genome.fa.s12.2.7.7.80.10.50.1000.17.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  17  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)
4903615--4903665	19	2.6	21	84	12	72	21	15	21	41	1.90
4910089--4910175	31	2.8	31	91	1	147	43	13	16	26	1.85
4910557--4910659	36	2.8	35	80	5	107	26	6	10	56	1.58
4910660--4910815	36	4.3	38	72	13	123	25	9	16	48	1.77
4910673--4910816	35	4.0	36	73	15	129	27	9	15	48	1.74
4912893--4912954	33	1.9	32	86	3	88	70	8	9	11	1.33
4912902--4912949	22	2.2	22	81	7	53	75	6	8	10	1.20
4912893--4912972	35	2.4	33	83	6	90	72	7	10	10	1.28
4915966--4916021	26	2.2	26	83	6	69	23	32	23	21	1.98
4923258--4923458	37	5.5	36	69	16	101	25	15	15	42	1.87
4923257--4923447	73	2.6	72	80	6	206	26	15	15	42	1.86
4923788--4923892	52	2.0	52	87	3	149	36	28	12	22	1.91
4924210--4924349	68	2.1	68	94	0	244	30	10	20	37	1.87
4926088--4926195	23	4.7	23	83	3	110	70	18	3	7	1.26
4926088--4926207	12	10.2	12	69	8	77	70	19	3	7	1.26
4926157--4926230	34	2.2	32	84	9	103	72	18	2	5	1.15
4926460--4926515	20	2.8	20	80	0	67	12	64	8	14	1.50
4926542--4926589	25	1.9	25	87	8	71	54	0	2	43	1.12
4927905--4927947	19	2.3	19	84	8	52	58	4	0	37	1.19
4929177--4929226	22	2.3	22	78	0	55	60	8	10	22	1.55
4929219--4929278	22	2.6	23	79	7	61	76	6	8	8	1.15
4949912--4949940	14	2.1	14	100	0	58	55	17	13	13	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4951926--4952015	44	2.0	44	91	0	144	52	4	6	36	1.48
4951983--4952016	18	1.9	18	88	5	52	55	5	2	35	1.39
4960297--4960336	14	2.9	13	85	10	53	0	15	0	85	0.61
4964430--4964468	20	2.0	20	90	10	62	35	7	0	56	1.28
4969461--4969503	21	2.0	21	86	8	61	46	4	0	48	1.22
4969655--4969771	37	3.1	38	74	15	109	59	0	5	34	1.25
4969635--4969843	19	10.9	18	68	18	77	60	0	5	33	1.24
4969724--4969810	30	2.9	30	73	21	85	58	0	8	33	1.27
4969720--4969811	29	3.1	28	72	20	80	60	0	7	31	1.24
4970033--4970125	9	9.6	9	71	12	60	27	3	3	65	1.23
4970022--4970096	20	3.8	20	72	15	59	25	4	4	66	1.26
4970023--4970133	19	5.7	19	75	10	66	27	2	3	66	1.21
4970070--4970137	10	6.8	10	74	12	50	25	1	2	70	1.09
4983307--4983345	20	2.0	20	90	10	62	51	12	0	35	1.40
4986265--4986313	21	2.3	21	85	0	62	24	6	16	53	1.66
4990596--4990637	14	3.2	13	80	9	50	30	4	2	61	1.29
4992983--4993008	9	2.9	9	100	0	52	30	0	0	69	0.89
4995276--4995302	2	13.5	2	100	0	54	48	0	0	51	1.00
4998810--4998862	28	1.9	28	96	3	99	41	3	13	41	1.62
4999753--4999796	20	2.2	20	83	4	52	47	2	0	50	1.13
4999972--4999999	5	5.6	5	100	0	56	0	78	0	21	0.75
5003127--5003438	154	2.0	154	97	0	588	28	15	24	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5013329--5013368	18	2.2	19	86	4	55	67	5	2	25	1.23
5013335--5013377	18	2.4	18	80	3	52	65	6	0	27	1.18
5013392--5013427	9	4.0	9	92	0	54	66	11	0	22	1.22
5013417--5013452	18	2.0	18	88	0	54	61	19	2	16	1.47
5014667--5014710	23	2.0	22	86	4	61	52	2	0	45	1.13
5016554--5016578	13	1.9	13	100	0	50	44	0	0	56	0.99
5020068--5020119	21	2.5	22	81	12	65	55	7	1	34	1.39
5020873--5020898	1	26.0	1	100	0	52	0	100	0	0	0.00
5022469--5022506	20	1.9	20	88	0	58	21	10	18	50	1.76
5036014--5036055	21	2.0	21	86	4	59	69	0	0	30	0.89
5044998--5045043	24	2.0	23	86	4	65	32	2	0	65	1.05
5054422--5054489	31	2.2	31	94	0	118	35	0	17	47	1.48
5061420--5061444	2	12.5	2	100	0	50	52	0	0	48	1.00
5070158--5070202	18	2.5	18	82	7	56	62	2	2	33	1.20
5072684--5072727	23	1.9	23	90	0	70	52	4	22	20	1.65
5073103--5073136	10	3.6	9	92	8	50	73	2	0	23	0.97
5073400--5073564	78	2.1	79	94	1	287	32	4	11	50	1.59
5085551--5085582	12	2.8	12	86	13	50	53	0	0	46	1.00
5086909--5086983	2	37.5	2	100	0	150	0	49	0	50	1.00
5092534--5092573	21	1.9	21	85	10	55	57	15	0	27	1.38
5094687--5094723	18	2.1	18	90	5	58	54	16	2	27	1.56
5094822--5094870	25	1.9	25	83	4	62	51	6	2	40	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5094821--5094876	25	2.2	26	77	3	60	53	5	1	39	1.34
5095006--5095036	16	1.9	16	93	0	53	35	6	9	48	1.62
5098175--5098258	35	2.7	29	80	12	80	60	0	1	38	1.04
5098215--5098244	15	2.0	15	100	0	60	66	0	0	33	0.92
5098586--5098626	20	2.0	21	86	9	59	65	0	4	29	1.13
5102129--5102178	21	2.3	21	80	16	57	72	0	6	22	1.07
5115163--5115217	12	4.2	13	79	13	60	58	5	0	36	1.21
5115788--5115903	61	1.9	61	87	8	173	28	12	10	48	1.74
5116053--5116289	100	2.4	97	83	8	287	28	10	10	49	1.71
5125734--5125779	20	2.2	20	96	3	83	43	17	6	32	1.75
5131653--5131735	37	2.2	36	82	14	98	36	3	2	57	1.29
5132600--5132650	22	2.4	21	77	6	57	25	9	1	62	1.36
5133542--5133586	18	2.5	19	76	20	51	35	0	2	62	1.08
5134721--5134754	6	5.7	6	92	0	59	2	67	0	29	1.05
5138142--5138229	23	3.8	23	78	0	104	12	18	27	42	1.86
5140473--5140507	14	2.5	14	85	0	52	62	2	0	34	1.10
5140486--5140543	13	4.6	13	77	14	59	48	1	0	50	1.11
5140486--5140543	26	2.3	25	82	5	73	48	1	0	50	1.11
5143540--5143622	23	3.6	23	85	0	121	45	26	15	12	1.81
5143534--5143636	23	4.5	22	79	8	89	46	25	16	11	1.80
5143534--5143636	46	2.2	46	84	0	134	46	25	16	11	1.80
5146925--5146971	18	2.5	19	77	16	53	63	4	0	31	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5150960--5151000	17	2.4	17	91	4	64	48	2	24	24	1.63
5172561--5172612	21	2.5	21	87	0	68	28	11	25	34	1.91
5174276--5174326	23	2.2	23	82	6	59	33	3	17	45	1.67
5175749--5175820	29	2.4	29	81	4	81	27	13	15	43	1.85
5175948--5175988	21	1.9	22	85	5	57	2	29	4	63	1.28
5178097--5178270	29	5.9	29	73	14	160	33	29	4	32	1.78
5178096--5178264	60	2.8	59	82	10	202	34	28	4	32	1.76
5178102--5178268	57	2.9	57	83	6	210	33	29	4	32	1.78
5178291--5178382	29	3.1	29	67	22	73	32	28	5	33	1.80
5178335--5178469	58	2.3	58	82	5	148	32	22	3	40	1.72
5178454--5178515	28	2.2	29	75	13	67	33	25	11	29	1.91
5187413--5187448	18	1.9	19	88	5	56	72	2	5	19	1.17
5190298--5190395	44	2.3	43	84	5	126	29	9	24	36	1.86
5190477--5190550	38	2.1	33	83	14	87	43	17	10	28	1.83
5190542--5190613	29	2.5	29	100	0	144	25	18	23	33	1.97
5192214--5192274	29	2.1	30	93	3	106	26	4	13	55	1.57
5192746--5192778	5	6.4	5	96	3	57	42	0	0	57	0.98
5195052--5195086	18	2.0	17	88	5	52	37	2	5	54	1.39
5195350--5195389	19	2.0	20	90	4	64	35	2	25	37	1.69
5196075--5196151	26	2.9	26	74	18	77	46	1	2	49	1.23
5196182--5196229	13	3.6	13	75	5	51	39	22	22	14	1.91
5196175--5196246	27	2.7	27	86	6	101	38	22	18	20	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5198001--5198088	29	3.0	30	76	12	85	37	27	3	31	1.73
5209541--5210826	201	6.4	202	90	1	1901	37	21	22	18	1.94
5211238--5211285	13	3.6	13	80	5	60	37	25	22	14	1.92
5211231--5211273	13	3.1	14	76	10	52	41	23	16	18	1.89
5211229--5211302	27	2.7	27	87	8	114	36	25	17	20	1.94
5213064--5213124	29	2.1	29	84	6	79	40	27	1	29	1.66
5213106--5213418	58	5.4	58	80	9	291	33	29	2	34	1.71
5213107--5213361	29	8.8	27	66	21	110	33	29	2	34	1.71
5213106--5213418	117	2.7	116	80	5	330	33	29	2	34	1.71
5219613--5219720	53	2.0	53	94	0	189	37	21	16	24	1.93

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