genome.fa.s9.2.7.7.80.10.50.1000.10.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  10  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)
3830631--3830660	3	10.0	3	100	0	60	66	0	0	33	0.92
3831074--3831098	2	12.5	2	100	0	50	48	0	0	52	1.00
3831337--3831378	19	2.2	19	83	8	50	52	4	0	42	1.22
3850298--3850495	97	2.0	97	99	0	387	34	16	19	30	1.93
3862278--3862303	2	13.0	2	100	0	52	50	0	0	50	1.00
3871816--3871853	20	1.9	20	84	10	51	23	0	10	65	1.23
3874136--3874172	18	2.0	20	89	10	60	37	2	0	59	1.12
3890751--3890803	25	2.2	25	83	10	65	26	0	7	66	1.18
3894272--3894330	24	2.5	23	83	8	66	38	16	10	33	1.83
3895280--3895323	2	22.0	2	100	0	88	50	0	50	0	1.00
3897186--3897241	29	1.9	29	82	7	69	41	1	7	50	1.40
3897743--3897786	16	2.6	18	82	17	58	34	0	0	65	0.93
3898547--3898579	17	2.0	17	88	5	50	51	15	6	27	1.66
3901000--3901057	18	3.2	18	76	9	55	41	37	8	12	1.73
3901039--3901095	27	2.1	27	96	0	105	36	36	14	12	1.83
3901276--3901307	15	2.1	15	100	0	64	34	46	12	6	1.67
3904349--3904491	58	2.5	56	82	7	164	56	8	9	25	1.58
3906119--3906150	2	16.0	2	93	0	55	46	3	0	50	1.17
3909182--3909236	24	2.4	22	75	19	58	25	9	5	60	1.49
3909978--3910028	21	2.4	21	96	0	93	56	11	21	9	1.63
3916596--3916626	2	15.5	2	100	0	62	51	48	0	0	1.00
3920046--3920103	24	2.4	25	85	8	84	51	3	8	36	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3929412--3929472	31	2.0	31	87	3	88	42	21	9	26	1.84
3929563--3929634	30	2.4	31	88	6	103	47	15	13	23	1.81
3930871--3930942	30	2.4	31	81	6	85	20	12	18	48	1.80
3951450--3951488	19	2.0	20	85	14	55	58	10	7	23	1.56
3953093--3953126	15	2.1	17	89	10	54	64	2	0	32	1.08
3954048--3954149	50	2.0	52	88	5	154	50	10	7	30	1.65
3954450--3954488	19	2.1	19	100	0	78	28	20	41	10	1.85
3960718--3960848	65	2.0	65	98	0	253	29	14	21	34	1.93
3962543--3962596	21	2.6	21	80	8	65	64	1	3	29	1.21
3962973--3963032	10	5.8	10	79	11	50	68	0	1	30	0.99
3974331--3974381	17	3.0	17	85	0	75	60	0	0	39	0.97
3974520--3974566	24	1.9	24	86	4	67	42	2	2	53	1.25
3975414--3975478	32	2.0	32	82	5	78	24	12	9	53	1.67
3981272--3981301	3	10.0	3	92	0	51	63	0	3	33	1.11
3990604--3990644	16	2.5	17	80	11	59	31	0	0	68	0.90
3990604--3990653	24	2.1	24	81	7	57	36	0	0	64	0.94
4001546--4001588	23	2.0	20	82	13	50	27	4	18	48	1.68
4005051--4005103	23	2.2	24	83	9	65	45	0	3	50	1.19
4009380--4009461	13	6.6	12	74	16	60	51	1	1	46	1.16
4012580--4012661	13	6.6	12	74	16	60	51	1	1	46	1.16
4014576--4014609	10	3.4	10	92	8	52	79	0	0	20	0.73
4014896--4014950	25	2.4	23	75	16	60	60	5	0	34	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4016071--4016173	51	2.0	51	83	7	129	26	20	22	31	1.98
4021242--4021282	17	2.5	17	88	4	57	41	0	0	58	0.98
4023104--4023149	23	2.0	23	100	0	92	17	26	26	30	1.97
4026099--4026129	2	15.5	2	93	0	53	51	45	0	3	1.17
4047520--4047552	17	1.9	17	93	0	57	33	3	9	54	1.47
4065863--4066174	88	3.5	88	98	0	597	22	16	14	46	1.83
4068296--4068357	31	2.0	31	81	6	72	35	12	22	29	1.91
4071535--4071568	17	2.0	17	100	0	68	52	0	11	35	1.38
4083643--4083706	15	4.2	15	78	4	56	60	0	3	35	1.12
4083655--4083706	23	2.3	23	86	0	77	59	0	1	38	1.08
4102191--4102241	20	2.5	20	80	3	57	54	1	0	43	1.11
4102262--4102306	23	1.9	24	90	4	74	35	15	0	48	1.45
4102263--4102312	23	2.2	23	82	7	57	40	14	2	44	1.56
4103543--4103584	18	2.4	18	84	11	52	76	2	21	0	0.90
4110906--4110941	2	18.0	2	88	11	56	47	0	2	50	1.15
4118556--4118744	94	2.0	94	95	0	342	34	13	24	26	1.93
4118952--4118983	2	16.5	2	93	6	57	50	0	0	50	1.00
4122361--4122401	21	2.0	21	95	0	73	58	0	0	41	0.98
4123884--4123928	15	3.1	15	83	6	65	66	0	4	28	1.11
4124995--4125078	42	2.0	42	90	4	134	29	0	22	47	1.52
4125236--4125264	9	3.2	9	100	0	58	31	10	10	48	1.71
4125363--4125398	13	2.6	14	86	4	56	22	8	11	58	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4134146--4134200	21	2.6	21	83	13	69	61	1	0	36	1.06
4134146--4134221	21	3.6	20	79	10	62	65	1	0	32	1.01
4137694--4137753	31	1.9	31	93	0	102	65	3	11	20	1.39
4141038--4141072	17	2.1	17	94	0	61	62	0	5	31	1.18
4144993--4145454	233	2.0	232	94	0	807	30	16	16	36	1.90
4152295--4152452	79	2.0	79	98	0	307	32	18	13	35	1.90
4155887--4155930	22	2.0	22	95	0	79	61	15	4	18	1.50
4155889--4155946	22	2.6	22	86	2	71	65	10	5	18	1.41
4158820--4158844	7	3.6	7	100	0	50	24	0	0	76	0.80
4160765--4160812	15	2.9	17	79	20	57	35	0	2	62	1.07
4162163--4162195	4	8.2	4	93	0	57	72	0	0	27	0.85
4163213--4163291	42	1.9	41	87	7	115	39	0	3	56	1.17
4163298--4163336	15	2.4	16	87	8	53	61	0	2	35	1.10
4165409--4165452	2	22.0	2	100	0	88	50	0	0	50	1.00
4165787--4165931	23	6.5	23	68	19	101	43	18	24	13	1.86
4165793--4165867	39	1.9	39	88	0	114	44	18	24	13	1.85
4172745--4172770	7	3.7	7	100	0	52	15	26	26	30	1.96
4189799--4189845	25	2.0	23	87	8	67	59	4	2	34	1.29
4190002--4190026	8	3.1	8	100	0	50	24	40	0	36	1.55
4204421--4204456	15	2.2	17	90	9	58	75	0	0	25	0.81
4209891--4210221	91	3.8	86	87	5	468	52	4	5	37	1.45
4210352--4210402	12	3.9	12	76	18	57	41	5	0	52	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4210360--4210396	17	2.2	16	90	4	56	45	8	0	45	1.32
4210352--4210409	28	2.1	28	83	0	71	43	8	0	48	1.34
4212500--4212830	58	5.7	57	80	7	353	33	16	19	29	1.94
4212521--4212817	117	2.6	115	85	6	377	34	16	20	27	1.95
4214726--4214774	20	2.5	20	81	12	57	40	4	4	51	1.40
4217597--4217633	18	2.1	18	89	0	56	32	21	0	45	1.52
4227837--4227886	9	4.6	11	77	20	52	36	0	0	64	0.94
4227847--4227894	22	2.5	17	78	21	51	35	0	0	64	0.94
4227861--4227887	13	2.1	13	100	0	54	37	0	0	62	0.95
4227843--4227883	22	1.9	21	90	5	64	39	0	0	60	0.96
4227868--4227920	27	2.0	27	85	7	72	32	0	1	66	1.03
4231872--4231962	45	2.0	45	95	0	164	31	7	20	39	1.81
4238354--4238387	11	3.0	11	91	8	59	29	0	0	70	0.87
4240034--4240225	44	4.4	44	93	0	321	36	2	20	40	1.65
4240034--4240238	88	2.3	88	93	0	356	36	2	20	41	1.65
4244729--4244827	52	1.9	52	87	4	146	35	23	14	27	1.93
4245765--4245849	29	2.9	30	82	5	111	63	4	3	28	1.31
4247264--4247290	8	3.4	8	100	0	54	22	33	14	29	1.94
4247536--4247600	20	3.4	19	75	8	53	26	4	3	66	1.26
4247565--4247656	43	2.1	43	84	4	114	32	5	3	58	1.37
4247609--4247669	30	2.1	30	81	9	72	36	8	3	52	1.48
4248802--4248860	30	2.0	30	100	0	118	28	3	6	61	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4249305--4249501	56	3.6	57	80	11	180	41	17	15	25	1.88
4249305--4249444	57	2.5	55	86	5	174	43	18	14	23	1.87
4249325--4249499	57	3.2	53	81	10	144	42	16	14	26	1.86
4249392--4249499	52	2.1	52	82	6	130	41	16	15	25	1.88
4250698--4250794	3	34.7	3	68	17	57	27	1	5	65	1.20
4250698--4250751	22	2.5	22	85	11	83	27	1	3	66	1.19
4250698--4250760	22	2.9	21	81	13	65	28	1	4	65	1.22
4257261--4257369	52	2.1	52	91	0	173	41	4	9	44	1.57
4257510--4257643	67	2.0	67	91	0	214	35	14	26	23	1.93
4257839--4257936	29	3.1	30	85	10	117	38	3	1	57	1.21

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