genome.fa.s11.2.7.7.80.10.50.1000.10.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: 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  10  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)
3068915--3068954	18	2.2	18	86	0	53	52	10	12	25	1.70
3069811--3069850	7	5.7	7	100	0	80	55	0	0	45	0.99
3077833--3077898	27	2.4	27	92	0	105	28	15	24	31	1.95
3077851--3077920	27	2.6	27	83	0	86	31	15	25	27	1.96
3107680--3107799	15	8.1	15	77	1	80	20	9	57	12	1.62
3107682--3107812	30	4.4	30	75	5	122	20	9	57	12	1.63
3107771--3107809	15	2.6	15	83	0	51	20	10	56	12	1.65
3115579--3115623	19	2.4	19	82	13	58	37	2	6	53	1.40
3115579--3115636	20	3.1	19	85	11	75	34	1	6	56	1.36
3116126--3116201	34	2.2	34	86	4	100	44	15	10	28	1.80
3116155--3116293	55	2.5	54	82	5	154	51	15	7	25	1.70
3116189--3116265	18	4.2	18	68	18	52	50	16	7	24	1.72
3116453--3116520	35	1.9	35	87	0	100	30	4	35	29	1.77
3117420--3117456	3	12.3	3	94	0	65	32	0	2	64	1.07
3123797--3123839	2	21.5	2	90	0	68	51	2	2	44	1.27
3124754--3124965	111	1.9	111	86	5	304	25	32	11	30	1.91
3129970--3130035	34	1.9	34	87	6	98	54	1	0	43	1.09
3129968--3130027	26	2.4	25	79	15	70	55	1	0	43	1.10
3129981--3130049	34	1.9	35	85	8	95	52	2	1	43	1.25
3133047--3133098	21	2.3	24	81	15	67	57	0	7	34	1.27
3135923--3135961	20	2.0	20	85	10	53	15	0	25	58	1.37
3139130--3139167	18	2.2	18	90	4	60	57	0	15	26	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3142304--3142340	19	1.9	19	94	0	65	59	0	0	40	0.97
3142315--3142347	11	2.8	12	86	9	50	60	0	0	39	0.97
3142304--3142366	31	2.0	31	87	6	92	53	0	0	46	1.00
3142303--3142358	9	5.7	10	74	17	55	55	0	0	44	0.99
3142760--3142791	16	2.1	16	94	5	57	59	0	0	40	0.97
3147653--3147707	19	2.8	19	83	10	58	52	1	0	45	1.11
3147658--3147734	10	7.6	10	72	27	56	59	2	0	37	1.11
3147670--3147730	21	2.9	21	81	11	72	60	3	0	36	1.13
3159629--3159655	2	13.5	2	100	0	54	0	48	0	51	1.00
3166385--3166422	20	1.9	20	84	10	51	36	18	0	44	1.50
3171371--3171622	125	2.0	123	89	1	387	31	16	14	36	1.89
3188508--3188596	38	2.3	38	84	5	108	28	4	21	46	1.71
3195551--3195588	7	5.6	7	81	6	51	15	0	36	47	1.46
3195551--3195594	20	2.1	21	87	4	63	15	0	38	45	1.47
3195551--3195616	14	4.9	13	73	10	53	16	1	36	45	1.57
3195549--3195623	34	2.2	34	79	9	82	21	1	33	44	1.61
3204493--3204524	15	2.0	17	88	11	50	43	21	6	28	1.77
3204689--3204714	13	2.0	13	100	0	52	38	0	15	46	1.46
3222487--3222541	16	3.6	16	70	9	51	27	5	5	61	1.40
3222489--3222555	30	2.3	30	84	2	82	29	4	4	61	1.36
3225488--3225519	10	3.2	10	90	0	55	40	3	0	56	1.15
3226449--3226482	8	4.0	8	85	14	50	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3226452--3226497	10	4.9	9	82	17	58	32	0	0	67	0.91
3226627--3226651	9	2.8	9	100	0	50	40	12	0	48	1.40
3228362--3228443	33	2.5	33	84	5	105	52	6	3	37	1.44
3228839--3228896	28	2.1	29	87	6	84	68	3	3	24	1.20
3228835--3228879	19	2.3	20	85	11	58	71	2	2	24	1.09
3238423--3238457	16	2.2	16	89	0	52	57	11	0	31	1.34
3238552--3238580	1	29.0	1	100	0	58	0	100	0	0	0.00
3239089--3239158	22	3.0	24	73	20	69	31	0	0	68	0.90
3239112--3239160	25	1.9	27	84	12	68	34	0	0	65	0.93
3244760--3244984	117	1.9	115	84	6	301	29	18	16	36	1.92
3248893--3248941	25	2.0	25	84	8	64	77	0	8	14	0.98
3249085--3249135	15	3.5	15	71	15	52	49	11	15	23	1.78
3251764--3251815	26	2.1	24	85	7	68	59	0	1	38	1.08
3257204--3257246	20	2.2	20	91	0	68	41	2	13	41	1.57
3264185--3264296	17	6.8	17	65	21	60	41	0	4	53	1.21
3264209--3264326	62	1.9	59	88	5	173	41	0	4	53	1.26
3284410--3284437	2	14.0	2	100	0	56	50	0	0	50	1.00
3284537--3284748	110	1.9	111	85	5	293	35	11	16	36	1.85
3291282--3291306	8	3.1	8	100	0	50	24	0	28	48	1.52
3302055--3302276	99	2.3	99	80	10	235	15	26	18	39	1.90
3301983--3302267	49	5.8	49	76	6	206	16	24	19	39	1.92
3317940--3317977	16	2.3	17	86	4	51	63	2	0	34	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3318186--3318268	30	2.8	29	78	8	96	59	9	2	28	1.42
3320151--3320245	6	16.8	6	66	20	53	41	1	5	52	1.31
3320151--3320231	17	4.8	17	78	0	90	40	1	6	51	1.35
3321942--3322179	29	8.1	30	72	13	115	33	24	6	35	1.82
3321965--3322057	30	3.1	31	81	10	104	31	23	4	40	1.74
3321942--3322206	29	9.1	29	69	16	97	33	25	6	35	1.80
3321985--3322207	87	2.6	86	80	7	211	33	24	6	36	1.80
3321964--3322172	58	3.6	58	76	11	162	33	23	6	36	1.81
3325152--3325388	119	2.0	119	92	0	393	24	16	29	29	1.96
3327108--3327146	21	1.9	20	84	5	51	56	0	0	43	0.99
3335086--3335118	2	17.0	2	93	6	59	51	0	0	48	1.00
3336266--3336305	21	1.9	21	89	0	62	42	10	2	45	1.51
3343994--3344023	13	2.4	13	94	5	53	73	0	10	16	1.09
3348025--3348095	29	2.4	29	97	0	133	50	15	11	22	1.75
3349265--3349294	11	2.7	11	89	0	51	0	3	26	70	1.03
3354852--3354908	19	3.1	18	85	9	78	35	1	1	61	1.17
3355934--3355988	29	2.0	26	86	10	74	25	3	0	70	1.03
3355939--3356011	26	2.7	26	76	4	65	30	2	1	65	1.15
3357178--3357258	29	2.7	30	82	3	92	27	9	7	55	1.59
3357283--3357332	25	2.0	24	81	11	57	26	10	6	58	1.54
3357753--3357806	18	2.8	19	81	8	65	57	0	0	42	0.98
3357751--3357806	13	4.5	13	80	4	62	57	0	0	42	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3357751--3357799	7	7.6	7	77	13	52	57	0	0	42	0.99
3357751--3357806	25	2.2	25	84	12	71	57	0	0	42	0.99
3358792--3358821	14	2.1	14	93	0	51	23	0	6	70	1.11
3363291--3363335	22	2.2	22	88	11	69	51	6	0	42	1.28
3377433--3377478	2	23.0	2	100	0	92	50	0	0	50	1.00
3380376--3380498	32	3.5	33	74	23	110	40	0	2	56	1.12
3380455--3380497	22	2.0	22	81	9	52	41	0	0	58	0.98
3380821--3380867	22	2.1	23	84	11	71	2	27	0	70	0.99
3380947--3380971	11	2.3	11	100	0	50	8	16	0	76	1.02
3381054--3381110	30	1.9	30	86	13	82	49	1	0	49	1.11
3382999--3383031	17	2.0	17	88	5	50	42	0	0	57	0.98
3386533--3386574	13	3.1	14	80	10	52	33	4	2	59	1.31
3389944--3389977	17	2.0	17	100	0	68	41	11	23	23	1.87
3390199--3390263	31	2.1	31	91	0	103	32	15	9	43	1.78
3391878--3391916	21	1.9	21	84	5	53	23	28	0	48	1.51
3394778--3394849	31	2.3	31	90	0	108	27	19	9	43	1.82
3399560--3399666	50	2.1	50	84	3	135	34	18	24	22	1.96
3399746--3400309	40	14.3	40	74	13	246	32	23	17	27	1.97
3399744--3400370	80	7.9	79	78	9	475	31	23	17	27	1.97
3399717--3400370	120	5.5	120	72	11	406	31	24	17	27	1.97
3399787--3400370	79	7.4	79	79	8	537	31	23	17	27	1.97
3399787--3400370	157	3.7	156	80	7	551	31	23	17	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3400643--3400812	63	2.7	63	83	9	215	43	0	4	51	1.25
3406927--3406990	31	2.1	30	85	5	85	32	3	14	50	1.58
3406948--3407007	29	2.1	29	81	6	68	31	1	11	55	1.46
3407640--3407890	82	3.1	82	99	0	493	33	24	17	24	1.96
3408596--3408817	111	2.0	108	97	2	417	16	29	10	42	1.82
3411926--3411964	14	2.8	13	85	11	51	69	17	2	10	1.28
3416484--3416525	21	1.9	22	85	9	59	38	2	0	59	1.10
3422844--3422914	17	4.1	17	80	18	67	42	2	1	53	1.24
3422832--3422923	6	15.2	6	78	14	91	42	2	2	53	1.25
3423605--3423655	22	2.5	20	82	14	68	43	1	5	49	1.38

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