genome.fa.s7.2.7.7.80.10.50.1000.17.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: Scaffold7
Parameters: 2 7 7 80 10 50 1000
Length:  6555642

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   

This is table  17  of  37  ( 4421 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)
3037165--3037237	20	3.7	20	81	7	78	41	15	13	30	1.85
3037790--3037831	19	2.1	21	86	8	61	38	19	4	38	1.73
3037808--3037893	31	2.8	31	89	3	122	33	22	9	34	1.86
3039582--3039631	21	2.4	21	83	9	59	48	0	20	32	1.50
3039589--3039631	21	2.0	22	86	4	61	51	0	20	27	1.48
3039807--3039852	20	2.3	20	92	0	74	34	21	8	34	1.84
3040465--3040580	51	2.3	51	90	0	178	30	16	12	41	1.84
3040547--3040618	20	3.8	19	80	10	67	38	11	11	38	1.76
3045414--3045486	20	3.7	19	87	7	85	28	15	17	38	1.90
3045515--3045568	20	2.7	20	82	5	65	33	11	18	37	1.86
3047791--3047833	21	2.1	20	83	12	52	53	6	13	25	1.65
3047791--3047833	20	2.1	21	83	12	54	53	6	13	25	1.65
3053586--3053627	22	1.9	22	95	0	75	38	4	35	21	1.75
3054125--3054256	66	2.0	66	96	0	246	32	15	18	34	1.92
3054286--3054312	13	2.1	13	100	0	54	29	14	14	40	1.86
3054298--3054353	19	2.9	19	86	5	76	32	12	17	37	1.88
3054298--3054352	20	2.8	20	88	2	76	30	12	18	38	1.88
3054385--3054447	20	3.5	20	68	28	68	34	17	17	30	1.93
3054397--3054482	13	7.5	13	67	28	61	33	15	17	33	1.91
3054385--3054482	33	3.0	33	90	3	153	33	15	18	32	1.92
3059796--3059820	13	1.9	13	100	0	50	32	16	16	36	1.90
3059776--3059840	33	2.0	33	85	11	89	33	18	13	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3059870--3059925	19	2.9	19	86	2	76	39	17	12	30	1.87
3062677--3062741	33	2.0	33	84	6	87	33	26	12	27	1.92
3063449--3063554	20	4.8	20	73	25	88	30	19	8	41	1.81
3063428--3063541	51	2.2	51	92	0	201	26	23	8	41	1.83
3065471--3065508	20	1.9	20	94	0	67	31	21	10	36	1.87
3072707--3072743	13	2.8	13	91	0	56	32	16	16	35	1.91
3074362--3074397	16	2.2	16	90	0	54	13	16	11	58	1.63
3074590--3074633	22	2.0	22	86	8	63	50	0	15	34	1.45
3075302--3075364	32	1.9	33	87	9	94	30	19	14	36	1.91
3075430--3075457	13	2.2	13	100	0	56	32	14	14	39	1.86
3076357--3076404	6	7.8	6	77	13	53	83	2	14	0	0.74
3076356--3076396	20	2.2	20	91	8	68	85	2	12	0	0.70
3076356--3076409	18	2.9	19	78	10	58	81	1	14	1	0.86
3077091--3077181	29	3.1	29	70	17	80	30	9	8	50	1.66
3077101--3077209	29	3.8	28	71	22	73	29	11	11	48	1.73
3077111--3077294	58	3.2	58	78	10	173	28	15	10	45	1.80
3077309--3077672	58	6.3	59	74	5	224	27	11	14	46	1.79
3080253--3080308	20	2.8	20	81	8	60	33	14	8	42	1.77
3083777--3083801	13	1.9	13	100	0	50	40	8	16	36	1.77
3083835--3083888	20	2.6	21	82	2	65	35	16	9	38	1.81
3084642--3084977	52	6.7	49	78	5	298	32	18	25	23	1.97
3084688--3084977	101	2.9	101	87	1	393	33	18	24	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3085904--3085967	32	2.0	32	84	0	83	40	15	17	26	1.89
3088402--3088441	13	3.1	13	81	0	53	40	12	12	35	1.81
3092983--3093017	15	2.3	15	90	0	52	28	25	0	45	1.54
3094674--3094726	19	2.7	20	82	8	63	35	13	18	32	1.90
3098226--3098250	13	1.9	13	100	0	50	32	16	20	32	1.94
3098206--3098269	33	2.0	32	90	3	101	28	12	21	37	1.90
3098922--3098957	18	1.9	19	88	5	56	33	30	0	36	1.58
3100857--3100891	13	2.7	13	90	0	52	37	20	11	31	1.88
3107027--3107051	13	1.9	13	100	0	50	32	16	20	32	1.94
3107007--3107070	33	2.0	32	90	3	101	28	12	21	37	1.90
3107103--3107157	20	2.7	21	85	2	76	27	16	14	41	1.87
3112443--3112525	32	2.6	32	81	5	89	14	18	27	39	1.89
3112480--3112529	16	3.1	16	76	0	55	16	20	26	38	1.92
3112759--3112798	18	2.2	18	86	8	55	50	2	2	45	1.28
3114183--3114215	6	5.5	6	96	0	57	3	27	0	69	1.03
3114247--3114273	6	4.5	6	100	0	54	0	29	0	70	0.88
3114784--3114817	14	2.3	15	90	5	52	50	0	0	50	1.00
3120519--3120816	148	2.0	148	90	1	463	20	23	21	33	1.97
3121902--3121949	16	2.9	16	75	6	51	50	0	8	41	1.33
3122149--3122283	67	2.0	67	100	0	270	39	16	20	23	1.92
3123104--3123268	89	1.9	89	89	0	258	25	24	17	32	1.97
3129194--3129712	166	3.2	162	79	8	588	34	11	13	41	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3129816--3130480	155	4.3	154	78	7	542	28	14	17	39	1.89
3133275--3133300	13	2.0	13	100	0	52	38	15	15	30	1.88
3135518--3135562	21	2.1	21	84	8	56	53	4	20	22	1.63
3137366--3137396	15	2.1	15	93	0	53	48	16	22	12	1.80
3139410--3139489	20	3.8	20	75	15	79	26	15	15	43	1.85
3139475--3139513	13	3.0	13	96	0	69	30	17	15	35	1.91
3139634--3139680	21	2.3	21	79	20	55	34	19	4	42	1.70
3139636--3139678	20	2.2	19	84	16	52	32	18	4	44	1.71
3142053--3142078	13	2.0	13	100	0	52	38	15	15	30	1.88
3143640--3143668	15	1.9	15	100	0	58	27	10	27	34	1.89
3144008--3144226	112	1.9	113	86	0	314	32	15	13	38	1.86
3144629--3144781	82	1.9	82	80	2	182	24	19	17	38	1.93
3145406--3145574	87	1.9	87	80	0	194	24	17	14	43	1.86
3146226--3146377	80	1.9	80	88	0	232	30	21	15	31	1.95
3146656--3147234	44	13.1	44	74	9	331	22	24	13	40	1.89
3146767--3147236	132	3.6	129	77	9	444	22	23	13	39	1.90
3146683--3147013	176	1.9	176	88	1	502	21	24	14	39	1.91
3147510--3147640	42	3.1	41	70	12	113	16	25	16	41	1.89
3147494--3147798	84	3.7	83	79	6	312	17	24	15	42	1.87
3148259--3148766	263	1.9	265	93	2	878	34	12	12	40	1.81
3150566--3150621	29	2.0	29	92	3	96	42	8	0	48	1.34
3151727--3152037	156	2.0	155	80	8	355	26	18	18	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3153295--3153349	20	2.8	20	82	0	65	38	12	16	32	1.86
3153424--3153448	13	1.9	13	100	0	50	32	16	16	36	1.90
3153404--3153471	33	2.1	33	88	2	102	35	17	14	32	1.91
3161154--3161200	21	2.3	21	76	23	55	42	4	19	34	1.70
3161321--3161346	13	2.0	13	100	0	52	38	15	15	30	1.88
3163431--3163461	15	2.1	15	93	0	53	12	22	16	48	1.80
3165265--3165309	21	2.1	21	84	8	56	22	20	4	53	1.63
3169548--3169586	13	3.0	13	92	0	69	30	20	15	33	1.94
3169718--3169759	21	2.0	22	86	9	61	30	23	4	40	1.75
3170021--3170072	21	2.5	20	84	9	59	19	48	26	5	1.71
3171992--3172069	20	3.8	20	81	1	75	41	12	16	29	1.86
3172014--3172069	21	2.8	20	80	2	67	41	12	17	28	1.86
3172121--3172145	13	1.9	13	100	0	50	32	16	16	36	1.90
3172101--3172168	33	2.1	33	88	2	102	33	19	14	32	1.92
3173697--3173741	10	4.4	10	81	13	56	0	15	2	82	0.77
3173857--3173900	19	2.3	19	84	4	52	18	11	9	61	1.55
3174299--3174836	165	3.3	165	81	7	558	47	8	11	31	1.71
3174383--3174928	165	3.3	166	79	8	415	48	8	12	30	1.72
3174647--3175103	166	2.8	159	77	8	382	49	10	11	27	1.73
3176479--3176521	20	2.2	20	82	0	50	58	6	6	27	1.50
3177474--3177970	168	3.0	166	81	8	534	29	12	9	48	1.72
3177605--3178054	168	2.7	167	82	4	437	29	12	10	48	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3179402--3179438	17	2.1	17	90	5	56	75	0	2	21	0.92
3187432--3187538	16	6.8	15	69	7	52	15	20	25	38	1.92
3187734--3187773	18	2.2	18	86	8	55	50	2	2	45	1.28
3188950--3188980	16	1.9	16	93	0	53	12	16	25	45	1.83
3189138--3189261	59	2.1	59	98	0	239	12	25	10	51	1.71
3189518--3189544	2	13.5	2	100	0	54	51	0	0	48	1.00
3189765--3189798	14	2.3	15	90	5	52	50	0	0	50	1.00
3195478--3195775	148	2.0	148	90	1	463	20	23	21	33	1.97
3196656--3196698	18	2.3	19	84	4	52	53	0	0	46	1.00
3196664--3196701	19	2.1	18	90	5	58	47	0	0	52	1.00

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