genome.fa.s8.2.7.7.80.10.50.1000.17.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: CP032252.1 Gossypioides kirkii chromosome KI_10
Parameters: 2 7 7 80 10 50 1000
Length:  47257441

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   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   

This is table  17  of  163  ( 19493 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)
4831954--4832015	18	3.5	18	72	14	58	41	0	3	54	1.16
4831955--4832023	35	2.0	35	86	13	99	40	0	2	56	1.14
4831902--4832025	46	2.7	44	74	16	110	39	2	2	55	1.26
4832033--4832096	15	4.7	15	68	29	54	20	9	0	70	1.14
4832016--4832092	39	2.0	39	94	0	136	22	7	1	68	1.22
4832042--4832096	24	2.3	23	81	12	67	20	9	0	70	1.13
4831967--4832089	19	6.4	19	72	10	81	30	4	1	64	1.22
4833285--4833344	28	2.1	28	84	6	77	28	11	28	31	1.92
4833326--4833475	29	5.1	28	71	22	94	32	2	32	33	1.72
4833303--4833522	59	3.7	57	83	8	239	32	3	30	33	1.74
4833326--4833522	59	3.3	59	87	3	272	32	2	31	33	1.71
4833362--4833510	29	5.1	29	75	13	108	34	2	30	32	1.69
4833326--4833550	59	3.8	57	76	11	195	32	2	30	34	1.72
4833514--4833578	29	2.2	29	89	5	96	36	4	15	43	1.67
4835515--4835570	15	4.0	13	72	22	51	41	1	0	57	1.09
4843810--4843858	9	5.1	10	76	14	50	34	0	0	65	0.93
4846797--4846874	41	1.9	41	89	5	122	30	21	15	32	1.94
4849261--4849334	20	3.7	20	80	8	78	48	1	8	41	1.41
4849242--4849346	41	2.6	41	80	5	99	47	2	6	42	1.44
4849282--4849329	21	2.6	17	76	20	51	50	2	4	43	1.33
4849302--4849359	30	1.9	30	86	13	84	50	1	3	44	1.29
4850395--4850729	29	11.5	30	63	18	129	35	28	1	34	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4850382--4850737	59	6.1	58	82	4	405	34	30	1	33	1.69
4850382--4850733	174	2.0	174	82	4	424	34	30	1	33	1.68
4856488--4856653	82	2.0	82	95	0	296	32	12	29	25	1.93
4862986--4863622	200	3.2	199	94	1	1096	35	21	23	19	1.96
4863991--4864031	17	2.4	17	83	0	55	48	2	2	46	1.28
4864749--4864804	21	2.8	20	81	5	67	48	3	7	41	1.48
4864718--4864803	20	4.2	20	73	10	75	46	3	6	43	1.47
4864737--4864822	20	4.3	21	75	7	72	48	3	6	40	1.47
4864778--4864835	30	1.9	30	86	13	84	50	1	3	44	1.29
4865881--4865972	29	3.2	29	71	17	82	32	33	3	30	1.74
4865853--4866324	58	8.1	58	81	6	501	34	29	1	34	1.69
4865853--4866324	117	4.0	116	81	7	508	34	29	1	34	1.69
4866098--4866189	28	3.2	28	70	17	80	35	29	2	32	1.70
4865853--4866324	175	2.7	174	85	4	621	34	29	1	34	1.69
4866100--4866190	29	3.1	29	67	22	73	37	27	2	32	1.69
4888272--4888400	61	2.1	61	81	5	154	42	14	3	38	1.64
4901058--4901101	2	22.0	2	80	0	52	52	40	0	6	1.28
4904413--4904437	13	1.9	13	100	0	50	72	0	8	20	1.10
4904905--4904972	33	2.1	33	91	0	109	44	10	11	33	1.75
4905116--4905170	29	2.0	28	89	7	85	60	0	9	30	1.28
4906059--4906099	18	2.4	17	84	15	57	58	12	2	26	1.46
4909265--4909299	17	2.1	17	88	0	52	22	42	14	20	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4910145--4910202	26	2.3	23	80	13	62	20	15	0	63	1.30
4910399--4910430	16	1.9	17	93	6	57	28	3	6	62	1.34
4914518--4914543	9	2.9	9	100	0	52	69	0	19	11	1.18
4920734--4920770	2	18.5	2	94	0	65	51	2	0	45	1.15
4928322--4928352	9	3.3	9	95	4	53	29	0	3	67	1.06
4928321--4928355	10	3.6	10	88	7	54	31	0	2	65	1.07
4931519--4931575	2	30.0	2	75	16	50	47	1	1	49	1.22
4936600--4936641	22	1.9	22	90	0	66	35	16	4	42	1.69
4939680--4939713	16	2.1	17	88	5	52	29	5	2	61	1.34
4939668--4939738	26	2.7	26	78	8	63	29	8	2	59	1.41
4939691--4939765	17	4.4	17	72	5	62	25	6	2	65	1.30
4939691--4939765	8	8.8	8	71	18	53	25	6	2	65	1.30
4939735--4939786	19	2.8	18	85	8	68	26	0	3	69	1.06
4939727--4939785	19	3.2	17	79	13	55	25	1	3	69	1.13
4942857--4942914	26	2.1	28	87	6	84	27	3	3	65	1.25
4944561--4944619	24	2.5	24	88	0	91	49	11	13	25	1.76
4946552--4946614	24	2.6	24	89	0	99	50	11	14	23	1.74
4947167--4947260	31	3.1	30	75	10	84	40	10	10	38	1.75
4951710--4951766	26	2.2	26	78	15	64	49	1	5	43	1.35
4971546--4971589	19	2.3	19	84	0	52	29	6	29	34	1.83
4972928--4972967	21	1.9	21	84	0	53	27	35	7	30	1.84
4974627--4974671	21	2.1	21	83	4	54	64	2	11	22	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4975467--4975518	25	2.1	25	82	3	61	55	15	5	23	1.61
4985686--4985720	18	2.0	17	94	5	61	74	0	20	5	1.02
4988325--4988357	12	2.5	13	90	9	50	42	6	3	48	1.43
4989528--4989572	19	2.4	19	81	7	56	37	0	4	57	1.19
4992982--4993065	19	4.1	19	80	14	80	52	3	0	44	1.18
4992982--4993051	19	3.5	20	84	9	81	54	4	0	41	1.20
4993030--4993078	25	2.0	25	88	4	73	51	2	0	46	1.12
4993058--4993093	18	2.0	18	88	0	54	61	2	0	36	1.11
4996624--4996658	18	2.0	17	88	5	52	40	2	0	57	1.14
4998240--4998286	23	2.1	23	84	4	60	48	2	0	48	1.13
4998248--4998293	23	2.0	23	83	4	58	45	2	4	47	1.34
4999474--4999502	2	14.5	2	100	0	58	0	51	0	48	1.00
5000041--5000112	16	4.5	16	85	3	101	37	5	29	27	1.79
5000094--5000187	44	2.1	44	86	7	127	30	5	26	37	1.79
5000282--5000427	58	2.5	55	83	13	177	50	0	2	46	1.20
5006970--5007057	40	2.2	40	100	0	176	42	22	4	30	1.74
5007648--5007680	16	2.0	17	88	5	50	48	0	0	51	1.00
5013111--5013216	32	3.3	32	98	0	203	28	12	37	21	1.90
5021164--5021193	11	2.7	11	94	0	51	30	0	0	70	0.88
5021161--5021191	10	3.0	10	90	9	53	32	0	0	67	0.91
5021860--5021891	14	2.3	14	94	0	55	21	3	18	56	1.56
5023504--5023538	14	2.5	14	95	0	61	42	5	0	51	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5029283--5029319	2	18.5	2	100	0	74	51	0	0	48	1.00
5036989--5037116	56	2.3	56	97	0	238	31	8	15	44	1.77
5042855--5042938	42	2.0	42	88	4	125	30	0	21	47	1.51
5043123--5043177	7	8.6	7	79	16	50	43	14	10	30	1.80
5050149--5050674	126	4.2	125	81	6	566	27	9	26	36	1.88
5052332--5052366	3	11.7	3	100	0	70	31	0	34	34	1.58
5052714--5052758	23	2.0	23	81	0	54	66	0	0	33	0.92
5055548--5055579	2	16.0	2	100	0	64	50	50	0	0	1.00
5055583--5055615	2	16.5	2	100	0	66	51	0	0	48	1.00
5057005--5057081	40	1.9	40	83	0	100	29	14	32	23	1.94
5058059--5058185	12	10.1	12	69	13	76	66	21	4	7	1.34
5058080--5058157	15	5.5	15	64	20	51	65	20	6	7	1.41
5058111--5058183	23	3.2	22	77	7	67	69	20	4	5	1.25
5058177--5058214	20	1.9	20	88	0	58	71	15	5	7	1.28
5058197--5058258	32	1.9	33	86	3	90	67	19	4	8	1.34
5058509--5058536	14	2.0	14	100	0	56	35	0	0	64	0.94
5058665--5058708	16	2.8	16	83	10	54	63	4	0	31	1.14
5062740--5062790	24	2.1	24	82	10	59	37	5	0	56	1.23
5062759--5062925	58	2.9	58	83	7	214	44	1	1	52	1.19
5063081--5063136	16	3.5	16	85	0	67	25	26	8	39	1.85
5063827--5063919	46	2.0	46	89	0	141	31	17	22	29	1.96
5068204--5068573	131	2.8	130	86	2	492	25	19	23	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5079243--5079272	6	5.0	6	95	0	51	33	3	0	63	1.11
5082460--5082588	64	2.0	63	93	1	222	24	24	15	34	1.94
5083037--5083093	23	2.5	24	74	23	59	42	1	0	56	1.10
5086737--5086868	64	2.0	65	88	4	196	24	25	16	33	1.96
5090018--5090055	16	2.6	15	88	12	53	31	2	21	44	1.66
5097731--5097782	24	2.2	24	79	3	61	28	11	3	55	1.53
5098060--5098101	19	2.2	19	83	8	50	23	0	9	66	1.21
5098056--5098092	19	1.9	19	94	0	65	21	0	8	70	1.13
5098435--5098498	31	2.1	32	91	5	105	37	6	7	48	1.57
5116572--5116613	22	2.0	22	85	4	59	52	16	4	26	1.63

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   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163