genome.fa.s12.2.7.7.80.10.50.1000.16.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: CP032245.1 Gossypioides kirkii chromosome KI_2_4
Parameters: 2 7 7 80 10 50 1000
Length:  41238926

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   

This is table  16  of  132  ( 15769 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)
4501044--4501808	76	10.0	76	92	1	1248	33	14	18	33	1.92
4502170--4502198	11	2.7	11	94	5	51	41	0	0	58	0.98
4502155--4502193	15	2.4	17	87	8	55	43	2	2	51	1.29
4502980--4503322	59	5.9	58	83	6	376	32	27	3	36	1.74
4502980--4503264	29	9.8	28	67	20	129	32	27	3	36	1.73
4516121--4516172	22	2.4	22	80	3	61	50	1	0	48	1.12
4523220--4523249	6	5.0	6	100	0	60	16	0	50	33	1.46
4525502--4525553	15	3.4	14	77	12	50	25	3	1	69	1.16
4536942--4537090	27	5.4	27	64	24	69	51	3	1	43	1.26
4539826--4539852	14	1.9	14	100	0	54	0	59	0	40	0.98
4539830--4539856	12	2.2	12	100	0	54	0	59	0	40	0.98
4543130--4543194	12	5.3	13	75	15	59	38	0	3	58	1.14
4543166--4543194	3	9.7	3	100	0	58	34	0	0	65	0.93
4543857--4543886	6	5.0	6	100	0	60	83	0	0	16	0.65
4549482--4549538	26	2.2	26	100	0	114	64	0	14	21	1.28
4560316--4561279	480	2.0	480	98	0	1865	33	15	24	26	1.95
4563774--4563819	22	2.1	22	88	4	67	8	13	17	60	1.56
4563774--4563825	22	2.5	22	81	15	65	9	11	17	61	1.55
4572046--4572081	2	18.0	2	100	0	72	50	0	0	50	1.00
4573674--4573714	2	20.5	2	100	0	82	48	0	0	51	1.00
4582472--4582505	17	2.0	17	88	0	50	64	5	5	23	1.38
4583335--4583388	23	2.3	23	90	0	81	22	22	24	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4584124--4584158	12	3.0	12	87	8	54	0	20	0	80	0.72
4584132--4584220	36	2.4	36	80	10	92	6	15	7	69	1.33
4592572--4592605	17	2.0	17	88	0	50	64	5	5	23	1.38
4602836--4602864	2	14.5	2	100	0	58	48	0	0	51	1.00
4604307--4604338	17	2.0	17	88	11	50	68	12	12	6	1.37
4608298--4608326	6	4.8	6	100	0	58	13	34	0	51	1.42
4611462--4611518	5	11.4	5	98	0	96	22	57	0	19	1.40
4620419--4620497	31	2.6	30	77	2	86	25	13	6	54	1.63
4628845--4628895	24	2.2	23	89	3	75	21	7	17	52	1.69
4631286--4631373	33	2.6	33	80	1	95	9	5	19	65	1.40
4631372--4631415	12	3.1	14	81	18	56	2	6	22	68	1.25
4631311--4631457	68	2.2	68	84	7	183	7	4	20	67	1.34
4631381--4631413	12	2.8	12	100	0	66	0	6	24	69	1.10
4631394--4631460	32	2.1	32	83	5	82	7	2	19	70	1.25
4631590--4631671	38	2.2	38	82	8	96	29	0	8	62	1.25
4635524--4635562	19	2.0	20	85	5	53	41	0	10	48	1.37
4640995--4641037	9	4.7	9	82	5	59	32	2	41	23	1.67
4648089--4648136	18	2.8	17	81	9	53	75	6	6	12	1.19
4648089--4648139	17	2.9	17	77	5	57	74	7	5	11	1.21
4659518--4659543	6	4.3	6	100	0	52	0	15	15	69	1.20
4668658--4668697	3	13.3	3	100	0	80	35	0	0	65	0.93
4670975--4671010	16	2.1	16	90	10	54	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4681684--4682071	49	7.9	49	73	6	212	20	23	18	37	1.94
4681700--4682062	98	3.7	98	78	5	315	19	24	17	37	1.93
4681700--4682062	196	1.9	195	80	6	439	19	24	17	37	1.93
4681682--4682071	147	2.6	145	71	12	344	20	23	17	37	1.94
4682507--4682718	112	1.9	112	83	1	273	35	12	22	29	1.91
4687322--4687377	29	1.9	29	96	0	103	48	10	12	28	1.74
4688344--4688385	11	3.8	11	84	9	50	76	0	4	19	0.96
4690257--4690282	12	2.2	12	100	0	52	46	0	0	53	1.00
4690286--4690321	18	2.0	18	94	0	63	5	5	13	75	1.17
4696362--4696425	31	2.1	29	85	8	83	56	9	12	21	1.64
4704546--4704586	21	2.0	21	85	0	55	51	9	14	24	1.72
4706934--4706962	15	2.0	15	93	6	51	68	0	0	31	0.89
4710746--4710790	21	2.1	21	84	8	56	22	4	2	71	1.15
4714298--4714349	26	2.1	24	82	7	59	55	0	5	38	1.24
4723197--4723245	23	2.1	23	92	0	80	36	2	4	57	1.30
4723373--4723431	15	4.1	15	69	6	50	59	1	5	33	1.29
4724839--4724873	15	2.2	16	90	5	54	60	0	0	40	0.97
4728324--4728372	25	2.0	25	83	0	62	53	16	12	18	1.73
4729163--4729212	2	25.0	2	95	0	91	50	48	0	2	1.12
4730407--4730523	61	1.9	61	87	0	171	46	23	5	23	1.75
4733001--4733097	48	2.0	48	100	0	194	31	28	8	30	1.86
4748487--4748512	13	2.0	13	100	0	52	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4752341--4752392	23	2.3	23	86	3	70	48	1	1	48	1.24
4754012--4754051	19	2.0	21	85	9	57	55	0	5	40	1.22
4757693--4757735	22	2.0	22	100	0	86	11	23	23	41	1.87
4760399--4760441	18	2.4	18	88	7	61	44	2	0	53	1.13
4767976--4768007	2	16.0	2	93	0	55	46	0	0	53	1.00
4768702--4768735	3	11.3	3	100	0	68	67	0	0	32	0.91
4772115--4772141	1	27.0	1	100	0	54	0	0	100	0	0.00
4772568--4772621	19	2.9	18	76	17	58	33	0	0	66	0.92
4772568--4772621	17	3.0	18	81	10	58	33	0	0	66	0.92
4776553--4776862	140	2.2	141	85	7	405	51	12	1	33	1.50
4780933--4780973	22	1.9	22	90	5	66	58	0	0	41	0.98
4781102--4781131	15	2.0	15	93	0	51	26	3	0	70	1.03
4785332--4785383	20	2.7	19	79	5	59	59	0	3	36	1.16
4785356--4785414	25	2.3	26	79	2	66	66	0	1	32	1.02
4788285--4788320	17	2.1	17	100	0	72	58	25	11	5	1.54
4795920--4795949	10	3.0	10	90	0	51	43	0	0	56	0.99
4807983--4808024	21	2.0	21	85	4	57	57	0	7	35	1.26
4808560--4808602	20	2.2	20	91	0	68	55	6	2	34	1.39
4808613--4808647	18	1.9	18	94	0	61	48	2	0	48	1.16
4817627--4817693	32	2.1	32	86	2	91	26	11	11	49	1.74
4817937--4818048	31	3.6	32	70	23	87	52	10	9	26	1.67
4828679--4828740	3	21.0	3	88	9	83	62	0	37	0	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4830953--4830985	15	2.1	17	88	11	52	42	0	15	42	1.46
4834153--4834203	14	3.6	14	75	0	57	19	0	13	66	1.24
4834151--4834210	28	2.1	28	100	0	120	26	0	13	60	1.34
4835281--4835339	20	3.1	19	85	7	75	55	6	1	35	1.36
4835281--4835348	19	3.5	19	82	8	75	55	8	1	33	1.40
4838828--4839347	57	8.8	57	80	10	507	30	20	16	33	1.94
4838842--4839308	119	4.0	118	89	4	662	28	20	16	33	1.95
4840193--4840258	30	2.2	30	86	10	91	60	4	4	30	1.37
4842474--4842512	20	1.9	20	84	5	51	33	23	28	15	1.95
4842506--4842559	10	5.4	10	77	0	54	24	22	35	18	1.96
4842518--4842559	20	2.1	20	90	0	66	21	23	35	19	1.96
4842734--4843451	89	8.1	89	86	8	966	52	4	4	38	1.42
4842981--4843016	17	2.1	17	89	0	54	63	0	0	36	0.94
4842734--4843371	266	2.4	272	92	5	1038	53	4	3	38	1.39
4842735--4843451	177	4.0	176	87	6	993	52	4	4	38	1.42
4847284--4847668	119	3.3	118	85	4	505	35	16	18	28	1.94
4847283--4847679	58	6.8	55	74	14	286	34	16	18	30	1.93
4860700--4860738	2	19.0	2	89	5	60	51	2	46	0	1.14
4863002--4863063	4	16.8	4	80	15	80	22	1	0	75	0.88
4863002--4863063	18	3.4	18	95	2	106	22	1	0	75	0.88
4862992--4863063	22	3.2	22	84	13	94	23	2	0	73	0.96
4869602--4869646	19	2.4	19	85	7	56	20	4	0	75	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4870667--4870775	30	3.6	28	81	9	101	37	22	3	35	1.72
4870683--4870775	30	3.1	31	85	6	127	36	26	4	32	1.76
4873677--4873730	21	2.5	23	88	8	78	48	0	3	48	1.19
4873779--4873833	27	2.0	27	92	0	92	30	27	0	41	1.56
4874583--4874826	121	2.0	121	96	0	452	28	15	13	42	1.85
4874971--4875051	30	2.7	29	88	7	117	49	2	1	46	1.23
4883955--4884005	16	3.2	16	75	13	52	29	1	5	62	1.29
4895957--4896005	2	24.5	2	100	0	98	0	48	0	51	1.00
4898294--4898326	6	5.8	6	96	3	52	12	87	0	0	0.53
4903616--4903665	13	3.8	13	75	17	50	22	16	20	42	1.89

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