genome.fa.s9.2.7.7.80.10.50.1000.125.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: CP032253.1 Gossypioides kirkii chromosome KI_11
Parameters: 2 7 7 80 10 50 1000
Length:  55708359

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   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   

This is table  125  of  182  ( 21729 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)
39899254--39899473	115	1.9	115	81	7	268	40	3	25	30	1.71
39900781--39900835	17	3.4	17	76	16	55	49	1	1	47	1.23
39900790--39900832	18	2.4	19	80	11	54	48	2	2	46	1.27
39900806--39900874	17	4.1	16	78	9	66	55	7	1	36	1.37
39902073--39902105	16	2.1	16	94	0	57	60	0	0	39	0.97
39908459--39908538	39	2.0	40	87	2	117	30	21	18	30	1.97
39909666--39909814	80	1.9	79	85	1	208	22	19	26	32	1.97
39912833--39913066	118	2.0	118	100	0	468	31	19	20	28	1.97
39913970--39914020	25	2.0	25	92	0	84	43	0	1	54	1.11
39930233--39930259	11	2.5	11	100	0	54	0	14	0	85	0.61
39930714--39930978	51	5.3	51	66	10	141	43	1	7	47	1.42
39930625--39931267	150	4.5	145	78	13	573	42	2	8	46	1.48
39930836--39930888	23	2.3	23	86	3	70	41	1	3	52	1.30
39930904--39930943	20	2.0	20	85	0	53	45	5	5	45	1.47
39930914--39930972	31	1.9	31	85	0	82	42	3	5	49	1.41
39931028--39931074	22	2.2	21	84	3	58	42	2	2	53	1.25
39931668--39931729	26	2.4	25	76	15	63	19	8	1	70	1.20
39933222--39933278	25	2.2	26	84	12	73	47	0	5	47	1.24
39934429--39934461	17	2.0	17	88	5	50	60	15	0	24	1.35
39934700--39934783	42	2.0	42	95	0	150	35	28	14	21	1.92
39937732--39937807	17	4.5	17	70	3	55	40	2	6	50	1.42
39939722--39939850	30	4.4	31	73	21	84	41	25	0	32	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39939731--39939922	29	6.7	28	73	16	117	36	26	0	36	1.61
39939761--39939941	58	3.1	57	85	7	231	34	27	1	36	1.67
39952060--39952701	202	3.2	199	88	1	933	36	20	21	21	1.95
39953028--39953103	17	4.5	17	73	3	64	40	1	6	51	1.36
39954996--39955058	31	2.0	31	85	11	85	46	15	4	33	1.67
39955025--39955106	29	2.8	29	80	9	87	37	23	3	35	1.72
39956777--39956805	15	1.9	15	100	0	58	75	10	6	6	1.17
39960596--39960634	18	2.2	18	95	0	69	56	10	12	20	1.65
39960686--39960739	25	2.2	25	87	9	76	61	0	31	7	1.24
39962503--39962542	21	2.0	20	85	5	53	37	5	2	55	1.35
39963987--39964040	19	2.8	19	83	11	65	72	1	1	24	1.05
39966503--39966562	29	2.1	29	81	12	70	55	8	6	30	1.55
39966819--39966885	30	2.2	30	84	5	82	44	1	8	44	1.44
39967953--39967996	23	1.9	23	85	0	61	43	20	0	36	1.52
39968705--39968924	79	2.8	79	82	1	244	31	24	20	24	1.98
39971562--39971639	39	2.0	40	84	2	104	28	20	16	34	1.94
39976312--39976392	40	2.0	40	90	0	126	29	20	18	30	1.97
39983297--39983335	13	3.0	13	85	10	53	25	5	0	69	1.09
39989184--39989221	20	2.0	20	89	5	60	50	7	2	39	1.46
39997312--39997363	6	8.3	6	76	16	52	73	0	15	11	1.11
39997312--39997351	18	2.2	18	90	0	62	77	0	12	10	0.99
39997313--39997363	24	2.0	26	92	7	88	72	0	15	11	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39997312--39997355	13	3.5	13	81	12	65	75	0	13	11	1.06
39999518--39999629	41	2.7	41	88	0	161	40	10	24	25	1.87
39999517--39999673	82	1.9	82	80	5	183	39	10	23	26	1.87
40000199--40000251	21	2.5	21	87	0	79	33	7	20	37	1.81
40003820--40003982	41	3.9	41	84	5	195	39	10	25	25	1.87
40010963--40011074	41	2.7	41	77	9	111	38	10	26	24	1.88
40017530--40017716	41	4.5	41	82	4	196	37	10	25	25	1.88
40017530--40017706	82	2.1	84	85	3	232	38	10	25	25	1.87
40018832--40018866	18	1.9	18	88	0	52	34	5	42	17	1.73
40018837--40018875	18	2.2	18	85	0	51	41	2	41	15	1.61
40020457--40020563	49	2.2	49	84	3	135	25	15	27	31	1.96
40023071--40023097	3	9.0	3	100	0	54	33	0	0	66	0.92
40023643--40023845	50	4.1	48	69	13	133	47	0	7	44	1.37
40023689--40023734	20	2.2	21	84	3	58	50	4	4	41	1.42
40023636--40023924	145	2.0	149	85	6	394	44	2	8	44	1.47
40024485--40024544	10	6.0	9	74	25	50	21	8	0	70	1.14
40025996--40026043	24	2.0	25	83	4	62	29	10	4	56	1.52
40026010--40026061	25	2.1	25	81	0	59	38	11	3	46	1.59
40026293--40026324	16	2.0	16	93	0	55	71	0	0	28	0.86
40035901--40035935	18	1.9	18	88	0	52	80	0	20	0	0.72
40036897--40037173	101	2.8	100	79	8	271	37	19	16	25	1.93
40037157--40037319	47	3.5	47	76	7	154	31	23	12	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40037215--40037325	46	2.4	46	75	7	111	30	25	13	30	1.94
40037318--40037901	45	12.9	45	76	8	411	31	24	16	27	1.96
40037372--40037481	54	2.0	54	83	0	139	28	27	11	32	1.92
40037327--40037526	99	2.0	99	85	3	269	30	26	13	30	1.94
40039368--40039416	21	2.2	21	85	7	62	24	2	6	67	1.24
40040253--40043835	894	4.0	894	94	1	5934	41	17	13	27	1.87
40048428--40048467	17	2.4	17	91	0	62	52	15	17	15	1.75
40058499--40058708	24	8.7	24	72	1	168	25	24	15	34	1.95
40058497--40058653	72	2.2	72	83	0	188	25	25	16	32	1.96
40059119--40059168	26	1.9	26	88	8	75	32	20	20	28	1.97
40059961--40059991	16	1.9	16	93	0	53	22	16	0	61	1.34
40062316--40062450	69	2.0	69	92	0	225	25	15	19	40	1.91
40062958--40062991	15	2.2	16	90	10	54	76	0	17	5	0.98
40063549--40063636	37	2.4	37	82	0	95	31	31	14	21	1.94
40063631--40063711	37	2.2	37	86	0	117	27	24	16	32	1.96
40064772--40064872	24	4.2	24	75	0	85	20	25	18	34	1.96
40070623--40070793	48	3.6	48	84	2	184	23	23	16	35	1.95
40070609--40070793	72	2.6	71	82	4	212	23	24	16	36	1.94
40070623--40070793	24	7.2	24	79	4	132	23	23	16	35	1.95
40071529--40071561	10	3.1	11	86	8	50	18	24	0	57	1.40
40075334--40075375	20	2.0	21	86	4	59	40	35	0	23	1.55
40094985--40095017	15	2.1	16	88	5	50	21	0	9	69	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40095131--40095171	19	2.1	20	86	4	57	56	12	12	19	1.67
40095505--40095623	58	2.1	58	86	0	166	33	0	15	50	1.45
40095528--40095638	58	1.9	58	85	3	152	32	0	17	50	1.46
40096891--40096957	33	2.0	33	100	0	134	28	32	11	26	1.92
40103006--40103044	15	2.4	16	87	8	53	35	0	0	64	0.94
40103966--40104005	20	1.9	22	90	10	66	35	0	5	60	1.19
40104771--40104823	27	1.9	28	96	3	99	56	1	0	41	1.10
40106913--40106955	2	22.0	2	95	4	79	51	0	0	48	1.00
40110056--40110096	20	2.1	19	86	9	55	34	7	14	43	1.73
40113373--40113398	2	13.0	2	100	0	52	50	0	0	50	1.00
40123669--40123744	22	3.4	22	83	5	91	48	0	28	22	1.51
40125400--40125424	12	2.1	12	100	0	50	8	40	0	52	1.31
40126262--40127092	414	2.0	416	96	0	1522	29	21	10	38	1.87
40134312--40134401	40	2.2	40	92	0	144	43	2	11	43	1.52
40141738--40141787	24	2.1	23	81	3	55	10	16	10	64	1.50
40144141--40144173	14	2.4	14	90	5	50	39	21	6	33	1.78
40144656--40144937	142	2.0	142	87	1	413	30	25	23	21	1.99
40145967--40146017	24	2.1	25	81	3	59	31	19	21	27	1.97
40147654--40147695	15	2.9	15	96	3	77	42	23	0	33	1.55
40154095--40154141	18	2.5	21	71	28	52	55	0	38	6	1.26
40156632--40156676	19	2.4	19	81	7	56	40	0	4	55	1.20
40157479--40157508	15	1.9	16	93	6	53	20	13	0	66	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40157478--40157534	21	2.7	21	78	10	62	15	10	1	71	1.21
40160259--40160284	6	4.3	6	100	0	52	15	0	0	84	0.62
40161844--40161888	19	2.4	18	81	7	54	40	0	2	57	1.11
40162629--40162658	15	1.9	16	93	6	53	20	13	0	66	1.24
40164661--40164720	29	2.1	29	80	0	66	33	16	5	45	1.69
40165988--40166666	23	29.3	23	84	3	871	33	4	13	47	1.64
40166746--40166857	36	3.1	36	88	2	172	32	12	20	34	1.90
40171210--40171239	16	1.9	16	93	6	53	66	3	0	30	1.07
40171230--40171277	17	2.6	19	77	12	55	60	0	2	37	1.09
40171537--40171605	11	6.6	11	76	18	60	52	0	1	46	1.09

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   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182