genome.fa.s5.2.7.7.80.10.50.1000.16.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: CP032249.1 Gossypioides kirkii chromosome KI_07
Parameters: 2 7 7 80 10 50 1000
Length:  37252039

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   

This is table  16  of  120  ( 14335 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)
4429358--4429406	3	16.3	3	100	0	98	32	0	0	67	0.91
4432485--4432738	80	3.2	80	88	0	337	33	26	17	22	1.96
4443334--4443396	24	2.6	24	89	0	99	23	14	11	50	1.74
4447291--4447341	24	2.1	24	96	0	93	25	11	5	56	1.57
4447299--4447351	24	2.2	24	89	0	79	30	13	7	49	1.69
4455229--4455274	22	2.1	22	84	8	58	47	0	43	8	1.34
4459172--4459203	2	16.0	2	100	0	64	50	0	0	50	1.00
4462019--4462069	22	2.3	21	83	6	57	50	1	41	5	1.37
4463319--4463391	35	2.1	35	94	0	128	41	8	6	43	1.61
4469731--4469766	3	12.0	3	100	0	72	33	0	33	33	1.58
4470266--4470327	30	2.1	31	82	11	76	37	1	4	56	1.30
4474030--4474134	29	3.6	28	78	6	93	34	2	2	60	1.26
4474075--4474134	29	2.1	29	90	3	95	36	3	3	56	1.32
4474287--4474334	24	2.0	25	88	12	73	37	4	12	45	1.61
4500234--4500275	19	2.2	19	83	8	50	42	16	11	28	1.84
4503370--4503416	21	2.2	21	88	0	67	23	17	27	31	1.96
4505673--4505708	18	2.1	18	89	5	56	41	0	25	33	1.55
4516628--4516729	6	18.0	6	68	22	69	44	2	0	51	1.23
4516640--4516729	42	2.1	43	85	2	119	45	2	1	51	1.21
4516654--4516729	17	5.0	16	72	21	58	46	2	1	50	1.24
4516628--4516760	68	2.0	68	82	8	164	44	6	0	48	1.32
4516780--4516845	17	3.9	17	92	5	107	43	24	19	12	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4516927--4516962	9	4.0	9	92	0	54	16	55	11	16	1.68
4516925--4516961	18	2.1	18	94	0	65	13	56	10	18	1.66
4517403--4517463	7	9.3	7	79	13	67	49	0	3	47	1.18
4517407--4517463	13	4.4	13	74	14	55	49	0	3	47	1.18
4517403--4517463	19	3.1	19	80	4	77	49	0	3	47	1.18
4518477--4518744	30	8.9	30	89	0	383	39	21	2	36	1.68
4518459--4518766	30	10.2	31	85	3	296	37	23	2	35	1.70
4518784--4518939	29	5.4	27	75	17	100	30	27	4	37	1.77
4518748--4519030	58	4.9	58	89	2	408	31	28	4	35	1.78
4518748--4519030	117	2.4	115	90	4	424	31	28	4	35	1.78
4518757--4519040	28	9.8	28	71	15	177	31	28	4	35	1.78
4520298--4520341	12	3.4	13	84	9	54	43	2	4	50	1.35
4520752--4520804	24	2.2	24	100	0	106	26	0	16	56	1.41
4521259--4521297	22	1.9	20	85	15	53	41	0	5	53	1.23
4534834--4534874	15	2.6	16	82	17	50	60	2	0	36	1.10
4535031--4535118	27	3.3	27	90	0	140	18	30	32	18	1.95
4535161--4535205	15	2.9	15	76	3	54	66	11	0	22	1.22
4535289--4535419	57	2.4	55	80	10	151	56	5	2	35	1.35
4535489--4535549	27	2.3	27	97	0	113	14	22	39	22	1.91
4538477--4538526	26	1.9	26	87	0	73	30	0	10	60	1.30
4540985--4541012	13	2.2	13	100	0	56	50	0	0	50	1.00
4541004--4541051	17	2.8	17	87	6	62	58	2	2	37	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4542256--4542296	14	2.9	14	88	3	55	31	0	4	63	1.15
4542258--4542302	15	3.1	15	83	6	56	35	0	6	57	1.25
4544083--4544146	23	2.9	21	81	11	58	46	1	1	50	1.20
4548827--4548862	2	18.0	2	100	0	72	50	0	0	50	1.00
4548925--4548955	6	5.2	6	100	0	62	0	16	32	51	1.44
4557466--4557623	39	4.1	40	75	8	139	36	20	18	25	1.95
4558970--4559004	18	1.9	18	88	0	52	31	0	8	60	1.27
4560386--4560457	4	18.0	4	97	0	135	48	25	1	25	1.59
4561543--4561581	20	2.0	20	85	10	53	38	5	0	56	1.22
4563895--4563925	14	2.2	14	94	0	53	48	0	0	51	1.00
4566341--4566390	22	2.3	22	85	0	64	28	12	4	56	1.54
4566484--4566559	24	3.2	24	63	26	61	50	14	9	26	1.73
4566475--4566574	48	2.1	49	98	1	193	51	14	10	25	1.72
4566493--4566569	24	3.2	24	63	26	63	48	14	10	27	1.76
4569059--4569173	58	2.0	58	94	0	203	46	20	0	33	1.50
4574848--4574936	17	5.2	17	83	0	106	37	1	6	55	1.34
4575631--4575664	3	11.3	3	100	0	68	32	0	0	67	0.91
4576856--4577107	30	8.6	29	73	11	156	37	20	3	38	1.70
4576887--4577114	59	3.9	58	84	4	271	36	20	3	39	1.70
4576865--4577107	29	8.3	30	79	8	225	37	20	3	39	1.70
4576917--4577114	30	6.7	30	79	11	198	36	21	3	38	1.71
4578190--4578230	17	2.3	19	83	8	50	19	0	7	73	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4578210--4578253	23	2.0	23	86	4	63	22	2	2	72	1.07
4578705--4578747	16	2.7	16	85	0	59	79	0	2	18	0.85
4578723--4578750	7	4.0	7	100	0	56	71	0	0	28	0.86
4578693--4578805	9	12.8	9	73	17	60	67	0	3	28	1.13
4578710--4578817	9	11.0	10	68	14	55	67	0	2	28	1.10
4578752--4578843	39	2.3	40	83	10	118	60	2	4	32	1.28
4578850--4579094	90	2.8	88	79	7	257	36	18	8	35	1.83
4579969--4580011	6	7.0	6	85	15	61	79	0	0	20	0.74
4580354--4580382	8	3.8	8	95	4	51	44	0	0	55	0.99
4581511--4581536	11	2.4	11	100	0	52	23	23	11	42	1.86
4581536--4581593	14	4.2	14	75	2	55	41	6	3	48	1.47
4600789--4600827	20	1.9	21	89	5	62	48	2	7	41	1.45
4603411--4603453	18	2.3	19	84	4	52	65	2	4	27	1.25
4603491--4603515	2	12.5	2	100	0	50	48	0	0	52	1.00
4604331--4604407	29	2.5	31	81	8	86	32	9	15	42	1.78
4613700--4613868	86	2.0	85	87	5	247	44	17	20	17	1.87
4614722--4614874	50	3.1	49	71	14	143	35	16	20	26	1.95
4614998--4615171	50	3.5	51	68	14	135	38	21	14	25	1.91
4614644--4615457	101	8.1	101	82	3	897	37	18	16	27	1.92
4614644--4615473	201	4.1	199	81	5	845	36	18	17	27	1.93
4614644--4615457	403	2.0	401	82	5	982	37	18	16	27	1.92
4615301--4615476	51	3.5	51	66	14	123	35	16	17	30	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4614678--4615483	302	2.7	303	81	5	934	36	17	17	27	1.93
4616653--4616776	40	2.9	42	74	11	110	25	15	24	34	1.94
4616699--4617367	39	16.9	39	70	13	311	25	18	26	29	1.98
4616679--4617368	79	8.7	78	78	8	626	25	17	26	29	1.98
4616698--4617379	239	2.9	237	87	3	895	25	18	26	29	1.98
4616702--4617367	159	4.2	153	80	8	631	25	18	26	29	1.98
4617516--4617710	99	2.0	98	83	5	250	20	32	15	31	1.94
4617532--4617686	49	3.1	50	74	11	149	18	33	16	31	1.93
4617534--4617737	99	2.1	98	81	4	241	19	32	15	32	1.93
4617700--4618002	99	3.1	98	76	7	292	18	29	17	34	1.94
4617724--4618000	97	2.8	98	77	8	260	18	29	16	35	1.93
4617564--4618000	49	8.9	48	69	13	212	18	31	16	34	1.93
4617453--4617932	247	1.9	247	86	1	685	19	30	16	33	1.94
4619009--4619068	7	8.3	7	85	7	75	0	20	0	80	0.72
4619010--4619083	28	2.7	27	81	6	85	1	20	0	78	0.83
4619015--4619068	16	3.7	15	78	14	58	0	20	0	79	0.73
4619009--4619082	13	5.4	13	78	16	62	1	20	0	78	0.83
4620021--4620064	20	2.2	20	84	11	56	0	22	0	77	0.77
4624177--4624284	30	3.6	30	82	9	125	36	10	21	32	1.87
4624177--4624348	30	5.8	29	70	15	102	33	8	22	34	1.85
4624979--4625011	17	2.0	17	88	5	50	21	3	3	72	1.11
4628712--4628888	41	4.3	41	82	2	201	20	11	35	32	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4628712--4628888	84	2.1	82	82	2	201	20	11	35	32	1.88
4628817--4628906	41	2.2	41	82	7	103	20	12	33	34	1.89
4628733--4628906	84	2.1	84	80	2	188	19	12	35	33	1.89
4628859--4628959	53	1.9	53	87	0	148	18	16	34	29	1.94
4630580--4630646	26	2.6	26	100	0	134	25	5	32	35	1.80
4630632--4630855	119	1.9	117	83	3	288	40	5	22	31	1.76
4630884--4630984	30	3.4	30	77	10	107	32	3	23	39	1.73
4632919--4632972	29	1.9	27	88	7	81	42	9	1	46	1.46
4632980--4633017	17	2.2	17	90	0	58	57	10	0	31	1.32
4633068--4633190	29	4.2	29	88	0	174	26	18	13	42	1.87

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