genome.fa.s7.2.7.7.80.10.50.1000.21.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: CP032251.1 Gossypioides kirkii chromosome KI_09
Parameters: 2 7 7 80 10 50 1000
Length:  38743931

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   

This is table  21  of  144  ( 17169 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)
5276118--5276487	59	6.3	59	90	1	530	33	28	2	35	1.72
5276118--5276492	176	2.1	177	89	3	569	32	28	3	35	1.73
5280907--5281069	30	5.5	30	72	16	108	34	20	4	40	1.72
5280907--5281069	60	2.8	60	74	17	153	34	20	4	40	1.72
5280996--5281065	28	2.4	28	83	9	79	38	24	2	34	1.70
5282005--5282035	14	2.2	14	94	0	53	48	12	9	29	1.73
5288346--5288402	30	1.9	30	88	0	87	38	14	21	26	1.91
5290389--5290481	24	3.8	24	79	9	100	34	25	18	21	1.96
5291621--5291662	20	2.2	19	83	12	50	38	16	2	42	1.61
5293484--5293538	28	2.0	28	85	0	74	20	18	14	47	1.83
5303652--5303699	24	2.0	24	95	0	87	27	16	10	45	1.80
5308982--5309014	16	2.0	17	88	5	50	42	9	0	48	1.35
5311228--5311286	3	19.7	3	96	0	109	32	1	0	66	1.02
5311358--5311403	25	1.9	23	86	8	65	34	4	4	56	1.39
5315558--5315753	98	2.0	98	97	0	374	22	16	27	33	1.95
5319096--5319193	49	2.0	49	100	0	196	20	8	24	46	1.77
5326661--5326781	57	2.1	59	93	3	210	37	0	15	47	1.46
5331725--5331851	63	2.0	63	100	0	254	29	7	22	39	1.83
5334763--5334842	35	2.3	34	80	6	90	23	17	25	33	1.96
5336388--5336545	81	2.1	75	85	9	212	14	8	17	59	1.60
5336889--5336968	31	2.6	31	80	7	81	23	35	20	21	1.96
5346293--5346358	8	7.8	8	76	21	55	69	1	3	25	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5346293--5346347	9	6.2	9	75	24	55	72	1	1	23	1.04
5346293--5346359	17	3.8	18	75	23	63	68	1	2	26	1.12
5346299--5346355	27	2.1	27	90	0	87	71	1	3	22	1.10
5349894--5349974	2	42.5	2	74	18	57	48	2	2	46	1.28
5349866--5349927	22	2.7	22	78	14	63	56	0	3	40	1.15
5349883--5349916	14	2.4	14	90	0	50	55	0	2	41	1.15
5350503--5350570	10	7.4	9	73	15	50	66	4	1	27	1.20
5350760--5350830	19	3.6	20	73	9	65	32	8	0	59	1.28
5350869--5350919	18	2.7	19	84	6	77	37	3	3	54	1.37
5350917--5350989	30	2.5	28	81	14	78	35	1	5	57	1.30
5351080--5351277	85	2.3	82	81	8	202	33	11	18	36	1.86
5361610--5361643	16	2.1	16	94	0	59	44	0	5	50	1.26
5363855--5363889	18	2.0	18	88	5	54	48	0	0	51	1.00
5363858--5363895	14	2.5	15	87	12	51	47	0	2	50	1.15
5364017--5364062	15	3.1	15	70	17	51	54	13	8	23	1.66
5365200--5365286	20	4.2	20	81	11	97	57	3	0	39	1.16
5365208--5365264	19	3.0	20	87	7	82	57	1	0	40	1.09
5365200--5365276	19	4.1	19	83	6	77	58	3	0	37	1.17
5365426--5365456	16	1.9	16	93	0	53	38	6	6	48	1.55
5369812--5369846	18	1.9	18	88	11	54	40	2	8	48	1.49
5375090--5375196	6	18.2	6	71	11	87	41	0	0	57	1.12
5375090--5375196	18	6.4	17	78	16	125	41	0	0	57	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5375089--5375176	30	3.0	29	86	5	122	38	0	1	60	1.04
5377011--5377242	29	8.0	29	73	14	165	37	28	1	32	1.66
5377020--5377241	58	3.8	59	85	5	242	37	29	1	31	1.66
5379999--5380103	24	4.7	22	71	14	74	67	20	3	8	1.33
5380013--5380106	12	8.1	12	75	7	77	68	19	4	8	1.33
5380032--5380148	33	3.5	33	75	10	92	66	19	6	6	1.38
5380064--5380148	12	7.3	12	75	10	52	64	21	7	7	1.42
5380015--5380115	24	4.3	24	74	14	86	66	20	4	7	1.37
5380510--5380878	167	2.2	170	80	6	390	34	8	9	47	1.66
5382303--5382385	6	14.2	6	73	14	75	43	1	2	53	1.21
5382293--5382385	18	5.4	17	82	6	116	43	1	2	53	1.19
5382293--5382385	35	2.7	34	82	11	109	43	1	2	53	1.19
5382303--5382366	24	2.7	26	83	13	84	42	0	3	54	1.16
5384189--5384416	28	8.0	27	72	16	140	35	28	2	33	1.71
5384198--5384359	28	5.7	26	77	13	144	35	30	1	32	1.66
5384198--5384430	58	4.1	57	80	7	208	35	28	3	32	1.74
5384311--5384487	58	3.1	57	79	10	155	33	28	7	31	1.84
5384369--5384470	29	3.4	29	69	16	75	32	25	7	34	1.85
5387190--5387332	12	11.9	12	78	8	112	67	20	5	6	1.34
5387192--5387355	24	7.0	24	76	11	108	65	21	6	6	1.38
5387701--5387779	25	3.3	25	79	13	112	32	13	6	46	1.69
5387690--5387799	25	4.8	22	72	16	89	33	11	5	49	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5387690--5387799	46	2.4	46	93	1	184	33	11	5	49	1.63
5390141--5390240	26	3.8	26	83	0	110	42	8	18	32	1.79
5390379--5390441	6	11.0	6	72	16	53	41	0	3	55	1.16
5390373--5390441	17	4.1	17	87	5	104	40	0	2	56	1.14
5391098--5391135	18	2.1	19	95	5	69	60	0	0	39	0.97
5391098--5391133	10	3.8	10	85	14	58	61	0	0	38	0.96
5391456--5391494	21	1.9	21	89	5	62	41	12	15	30	1.85
5392166--5392346	60	3.0	60	79	4	163	33	24	5	36	1.79
5392269--5392369	29	3.5	28	83	5	94	37	23	3	34	1.74
5392204--5392434	30	7.8	30	79	7	206	33	24	5	36	1.78
5392386--5392458	28	2.5	30	82	12	82	39	26	2	31	1.70
5392269--5392461	88	2.2	87	80	12	209	35	25	5	33	1.78
5397620--5397705	4	21.8	4	76	19	65	79	0	17	3	0.88
5397636--5397738	13	7.9	13	77	14	90	77	0	20	1	0.86
5397636--5397740	26	4.0	26	74	16	101	77	0	20	1	0.87
5397639--5397740	34	3.1	32	70	18	59	76	0	21	1	0.88
5397639--5397742	36	2.6	38	76	20	106	75	0	22	1	0.89
5398678--5398949	50	5.5	50	77	6	264	33	16	33	16	1.92
5398664--5398967	99	3.1	99	78	6	319	34	17	31	16	1.92
5398686--5399012	100	3.3	99	76	8	297	34	18	31	16	1.93
5399076--5399134	17	3.5	17	88	0	91	37	0	3	59	1.14
5399082--5399169	6	16.0	6	71	17	57	38	0	5	55	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5399076--5399169	17	6.1	16	70	19	74	38	0	5	56	1.22
5399821--5399858	18	2.1	19	95	5	69	60	0	0	39	0.97
5399821--5399856	10	3.8	10	85	14	58	61	0	0	38	0.96
5401111--5401706	50	11.9	50	72	9	421	35	16	31	15	1.91
5401304--5401686	151	2.5	151	81	5	427	37	16	30	15	1.90
5401970--5402156	39	4.8	39	70	13	109	24	33	18	24	1.97
5401943--5402286	117	2.9	116	76	5	273	24	31	19	24	1.98
5402142--5402285	39	3.7	39	81	1	137	27	29	19	24	1.98
5402502--5402734	124	1.9	124	91	1	387	37	19	20	22	1.94
5402600--5403208	206	2.9	209	90	1	956	36	18	22	22	1.95
5403583--5403659	17	4.5	17	78	3	91	41	2	1	54	1.22
5403589--5403694	6	19.0	6	70	18	68	41	1	3	52	1.30
5403583--5403694	16	7.1	16	69	18	74	41	1	3	53	1.29
5404352--5404389	18	2.1	19	95	5	69	60	0	0	39	0.97
5404352--5404387	10	3.8	10	85	14	58	61	0	0	38	0.96
5405435--5405594	30	5.4	30	81	6	184	33	22	3	40	1.72
5405435--5405621	29	6.3	29	77	10	157	33	24	4	37	1.76
5405417--5405621	59	3.5	57	77	9	189	34	23	5	36	1.78
5405571--5405637	29	2.3	29	82	5	82	32	32	8	25	1.87
5407732--5407810	38	2.1	38	95	0	140	29	17	27	25	1.98
5410625--5410651	2	13.5	2	100	0	54	48	0	0	51	1.00
5415088--5415140	27	2.0	27	96	0	97	37	32	5	24	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5416384--5416457	6	11.7	6	77	18	71	17	0	4	78	0.90
5416385--5416532	13	11.0	13	72	16	58	26	2	2	68	1.16
5416479--5416520	3	13.7	3	85	14	59	30	2	0	66	1.04
5418152--5418354	109	1.9	109	85	2	282	41	16	10	31	1.83
5420298--5421045	99	7.8	100	72	11	431	24	21	18	35	1.95
5420511--5421026	93	5.4	93	72	8	365	25	22	17	34	1.95
5420413--5421045	192	3.3	192	85	1	795	25	21	17	35	1.95
5421121--5421235	42	2.7	42	76	12	112	18	24	14	42	1.88
5421246--5421581	49	6.9	49	85	1	404	20	25	15	38	1.92
5422563--5422610	16	3.1	15	80	11	53	0	18	0	81	0.70

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