genome.fa.s11.2.7.7.80.10.50.1000.16.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: CP032255.1 Gossypioides kirkii chromosome KI_13
Parameters: 2 7 7 80 10 50 1000
Length:  42971368

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   

This is table  16  of  143  ( 17057 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)
4923924--4923958	17	2.1	17	88	0	52	48	2	2	45	1.32
4943579--4943656	39	2.0	39	92	0	129	46	6	8	38	1.61
4947658--4947717	24	2.6	23	86	2	84	26	13	18	41	1.87
4949473--4949539	34	2.0	34	82	11	84	62	2	1	32	1.19
4949634--4949698	31	2.1	31	91	0	103	36	6	12	44	1.67
4957687--4957747	28	2.2	28	79	5	70	36	4	8	50	1.54
4974726--4974751	3	8.7	3	100	0	52	65	0	34	0	0.93
4976351--4976388	20	1.9	20	84	10	51	28	2	13	55	1.51
4978347--4978385	2	19.5	2	100	0	78	0	0	48	51	1.00
4993573--4993613	21	2.0	21	85	0	55	9	26	9	53	1.65
4997068--4997127	29	2.1	29	84	6	77	38	10	8	43	1.68
5001233--5001336	51	2.0	52	96	1	192	33	11	12	42	1.79
5003822--5003866	22	2.0	22	95	0	81	31	20	15	33	1.93
5006362--5006438	29	2.7	29	100	0	154	29	11	10	48	1.73
5010711--5010760	19	2.7	19	79	14	59	54	10	6	30	1.58
5010804--5010846	18	2.3	19	88	4	61	51	11	0	37	1.39
5010897--5010945	23	2.1	24	85	11	66	38	4	2	55	1.31
5012165--5012325	30	5.5	30	70	22	135	34	4	29	32	1.77
5012165--5012355	59	3.3	59	88	2	287	34	4	29	32	1.77
5012313--5012384	30	2.5	30	84	10	89	34	2	25	37	1.70
5014185--5014262	17	4.9	16	77	12	72	55	0	3	41	1.18
5014175--5014255	31	2.8	29	80	12	94	53	0	3	43	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5014181--5014262	11	7.6	11	71	22	59	54	0	3	41	1.18
5014175--5014249	6	12.5	6	74	16	66	52	0	4	44	1.20
5014550--5015514	76	12.8	76	90	2	1399	32	18	15	32	1.93
5015287--5015500	69	3.0	69	82	12	279	26	20	15	36	1.93
5027321--5027596	29	9.4	29	67	18	128	34	2	29	32	1.73
5027313--5027625	58	5.4	58	87	3	425	33	3	30	32	1.74
5027277--5027625	117	3.0	116	86	4	463	33	3	30	32	1.75
5027577--5027654	28	2.7	27	79	14	84	33	2	26	37	1.70
5027577--5027654	30	2.6	30	78	13	81	33	2	26	37	1.70
5029463--5029516	20	2.8	20	81	10	69	57	0	1	40	1.09
5029452--5029514	6	10.3	6	81	10	65	50	0	1	47	1.10
5029469--5029524	25	2.2	26	81	12	62	57	1	1	39	1.20
5032761--5032794	13	2.6	13	86	13	52	44	5	0	50	1.26
5033485--5033518	3	11.3	3	100	0	68	67	0	0	32	0.91
5034475--5034500	12	2.2	12	100	0	52	34	0	0	65	0.93
5039356--5039394	16	2.4	16	83	8	53	25	2	2	69	1.14
5053819--5053860	22	1.9	23	85	9	61	42	21	4	30	1.73
5055209--5055237	14	2.0	15	93	6	51	58	0	0	41	0.98
5055622--5055646	3	8.3	3	100	0	50	68	0	0	32	0.90
5057543--5057575	17	2.0	17	88	5	50	72	12	3	12	1.23
5062827--5062871	17	2.6	17	92	0	81	48	0	44	6	1.29
5063421--5063486	33	2.1	33	86	11	93	40	1	7	50	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5069546--5069588	18	2.4	18	80	7	52	51	2	2	44	1.27
5070888--5070998	48	2.3	48	82	13	138	42	1	3	52	1.29
5070926--5071043	60	2.0	59	90	5	184	42	1	4	51	1.31
5072320--5072381	24	2.7	23	80	7	81	43	1	9	45	1.46
5072467--5072495	12	2.3	13	94	5	51	37	0	0	62	0.96
5079331--5079382	24	2.2	24	100	0	104	26	25	19	28	1.98
5083124--5083222	49	2.0	49	98	0	189	35	0	33	31	1.58
5084365--5084420	29	1.9	29	85	7	78	37	10	8	42	1.71
5095874--5095925	18	3.0	18	81	10	56	51	0	1	46	1.12
5101720--5102281	281	2.0	281	98	0	1079	39	17	13	29	1.88
5104622--5104668	23	2.0	23	84	15	62	44	4	0	51	1.21
5104872--5104926	23	2.4	23	100	0	110	60	12	0	27	1.33
5105286--5105368	30	2.8	30	79	0	94	31	20	15	32	1.94
5107147--5107207	30	2.0	30	87	0	86	11	32	31	24	1.91
5109372--5109416	4	10.8	4	86	9	54	68	0	31	0	0.89
5109372--5109424	21	2.6	21	84	3	72	67	0	32	0	0.91
5109371--5109420	17	2.9	18	82	5	68	66	0	34	0	0.92
5112479--5112509	14	2.3	13	94	5	53	22	0	22	54	1.44
5112724--5112764	21	2.0	21	85	0	55	29	17	34	19	1.94
5115292--5115334	21	2.1	21	91	4	70	60	11	0	27	1.31
5115495--5115529	18	1.9	18	94	0	61	60	8	0	31	1.27
5115669--5115724	17	3.2	17	72	22	53	0	32	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5115660--5115747	21	4.3	20	72	18	74	0	26	1	72	0.91
5115675--5115751	4	19.2	4	76	17	63	0	24	1	74	0.90
5115685--5115751	14	5.2	13	76	18	52	0	25	1	73	0.92
5115703--5115751	25	2.0	25	87	0	71	0	22	2	75	0.90
5115710--5115751	17	2.5	18	85	14	63	0	19	2	78	0.86
5117356--5117403	22	2.3	22	89	7	73	6	6	18	68	1.32
5117367--5117439	22	3.3	22	83	12	87	9	2	16	71	1.24
5117358--5117427	24	3.1	22	84	11	81	7	4	18	70	1.28
5117431--5117464	12	2.9	12	91	4	52	8	5	17	67	1.37
5117499--5117562	20	3.0	20	78	12	74	10	3	18	67	1.34
5117675--5117725	24	2.1	24	82	13	61	23	0	5	70	1.09
5118299--5118602	158	1.9	158	86	2	432	20	24	25	29	1.99
5120772--5120798	8	3.4	8	100	0	54	0	37	0	62	0.95
5123973--5124043	31	2.3	31	78	4	81	40	8	9	40	1.69
5132360--5132476	59	2.0	59	89	0	180	38	14	17	29	1.89
5133802--5133859	17	3.4	17	68	25	50	37	0	39	22	1.54
5133793--5133880	34	2.6	34	92	0	140	42	0	37	20	1.52
5136966--5137043	38	2.1	38	100	0	156	37	10	7	44	1.67
5139222--5139325	34	3.1	34	91	0	163	42	1	37	18	1.61
5139221--5139313	17	5.5	17	67	10	64	43	2	36	18	1.62
5142138--5142172	11	3.1	11	84	8	52	22	8	8	60	1.54
5145938--5145988	20	2.4	22	78	15	63	58	1	0	39	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5152095--5152120	2	13.0	2	100	0	52	50	0	0	50	1.00
5158359--5158402	22	2.0	22	100	0	88	36	18	13	31	1.90
5160699--5160804	6	16.2	6	78	13	86	48	0	50	0	1.07
5160698--5160797	7	15.0	7	81	9	86	50	1	49	0	1.07
5160699--5160787	26	3.7	25	75	21	84	49	1	49	0	1.08
5160700--5160804	33	3.2	33	86	2	131	48	0	50	0	1.07
5160699--5160815	7	17.4	7	79	7	84	47	0	52	0	1.06
5161928--5161967	22	1.9	22	85	10	57	30	20	10	40	1.85
5163232--5163277	25	1.9	25	86	8	69	34	2	6	56	1.37
5172353--5172442	44	2.1	43	97	2	171	25	25	15	33	1.95
5174225--5174367	55	2.6	55	88	0	214	26	7	13	51	1.68
5182474--5182516	21	2.0	21	95	0	77	53	6	9	30	1.59
5184518--5184543	13	2.0	13	100	0	52	30	23	30	15	1.95
5205414--5205469	27	2.1	26	90	3	85	19	12	28	39	1.88
5208365--5208416	6	8.7	6	93	0	86	30	48	19	1	1.60
5210880--5210911	14	2.3	14	100	0	64	0	15	0	84	0.63
5211247--5211308	19	3.2	19	68	20	56	59	3	6	30	1.38
5217921--5218040	60	2.0	60	98	0	231	20	13	13	52	1.73
5219332--5219358	7	3.9	7	100	0	54	11	44	0	44	1.39
5220210--5220241	12	2.8	12	95	4	57	0	9	0	90	0.45
5222274--5222318	25	1.9	24	82	13	58	40	15	28	15	1.88
5222352--5222472	23	5.2	23	80	13	149	40	23	24	11	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5222352--5222472	48	2.6	46	86	10	165	40	23	24	11	1.88
5225415--5225521	53	2.0	53	100	0	214	26	9	23	41	1.84
5226765--5226792	5	5.6	5	100	0	56	0	0	64	35	0.94
5231782--5232088	158	1.9	158	80	5	352	29	24	23	22	1.99
5233208--5233255	13	3.4	14	77	13	53	54	0	0	45	0.99
5233218--5233254	16	2.3	16	86	13	58	59	0	0	40	0.97
5243226--5243269	6	7.3	6	97	0	79	20	15	50	13	1.78
5253862--5253895	14	2.3	15	90	5	52	26	0	5	67	1.13
5257671--5257704	15	2.3	15	89	0	50	35	47	8	8	1.66
5259180--5259364	54	3.4	55	82	5	182	38	5	48	7	1.53

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