genome.fa.s7.2.7.7.80.10.50.1000.20.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: CP032251.1 Gossypioides kirkii chromosome KI_09
Parameters: 2 7 7 80 10 50 1000
Length:  38743931

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   

This is table  20  of  144  ( 17169 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)
4973539--4973611	23	3.2	23	84	3	85	9	26	23	41	1.85
4993482--4993545	23	2.8	24	81	9	80	39	20	12	28	1.89
5000917--5001309	196	2.0	196	100	0	786	30	20	12	37	1.90
5003788--5003953	23	7.4	23	74	14	150	42	22	24	11	1.86
5003794--5003868	39	1.9	39	91	0	123	44	21	22	12	1.85
5003833--5003953	48	2.6	46	87	7	172	39	23	25	11	1.88
5010771--5010844	36	2.1	36	87	5	105	29	12	9	48	1.72
5012024--5012059	17	2.1	17	89	5	54	63	0	0	36	0.94
5017192--5017339	23	6.3	23	81	9	183	12	21	24	41	1.88
5021864--5021931	23	3.0	21	77	16	64	70	5	4	19	1.25
5023270--5023355	6	14.5	6	75	16	54	24	2	1	72	1.04
5023282--5023356	3	25.0	3	74	15	66	25	2	1	70	1.08
5023314--5023362	24	2.0	25	88	4	73	30	6	2	61	1.32
5023270--5023352	28	3.1	27	78	11	82	24	2	1	72	1.04
5024923--5024976	21	2.4	23	84	6	67	37	25	11	25	1.89
5025565--5025622	26	2.2	26	81	6	73	27	20	22	29	1.99
5037229--5037282	14	3.9	14	85	0	72	50	1	3	44	1.30
5037232--5037284	7	7.6	7	75	8	54	49	1	3	45	1.31
5037257--5037298	19	2.2	20	82	4	50	47	2	7	42	1.43
5041832--5042136	146	2.1	146	86	3	418	36	7	24	30	1.84
5041959--5042019	28	2.1	29	79	11	72	26	9	27	36	1.88
5041832--5042156	147	2.2	146	85	3	422	36	8	24	30	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5042087--5042233	58	2.5	58	84	4	172	34	5	26	34	1.79
5042141--5042274	58	2.3	58	89	2	196	35	4	24	35	1.76
5042141--5042278	30	4.7	30	82	4	174	34	4	24	36	1.76
5043421--5043462	17	2.5	17	81	11	50	33	2	0	64	1.07
5044217--5044345	6	22.8	6	71	17	98	53	2	1	42	1.23
5044247--5044335	17	5.3	16	81	12	99	53	2	1	42	1.20
5044231--5044348	11	10.5	11	77	8	89	52	1	1	44	1.21
5044245--5044360	17	7.3	16	75	15	73	53	2	1	42	1.25
5044282--5044345	27	2.3	27	84	7	58	57	1	0	40	1.08
5044871--5045004	39	3.4	39	75	4	144	27	19	31	21	1.97
5044822--5045047	78	2.9	77	87	1	299	26	18	30	23	1.98
5045144--5045827	92	7.5	92	93	1	1099	32	18	15	34	1.92
5045951--5046101	49	3.1	48	69	14	146	15	23	21	39	1.92
5045972--5046130	49	3.2	49	67	13	128	16	25	18	38	1.92
5045922--5046180	98	2.6	98	89	1	376	15	24	20	39	1.91
5045994--5046167	50	3.5	49	69	13	133	14	25	21	37	1.92
5046058--5046417	151	2.4	150	86	2	472	14	24	21	40	1.90
5053555--5053816	29	8.9	30	79	6	261	34	4	27	34	1.76
5053555--5053817	59	4.5	59	79	5	248	34	4	26	34	1.76
5053555--5053817	88	3.0	86	78	8	235	34	4	26	34	1.76
5061176--5061232	21	2.8	20	79	15	62	3	28	0	68	1.06
5079277--5079345	35	2.0	35	91	0	111	28	13	13	44	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5080237--5080262	11	2.4	11	100	0	52	7	23	7	61	1.49
5094908--5094942	9	3.9	9	96	0	61	51	0	0	48	1.00
5111638--5111675	10	3.7	10	83	16	51	13	0	2	84	0.73
5112600--5112641	17	2.5	17	88	3	59	76	0	0	23	0.79
5112600--5112648	17	2.9	17	84	3	55	73	4	0	22	1.00
5116307--5116443	31	4.5	30	74	16	122	27	17	8	45	1.78
5116319--5116495	90	2.0	88	81	6	205	25	17	10	45	1.81
5116709--5116805	28	3.4	28	66	23	74	43	12	19	24	1.86
5116665--5116835	59	2.9	59	87	3	254	47	12	18	21	1.82
5117484--5117757	37	7.4	37	78	3	226	34	27	21	16	1.95
5117499--5117674	38	4.7	38	82	1	230	32	30	22	14	1.93
5117494--5117695	75	2.7	74	82	6	246	32	28	23	15	1.95
5120025--5120109	40	2.1	40	82	8	102	38	18	31	10	1.85
5120042--5120163	20	6.1	20	67	0	64	38	20	30	10	1.87
5123170--5123220	25	2.0	25	84	0	66	49	7	0	43	1.32
5124560--5124592	12	2.8	12	95	0	57	9	9	0	81	0.87
5125025--5125049	12	2.1	12	100	0	50	40	8	16	36	1.77
5129588--5129638	24	2.3	23	80	10	61	47	0	41	11	1.40
5134573--5134611	9	4.4	9	96	3	71	79	0	0	20	0.73
5134784--5134817	14	2.3	15	90	5	52	29	0	0	70	0.87
5135291--5135371	28	2.8	29	71	14	78	59	6	4	29	1.43
5135756--5135793	16	2.4	16	95	0	67	18	42	7	31	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5139479--5139515	15	2.5	15	100	0	74	40	24	21	13	1.89
5142660--5142709	19	2.8	18	72	22	52	56	0	2	42	1.11
5143243--5143283	21	2.0	21	85	9	57	51	0	2	46	1.14
5168580--5168610	10	2.9	11	90	9	55	64	0	9	25	1.24
5169084--5169211	23	5.4	25	86	3	160	12	20	21	45	1.84
5169066--5169211	46	3.1	47	82	7	154	12	21	21	44	1.85
5169084--5169261	69	2.5	69	82	10	193	12	20	20	45	1.84
5182263--5182421	78	2.0	78	84	4	205	37	13	20	27	1.91
5194320--5194399	29	2.7	29	84	9	99	28	5	12	53	1.59
5196429--5196507	20	4.0	20	77	6	70	41	6	7	44	1.58
5203781--5203818	19	2.0	19	89	0	58	28	0	7	63	1.23
5203814--5203842	11	2.5	12	88	11	51	37	0	6	55	1.27
5204623--5204673	26	2.0	26	96	0	93	31	27	0	41	1.56
5205959--5206010	24	2.2	24	89	0	77	38	3	3	53	1.37
5207927--5207978	24	2.2	24	89	0	77	40	1	1	55	1.22
5210647--5210698	23	2.2	24	83	10	63	61	23	0	15	1.33
5214476--5214531	28	2.0	27	82	3	67	30	12	3	53	1.55
5214540--5214592	27	2.0	26	81	3	61	26	18	5	49	1.70
5214458--5214630	59	2.9	58	81	7	199	26	14	7	51	1.69
5214852--5214930	31	2.5	31	83	4	88	48	8	15	27	1.74
5216313--5216493	96	1.9	96	81	4	222	38	12	18	30	1.88
5216857--5216950	29	3.3	29	71	14	86	28	7	26	37	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5216873--5217130	30	8.8	28	76	11	141	33	2	27	36	1.71
5216926--5217130	30	6.9	29	78	8	155	34	1	26	37	1.68
5216847--5217130	59	4.8	58	82	7	276	33	4	26	35	1.76
5218162--5218195	18	1.9	17	94	5	59	44	0	0	55	0.99
5218864--5218905	14	3.1	14	80	6	52	47	0	0	52	1.00
5220180--5220220	21	2.0	21	85	0	55	43	31	0	24	1.54
5221531--5221574	6	7.0	6	82	10	52	15	2	36	45	1.59
5221538--5221576	18	2.0	20	90	9	64	12	0	41	46	1.42
5222688--5222734	23	2.0	23	95	0	85	17	17	25	40	1.90
5223200--5223247	20	2.6	18	90	6	69	37	4	0	58	1.18
5223200--5223269	16	4.0	17	79	17	63	41	2	1	54	1.24
5223479--5223531	25	2.1	25	82	0	61	22	41	9	26	1.84
5225115--5225235	28	4.2	28	69	21	88	31	29	8	30	1.87
5225172--5225246	28	2.6	28	80	12	73	26	30	10	32	1.90
5226154--5226197	5	9.0	5	85	14	65	63	0	0	36	0.95
5228845--5228886	22	1.9	22	90	0	66	30	14	23	30	1.94
5230960--5231007	24	2.0	23	92	4	78	41	0	0	58	0.98
5234927--5234990	30	2.1	30	94	0	110	57	14	3	25	1.51
5236207--5236236	15	2.0	15	100	0	60	46	0	26	26	1.53
5236445--5236496	22	2.4	22	90	0	86	7	32	21	38	1.82
5238984--5239132	23	6.5	23	83	3	151	10	24	24	40	1.87
5251939--5252004	22	3.0	22	86	2	87	13	27	22	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5260741--5260827	39	2.2	40	89	2	131	34	21	5	37	1.78
5265477--5265531	2	27.5	2	100	0	110	50	0	0	49	1.00
5269600--5269839	63	3.8	63	76	3	214	29	9	30	30	1.88
5271664--5271717	28	1.9	28	84	0	72	53	9	14	22	1.69
5274255--5274347	11	8.0	11	75	14	71	45	2	0	52	1.12
5274248--5274330	6	14.0	6	70	20	59	43	1	1	54	1.16
5274248--5274330	16	5.4	16	79	16	70	43	1	1	54	1.16
5274304--5274346	16	2.6	16	85	3	50	53	2	0	44	1.13
5275105--5275144	3	13.0	3	84	5	53	62	0	0	37	0.95
5275106--5275147	10	4.4	10	85	8	52	64	0	0	35	0.94

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