genome.fa.s6.2.7.7.80.10.50.1000.15.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: CP032250.1 Gossypioides kirkii chromosome KI_08
Parameters: 2 7 7 80 10 50 1000
Length:  39602670

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   

This is table  15  of  125  ( 14887 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)
4842046--4842127	31	2.6	31	92	1	137	24	20	8	46	1.78
4847460--4847495	16	2.2	16	95	0	63	38	13	5	41	1.68
4849430--4849460	3	10.3	3	100	0	62	0	32	0	67	0.91
4851114--4851216	42	2.5	42	86	0	143	21	20	29	29	1.98
4856009--4856045	18	2.0	19	89	5	58	37	2	0	59	1.12
4867059--4867108	23	2.2	22	82	10	57	24	6	2	68	1.23
4878016--4878049	12	2.8	12	86	4	50	52	0	0	47	1.00
4888730--4888811	37	2.2	37	79	12	87	65	6	0	28	1.16
4888925--4888962	20	1.9	20	88	0	58	68	18	0	13	1.21
4889002--4889037	18	2.1	18	89	5	56	69	13	11	5	1.34
4888971--4889019	22	2.2	22	92	0	80	73	16	4	6	1.19
4891622--4891657	2	18.0	2	100	0	72	50	0	0	50	1.00
4893794--4893832	20	2.0	20	90	10	62	38	0	7	53	1.30
4896342--4896382	20	2.1	19	86	13	57	43	0	2	53	1.13
4898540--4898585	24	1.9	24	82	8	58	32	13	6	47	1.68
4899054--4899128	28	2.7	28	83	4	89	57	5	12	25	1.55
4899726--4899771	25	1.9	25	86	8	69	32	4	6	56	1.45
4901951--4902026	31	2.5	31	76	2	82	32	10	11	44	1.75
4902015--4902077	30	2.1	30	87	0	90	36	14	4	44	1.66
4904499--4904579	42	1.9	43	92	2	137	49	9	11	29	1.70
4906786--4906824	8	4.8	8	90	6	60	12	0	2	84	0.72
4906786--4906824	17	2.4	16	91	4	60	12	0	2	84	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4907013--4907087	31	2.4	31	84	4	89	40	12	13	34	1.81
4907554--4907593	6	6.7	6	100	0	80	15	0	35	50	1.44
4910123--4910187	11	5.9	11	76	7	51	66	18	4	10	1.40
4910588--4910661	20	3.7	19	76	16	71	32	16	14	36	1.89
4911827--4911873	16	2.9	16	72	15	51	68	0	0	31	0.90
4913986--4914051	30	2.2	30	84	10	82	46	3	0	50	1.16
4914667--4914698	2	16.0	2	100	0	64	50	0	0	50	1.00
4915170--4915300	62	2.1	62	81	6	167	42	15	5	36	1.69
4915321--4915417	51	1.9	51	91	0	158	43	7	10	39	1.66
4915327--4915436	51	2.2	51	86	3	150	40	7	13	38	1.72
4920709--4920742	18	1.9	18	88	5	52	29	0	5	64	1.17
4921009--4921060	16	3.2	16	86	0	68	44	0	23	32	1.54
4921232--4921356	58	2.2	58	88	2	180	50	3	0	46	1.17
4922964--4923137	51	3.4	51	92	3	287	32	13	21	32	1.93
4925270--4925334	30	2.2	30	88	0	94	24	3	15	56	1.53
4927010--4927102	27	3.5	27	76	15	86	56	3	1	38	1.22
4927056--4927133	22	3.2	25	74	18	76	55	1	0	43	1.08
4930111--4930141	14	2.1	15	94	5	55	32	22	6	38	1.80
4930274--4930305	11	2.9	11	95	0	55	59	0	0	40	0.97
4932015--4932063	25	2.0	25	87	0	71	42	10	8	38	1.68
4947875--4947923	26	1.9	25	87	4	71	36	8	32	22	1.84
4956408--4956449	20	2.1	20	100	0	84	26	9	19	45	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4967560--4967587	6	4.7	6	100	0	56	0	67	0	32	0.91
4970918--4971011	41	2.3	42	78	15	106	37	0	13	48	1.43
4971211--4971266	24	2.3	24	81	6	69	35	17	14	32	1.90
4974358--4974419	17	3.7	17	75	12	65	50	1	3	45	1.27
4982140--4982209	18	3.8	19	77	17	60	30	2	2	64	1.22
4982182--4982215	18	1.9	18	88	5	52	32	0	8	58	1.29
4983407--4983453	18	2.5	19	72	6	51	34	0	0	65	0.93
4984453--4984531	6	13.8	6	69	15	51	46	1	3	48	1.28
4984452--4984517	17	3.9	17	75	15	73	43	1	4	50	1.32
4985213--4985268	3	18.7	3	100	0	112	66	0	0	33	0.92
4986374--4986691	59	5.4	58	87	3	365	33	27	2	36	1.72
4986379--4986589	29	7.2	29	69	25	133	35	28	1	34	1.66
4986378--4986576	30	6.8	30	70	23	131	35	29	1	33	1.67
4986378--4986691	117	2.7	118	87	3	454	33	28	2	35	1.72
4998648--4999493	200	4.2	200	90	1	1250	35	20	23	20	1.96
4998642--4999493	401	2.1	399	89	2	1298	35	20	23	20	1.96
4999824--4999902	6	13.8	6	72	15	60	48	1	2	48	1.23
4999824--4999888	17	3.8	17	77	0	76	44	1	3	50	1.26
4999824--4999902	34	2.3	34	82	4	97	48	1	2	48	1.23
5000525--5000602	3	25.3	3	75	14	70	64	2	5	28	1.28
5001656--5001757	30	3.4	30	70	17	95	38	28	1	31	1.68
5001665--5001803	59	2.3	59	88	1	206	34	29	2	33	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5008030--5008085	26	2.1	27	90	3	87	30	32	14	23	1.94
5008385--5008481	43	2.3	43	89	3	142	29	29	19	20	1.97
5008429--5008535	54	2.0	54	90	3	171	30	26	19	23	1.98
5011858--5011901	18	2.4	19	80	3	54	47	4	4	43	1.44
5012562--5012668	41	2.6	41	86	5	153	24	22	21	31	1.98
5012649--5012747	41	2.4	41	84	0	117	19	30	18	32	1.95
5012761--5012875	40	2.9	39	85	3	149	19	21	18	40	1.91
5013131--5013189	25	2.3	25	85	8	75	23	3	5	67	1.26
5017679--5017750	28	2.6	28	82	12	94	5	27	1	65	1.23
5039244--5039268	2	12.5	2	100	0	50	52	0	0	48	1.00
5042779--5042892	27	4.2	27	93	0	192	25	16	21	35	1.94
5055929--5055969	20	2.0	22	85	9	59	41	7	14	36	1.74
5071661--5071690	14	2.1	14	100	0	60	50	0	10	40	1.36
5076796--5076842	25	2.0	25	87	8	71	36	4	6	53	1.46
5078267--5078425	23	6.8	23	81	9	128	38	24	24	11	1.89
5078265--5078425	45	3.5	44	73	13	135	39	24	24	11	1.88
5079450--5079515	33	1.9	35	84	9	91	9	31	6	53	1.57
5083573--5083615	10	4.4	10	85	5	61	79	0	4	16	0.90
5083637--5083696	6	10.3	6	89	3	79	18	3	0	78	0.89
5084637--5084690	11	4.6	12	82	17	69	77	0	11	11	0.99
5084629--5084690	23	2.7	23	83	14	74	77	1	9	11	1.06
5084638--5084678	12	3.5	11	93	6	64	75	0	9	14	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5085721--5085767	25	2.0	25	87	8	71	36	4	6	53	1.46
5086881--5086920	21	1.9	21	84	0	53	20	7	15	57	1.61
5094565--5094617	18	3.1	18	84	10	67	47	0	0	52	1.00
5094574--5094617	16	2.6	17	82	10	56	47	0	0	52	1.00
5100244--5100330	44	2.0	44	84	8	115	34	4	0	60	1.17
5100485--5100535	26	2.0	26	84	0	66	37	21	7	33	1.82
5100751--5100902	78	1.9	78	100	0	304	41	6	7	44	1.60
5117690--5117742	2	26.5	2	100	0	106	0	50	0	49	1.00
5123239--5123370	23	5.5	25	85	3	134	43	21	21	13	1.86
5123267--5123391	23	5.4	22	85	7	142	42	21	23	12	1.87
5123239--5123391	46	3.2	48	81	10	165	43	20	22	13	1.87
5123221--5123370	46	3.2	45	81	10	153	44	21	21	13	1.86
5126041--5126079	17	2.3	17	90	0	60	15	12	25	46	1.81
5128175--5128221	5	9.8	5	78	17	55	42	0	12	44	1.42
5128173--5128221	9	5.2	9	85	9	71	40	0	12	46	1.41
5129655--5129697	21	2.0	23	86	9	63	55	2	0	41	1.12
5130975--5131028	20	2.5	21	80	14	58	57	1	1	38	1.20
5132293--5132337	23	2.0	23	86	4	65	15	8	20	55	1.66
5140706--5140743	16	2.4	16	86	8	51	28	0	2	68	1.03
5143587--5143625	18	2.1	19	86	13	55	48	12	5	33	1.63
5146496--5146534	5	7.8	5	86	11	53	0	0	15	84	0.62
5146494--5146538	13	3.5	13	77	22	51	0	0	17	82	0.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5146495--5146537	15	2.9	14	86	10	59	0	0	13	86	0.58
5146951--5146980	2	15.0	2	92	0	51	46	0	0	53	1.00
5148543--5148567	2	12.5	2	100	0	50	48	0	0	52	1.00
5149567--5149600	13	2.5	13	90	4	50	50	2	11	35	1.54
5155382--5155434	15	3.6	14	82	7	70	20	0	1	77	0.87
5155383--5155456	7	10.1	7	75	13	69	22	0	4	72	1.01
5155383--5155451	23	3.0	24	84	14	85	23	0	4	72	1.02
5155999--5156045	24	1.9	25	83	12	62	63	4	0	31	1.13
5156070--5156111	22	1.9	22	90	9	68	71	2	2	23	1.10
5156068--5156126	28	2.1	28	84	12	77	72	3	1	22	1.08

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