genome.fa.s196.2.7.7.80.10.50.1000.20.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: Scaffold196
Parameters: 2 7 7 80 10 50 1000
Length:  7488280

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   

This is table  20  of  47  ( 5587 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)
2966621--2966686	10	6.6	10	78	5	71	25	0	3	71	1.01
2976482--2976612	66	2.0	66	93	0	226	24	11	28	35	1.90
2982973--2983013	21	2.0	21	85	9	57	41	7	7	43	1.60
2983295--2983347	20	2.7	20	96	0	97	35	11	15	37	1.83
2983534--2983606	34	2.1	35	82	7	87	17	16	10	54	1.70
2985242--2985306	33	2.0	33	90	6	105	35	18	12	33	1.88
2985262--2985286	13	1.9	13	100	0	50	32	16	16	36	1.90
2986164--2986201	18	2.2	18	85	4	51	60	10	10	18	1.57
2991354--2991379	13	2.0	13	100	0	52	38	15	15	30	1.88
2991336--2991400	32	2.0	32	87	6	94	43	15	13	27	1.85
2995447--2995477	15	2.1	15	93	0	53	48	16	22	12	1.80
2997550--2997574	13	1.9	13	100	0	50	36	16	16	32	1.90
3000133--3000158	13	2.0	13	100	0	52	38	15	15	30	1.88
3004830--3005026	79	2.5	79	79	11	224	36	15	22	26	1.93
3005038--3005150	51	2.2	51	82	6	140	35	9	21	33	1.86
3005086--3005368	109	2.6	108	80	4	313	34	13	22	28	1.92
3005302--3005447	51	2.9	51	83	0	193	33	10	24	30	1.90
3007807--3007860	20	2.7	20	91	5	83	42	14	16	25	1.87
3007876--3007905	13	2.3	13	94	0	51	40	10	20	30	1.85
3007887--3007943	20	2.8	20	83	0	78	47	10	14	28	1.76
3008684--3008830	42	3.4	43	78	13	176	38	12	27	21	1.90
3008876--3008930	28	1.9	29	85	3	76	21	27	27	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3008904--3009140	94	2.5	94	86	4	307	32	18	25	24	1.97
3009079--3009235	61	2.6	61	85	2	217	29	19	26	24	1.99
3010209--3010265	24	2.4	24	85	5	71	3	1	8	85	0.77
3022605--3022833	79	2.9	78	75	7	221	32	16	26	25	1.96
3022777--3022935	51	3.1	51	81	7	153	33	14	23	28	1.94
3022923--3022991	28	2.4	28	85	2	84	30	21	24	23	1.99
3023027--3023098	28	2.6	28	86	4	92	27	19	29	23	1.98
3023107--3023230	51	2.4	51	79	2	160	37	10	21	29	1.87
3023658--3023781	51	2.4	51	79	0	158	37	10	21	29	1.87
3026096--3026170	20	3.8	19	79	12	80	41	13	14	30	1.84
3026185--3026214	13	2.3	13	100	0	60	40	13	16	30	1.87
3027584--3027622	20	2.0	19	85	5	51	35	23	7	33	1.83
3027646--3027696	21	2.5	21	81	9	61	39	17	15	27	1.90
3027756--3027781	13	2.0	13	100	0	52	38	15	15	30	1.88
3027738--3027801	33	2.0	33	87	9	96	39	18	14	28	1.90
3030578--3030603	13	2.0	13	100	0	52	38	15	15	30	1.88
3030560--3030623	32	2.0	33	87	3	94	42	14	14	29	1.84
3034902--3034932	8	3.8	8	95	4	53	12	0	25	61	1.32
3035131--3035168	13	2.9	13	88	0	58	31	5	18	44	1.72
3037362--3037402	21	2.0	21	85	9	57	63	9	2	24	1.37
3037752--3037777	13	2.0	13	100	0	52	38	15	15	30	1.88
3037734--3037795	33	1.9	33	87	9	92	37	19	14	29	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3044904--3044957	17	2.8	20	78	16	69	42	12	7	37	1.72
3047759--3048236	160	3.0	159	79	6	424	38	20	17	23	1.93
3049260--3049740	165	2.9	162	78	10	469	32	11	8	48	1.69
3050201--3050276	20	3.8	20	87	0	116	38	13	11	36	1.81
3054187--3054239	20	2.7	20	79	5	63	39	18	13	28	1.88
3054228--3054266	20	1.9	21	94	5	71	28	15	15	41	1.87
3054540--3054569	14	2.1	15	93	6	53	33	3	0	63	1.11
3054870--3054914	12	3.6	12	79	8	54	77	0	22	0	0.76
3054873--3054920	16	3.2	15	80	8	53	81	0	18	0	0.70
3056918--3057282	158	2.3	156	80	3	403	26	17	17	38	1.92
3057181--3057753	156	3.7	153	75	9	486	27	17	16	38	1.91
3057079--3057864	309	2.5	308	79	5	843	26	17	17	38	1.92
3057267--3057960	309	2.2	309	81	5	742	27	17	17	38	1.91
3057337--3057943	154	3.9	152	74	9	458	26	18	16	38	1.92
3058215--3058336	34	3.5	34	84	6	138	31	24	12	31	1.92
3058237--3058339	34	3.0	35	85	5	147	29	27	10	33	1.90
3058856--3058907	20	2.6	20	87	0	77	34	13	15	36	1.87
3063470--3063562	34	2.7	36	78	9	95	31	25	9	33	1.88
3063470--3063565	35	2.8	35	76	9	99	30	27	9	33	1.88
3066854--3066911	8	7.1	8	81	11	57	1	15	0	82	0.74
3066854--3066909	10	5.6	10	83	6	69	1	16	0	82	0.76
3066856--3066912	9	5.3	12	71	26	56	1	17	0	80	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3066854--3066909	21	2.8	20	91	5	94	1	16	0	82	0.76
3067550--3067852	165	1.8	166	86	7	445	53	7	8	30	1.59
3067531--3067947	165	2.5	165	80	8	379	52	6	10	30	1.62
3067937--3067975	17	2.3	17	100	0	78	35	0	25	38	1.56
3070684--3070768	36	2.4	37	81	13	108	31	23	10	34	1.89
3070671--3070768	34	2.8	34	80	13	103	29	23	10	36	1.88
3071204--3071241	20	1.9	20	94	0	67	39	10	10	39	1.74
3071341--3071404	33	2.0	32	84	3	83	40	14	17	28	1.88
3072264--3072331	32	2.1	32	91	0	109	33	11	17	36	1.86
3072283--3072307	13	1.9	13	100	0	50	36	16	16	32	1.90
3072357--3072437	13	7.1	12	71	28	70	35	17	12	34	1.87
3072358--3072437	34	2.4	34	100	0	160	35	17	12	35	1.88
3073302--3073340	20	1.9	21	94	5	71	30	10	12	46	1.75
3073394--3073419	13	2.0	13	100	0	52	30	15	15	38	1.88
3074127--3074170	21	2.1	21	83	8	54	25	31	4	38	1.76
3075964--3076002	13	3.0	13	100	0	78	38	15	15	30	1.88
3078073--3078102	15	2.0	15	93	0	51	13	20	16	50	1.78
3079915--3079959	21	2.1	21	88	8	65	22	17	4	55	1.60
3082077--3082115	20	1.9	21	94	5	71	30	10	12	46	1.75
3082169--3082194	13	2.0	13	100	0	52	30	15	15	38	1.88
3087861--3087905	22	2.1	21	83	4	54	37	0	4	57	1.19
3088374--3088426	2	26.5	2	100	0	106	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3088978--3089047	19	3.7	19	70	9	54	1	8	8	81	0.94
3088976--3089030	19	2.9	19	82	10	60	1	9	7	81	0.93
3089003--3089055	25	2.1	25	82	6	63	5	9	11	73	1.24
3091361--3091397	2	18.5	2	100	0	74	51	0	48	0	1.00
3092022--3092057	2	18.0	2	94	0	63	52	0	47	0	1.00
3098184--3098221	18	2.1	19	90	5	60	18	0	28	52	1.45
3098523--3098561	20	1.9	20	85	15	53	33	2	5	58	1.33
3099659--3099704	23	2.0	23	83	8	58	54	0	0	45	0.99
3099811--3099878	32	2.1	32	83	0	82	45	7	1	45	1.40
3100267--3100304	19	2.0	20	89	5	60	81	0	13	5	0.85
3101764--3101806	22	2.0	22	90	9	70	48	6	4	39	1.51
3102807--3103282	79	6.1	78	78	4	404	36	11	23	28	1.90
3102807--3103283	158	3.0	156	80	6	484	36	11	23	28	1.90
3110820--3110845	13	2.0	13	100	0	52	38	15	15	30	1.88
3113061--3113105	21	2.1	21	84	8	56	53	4	20	22	1.63
3117015--3117040	13	2.0	13	100	0	52	30	15	15	38	1.88
3117161--3117206	21	2.2	20	81	11	58	32	19	4	43	1.71
3119584--3119609	13	2.0	13	100	0	52	38	15	15	30	1.88
3121894--3121936	21	2.0	21	90	0	68	13	2	27	55	1.51
3122793--3122818	13	2.0	13	100	0	52	30	15	15	38	1.88
3122807--3122954	51	2.9	51	89	2	215	33	19	17	29	1.95
3127527--3127552	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3127509--3127572	32	2.0	33	90	3	103	39	18	14	28	1.90
3129769--3129813	21	2.1	21	84	8	56	53	4	20	22	1.63
3131617--3131647	15	2.1	15	93	0	53	48	16	22	12	1.80
3136291--3136316	13	2.0	13	100	0	52	38	15	15	30	1.88
3136273--3136336	32	2.0	33	90	3	103	39	18	14	28	1.90
3137449--3137474	13	2.0	13	100	0	52	30	0	15	53	1.42
3138061--3138103	22	2.0	22	90	9	70	44	4	9	41	1.57
3140481--3140549	35	2.0	35	91	0	111	50	14	24	10	1.73
3142055--3142235	97	1.9	96	83	4	238	30	25	9	33	1.89
3142050--3142256	97	2.1	96	80	5	229	32	26	9	31	1.88

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