189275--5189308	15	2.1	17	89	10	54	35	0	0	64	0.94
5189682--5189715	7	5.0	7	96	3	61	73	0	11	14	1.10
5207280--5207309	6	5.0	6	100	0	60	33	66	0	0	0.92
5209450--5209496	20	2.2	21	81	11	60	31	23	4	40	1.74
5227466--5227506	12	3.3	13	90	10	68	29	0	0	70	0.87
5234918--5234958	3	13.7	3	100	0	82	65	0	0	34	0.93
5237527--5237551	12	2.1	12	100	0	50	44	8	8	40	1.63
5238077--5238138	32	1.9	33	83	9	83	51	3	6	38	1.44
5245388--5245412	11	2.3	11	100	0	50	76	0	0	24	0.80
5261330--5261372	19	2.2	20	84	12	54	62	6	0	30	1.21
5268051--5268197	33	4.6	33	82	8	178	18	21	30	29	1.97
5268060--5268151	29	3.0	29	85	6	112	19	23	29	27	1.98
5269538--5269576	20	2.0	20	85	10	53	7	10	7	74	1.22
5273724--5273767	21	2.1	21	95	0	79	34	13	0	52	1.41
5275310--5275361	15	3.5	15	70	15	54	55	1	15	26	1.50
5276206--5276234	14	2.0	15	93	6	51	75	3	13	6	1.13
5278457--5278512	21	2.8	19	73	21	51	33	19	7	39	1.79
5286777--5286839	18	3.5	18	77	12	67	23	7	14	53	1.66
5286760--5286839	36	2.2	36	84	6	101	26	7	15	51	1.69
5290545--5290604	27	2.2	27	96	0	111	31	20	3	45	1.67
5292875--5292908	18	1.9	18	88	5	52	29	0	5	64	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5292992--5293068	25	3.1	24	76	12	77	62	1	0	36	1.04
5309835--5309894	16	3.7	16	70	18	52	45	0	0	55	0.99
5309844--5309883	18	2.2	18	86	8	55	45	0	0	55	0.99
5317046--5317071	2	13.0	2	100	0	52	50	0	0	50	1.00
5319760--5319817	21	2.8	21	75	12	57	22	6	31	39	1.80
5323359--5323410	16	3.2	16	73	10	52	17	28	0	53	1.44
5325194--5325256	29	2.2	28	83	13	76	28	15	7	47	1.74
5327039--5327081	18	2.4	18	88	7	61	46	0	0	53	1.00
5332590--5332713	60	2.1	60	86	3	169	28	16	16	39	1.89
5334183--5334501	62	5.2	61	82	5	301	26	15	16	40	1.90
5334187--5334508	124	2.6	120	78	10	355	27	17	16	39	1.90
5337429--5337978	60	9.1	61	82	6	531	37	14	16	31	1.89
5338598--5338654	8	6.6	8	79	20	62	26	0	0	73	0.83
5338722--5338760	18	2.2	18	86	9	53	48	0	0	51	1.00
5341127--5341157	12	2.6	12	94	0	53	12	12	19	54	1.70
5341243--5341330	23	3.8	23	81	4	97	28	13	19	38	1.90
5341296--5341341	23	2.0	23	83	8	58	39	10	17	32	1.84
5346596--5346623	14	2.0	14	100	0	56	21	21	28	28	1.99
5348568--5348595	10	2.8	10	100	0	56	71	0	0	28	0.86
5349789--5349817	13	2.1	14	93	6	51	41	0	0	58	0.98
5349803--5349836	16	2.1	17	88	5	52	52	0	0	47	1.00
5350835--5350876	18	2.4	17	80	11	50	26	2	9	61	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5351215--5351272	31	1.9	30	86	6	82	29	3	17	50	1.62
5363269--5363312	23	1.9	23	85	0	61	40	11	9	38	1.73
5389726--5389773	21	2.4	21	82	6	64	31	8	20	39	1.82
5392527--5392620	6	16.0	6	70	12	61	53	4	1	41	1.27
5392530--5392640	18	6.3	17	75	10	80	53	5	1	39	1.35
5392527--5392627	53	1.9	52	85	2	139	52	4	0	41	1.30
5393079--5393222	39	3.7	39	76	7	157	25	20	31	22	1.98
5393071--5393264	78	2.5	79	83	2	266	25	19	31	23	1.98
5393499--5393774	49	5.6	48	72	14	190	20	24	17	37	1.94
5393765--5393984	49	4.5	49	70	7	131	17	27	17	37	1.92

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