genome.fa.s258.2.7.7.80.10.50.1000.13.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: Scaffold258
Parameters: 2 7 7 80 10 50 1000
Length:  5730937

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   

This is table  13  of  25  ( 2900 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)
2911835--2911903	25	2.7	26	78	12	81	43	0	2	53	1.15
2912595--2912649	23	2.4	23	78	6	58	1	23	9	65	1.31
2916824--2916867	23	1.9	23	86	9	63	50	0	4	45	1.22
2926368--2926415	3	16.3	3	79	12	55	2	33	0	64	1.05
2930067--2930119	27	1.9	28	81	11	65	45	0	1	52	1.11
2930145--2930184	20	2.0	20	90	0	62	55	0	0	45	0.99
2944135--2944160	2	13.0	2	100	0	52	50	0	0	50	1.00
2953649--2953706	21	2.7	21	66	12	55	48	0	1	50	1.11
2966159--2966241	36	2.3	35	87	2	121	33	21	3	40	1.71
2971406--2971474	36	1.9	36	96	0	129	33	15	20	30	1.94
2982244--2982269	2	13.0	2	100	0	52	50	0	0	50	1.00
2989577--2989603	2	13.5	2	100	0	54	51	0	0	48	1.00
2989799--2989823	13	1.9	13	100	0	50	0	20	0	80	0.72
2997671--2997716	11	4.3	10	82	15	56	36	0	0	63	0.95
2997677--2997714	11	3.4	11	85	7	58	28	0	0	71	0.87
2997671--2997714	23	2.0	23	91	8	74	34	0	0	65	0.93
2997678--2997721	23	1.9	23	90	0	70	38	0	0	61	0.96
2999922--2999947	2	13.0	2	100	0	52	50	0	0	50	1.00
3002162--3002193	2	16.0	2	100	0	64	50	0	0	50	1.00
3008811--3008846	2	18.0	2	94	0	63	47	0	2	50	1.15
3010163--3010225	20	3.1	20	71	11	56	46	0	1	52	1.10
3013330--3013372	2	22.0	2	80	4	52	44	0	6	48	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3013333--3013367	12	2.9	12	91	0	61	40	0	8	51	1.33
3021464--3021528	34	1.9	34	84	6	87	44	0	1	53	1.09
3022056--3022092	18	2.1	18	85	14	51	45	5	2	45	1.40
3022481--3022528	22	2.0	25	88	11	75	37	0	4	58	1.18
3028909--3028962	24	2.3	23	75	15	56	37	0	1	61	1.07
3028921--3028969	24	2.0	24	84	15	64	38	0	0	61	0.96
3030837--3030866	3	10.0	3	92	0	51	63	3	0	33	1.11
3033108--3033254	73	2.0	73	100	0	294	42	14	6	35	1.73
3038184--3038235	26	2.0	26	100	0	104	42	3	19	34	1.69
3042546--3042578	2	16.5	2	100	0	66	51	0	0	48	1.00
3048864--3048903	21	1.9	21	85	10	55	40	0	0	60	0.97
3048936--3049008	29	2.5	30	82	8	87	56	0	5	38	1.23
3054877--3054924	14	3.4	14	77	11	53	60	0	0	39	0.97
3055505--3055538	11	3.0	12	91	8	54	67	0	0	32	0.91
3055686--3055752	20	3.2	19	78	14	62	31	0	2	65	1.07
3056334--3056365	15	2.1	15	94	0	55	50	6	0	43	1.27
3057793--3057892	45	2.4	39	79	17	96	50	0	1	49	1.07
3058537--3058570	2	16.5	2	87	6	50	44	2	2	50	1.32
3059623--3059662	2	20.0	2	100	0	80	50	0	0	50	1.00
3061592--3061667	27	2.8	27	79	0	89	47	19	5	27	1.71
3063538--3063579	21	2.0	21	85	0	57	19	28	21	30	1.97
3066114--3066177	27	2.3	27	78	2	74	50	4	6	39	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3067377--3067506	62	2.0	64	86	5	183	24	23	16	35	1.95
3068914--3068971	20	2.8	20	75	17	57	63	1	0	34	1.04
3068872--3068971	19	5.1	20	71	19	61	66	2	0	32	1.03
3080704--3080738	15	2.2	16	90	5	54	48	20	5	25	1.71
3081964--3081999	18	2.1	17	94	5	63	44	0	0	55	0.99
3081951--3081997	22	2.1	22	84	7	60	42	0	2	55	1.12
3082226--3082304	23	3.4	23	74	11	63	43	0	1	55	1.07
3082284--3082332	23	2.1	23	88	7	73	53	0	0	46	1.00
3082232--3082330	29	3.5	28	73	18	82	46	0	0	53	1.00
3082830--3082881	15	3.3	17	82	10	58	50	0	0	50	1.00
3083775--3083828	13	4.2	13	75	13	58	50	0	0	50	1.00
3084339--3084368	2	14.5	2	93	6	51	46	3	0	50	1.18
3086769--3086879	54	2.1	54	91	5	181	39	7	9	44	1.64
3086924--3087153	118	1.9	120	92	3	385	46	9	4	39	1.56
3086932--3087181	118	2.1	120	86	3	335	47	10	4	37	1.59
3089197--3089320	62	2.0	60	89	9	189	25	23	16	34	1.95
3091663--3091700	2	19.0	2	100	0	76	50	0	0	50	1.00
3097692--3097716	1	25.0	1	100	0	50	0	0	100	0	0.00
3097971--3098002	3	10.7	3	100	0	64	34	0	0	65	0.93
3103547--3103623	16	4.7	16	79	11	77	66	0	0	33	0.92
3103558--3103633	39	1.9	39	84	10	102	64	0	0	35	0.94
3103553--3103615	30	2.0	32	85	11	87	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3113159--3113202	20	2.2	20	95	0	79	61	11	4	22	1.48
3116559--3116584	2	13.0	2	100	0	52	50	0	50	0	1.00
3117069--3117106	20	1.9	20	88	0	58	63	0	0	36	0.95
3117550--3117630	42	1.9	43	94	2	146	53	13	12	20	1.72
3118994--3119209	34	6.4	34	88	1	292	24	7	27	40	1.83
3118994--3119211	67	3.2	67	88	1	319	24	7	27	40	1.82
3123613--3123830	34	6.5	34	88	1	296	24	7	27	40	1.82
3123613--3123832	67	3.3	67	88	1	323	24	7	27	40	1.82
3124342--3124381	20	2.0	20	100	0	80	30	20	30	20	1.97
3128527--3128568	15	2.9	14	80	16	50	54	2	2	40	1.26
3128627--3128663	13	2.8	13	91	4	56	37	0	0	62	0.96
3128624--3128700	13	5.4	14	72	18	52	44	1	0	54	1.08
3128700--3128762	17	3.5	17	74	19	56	61	0	0	38	0.96
3128678--3128755	25	3.0	25	77	3	75	60	0	0	39	0.97
3128692--3128767	38	2.0	39	82	12	95	61	0	0	38	0.96
3128707--3128760	21	2.5	20	82	11	63	62	0	0	37	0.95
3128728--3128792	30	2.2	31	81	13	82	61	0	0	38	0.96
3128735--3128804	30	2.4	30	81	13	85	58	0	0	41	0.98
3131278--3131324	2	23.5	2	100	0	94	51	0	0	48	1.00
3133539--3133569	12	2.6	12	94	0	53	35	0	3	61	1.12
3133698--3133807	21	5.2	21	77	19	106	39	2	2	55	1.28
3133696--3133813	11	11.1	11	71	22	67	39	2	3	54	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3133693--3133855	21	7.7	21	70	19	90	39	3	4	53	1.36
3133693--3133877	42	4.4	42	76	12	148	37	4	4	52	1.42
3134431--3134522	32	2.8	31	82	11	96	30	7	9	52	1.62
3134453--3134525	32	2.3	32	87	0	101	32	8	6	52	1.58
3134467--3134533	32	2.1	32	88	0	98	35	10	7	46	1.66
3134914--3134958	21	2.1	21	83	4	54	71	0	2	26	0.98
3136943--3137057	16	7.0	15	71	24	74	38	1	0	59	1.14
3136924--3137002	27	2.8	27	80	16	81	40	1	0	58	1.06
3136954--3137030	32	2.3	33	86	6	111	41	0	0	58	0.98
3136954--3137086	33	4.1	31	74	12	108	41	1	0	56	1.14
3142146--3142326	89	2.0	90	90	2	285	31	11	18	38	1.87
3148869--3148915	21	2.2	21	88	7	69	10	48	14	25	1.76
3148883--3148947	21	3.2	20	85	10	78	7	46	16	29	1.75
3148901--3148953	21	2.5	21	87	0	79	5	45	16	32	1.71
3149961--3149992	2	16.0	2	100	0	64	50	0	0	50	1.00
3150601--3150626	11	2.4	11	100	0	52	65	0	0	34	0.93
3154694--3154733	16	2.5	16	87	0	53	32	0	10	57	1.32
3155012--3155036	9	2.8	9	100	0	50	68	0	8	24	1.16
3155402--3155447	16	2.8	17	75	21	53	43	0	0	56	0.99
3155575--3155599	2	12.5	2	100	0	50	52	0	48	0	1.00
3157766--3157816	2	26.0	2	88	4	77	47	1	1	49	1.24
3162585--3162622	20	1.9	20	84	10	51	42	13	5	39	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3162662--3163357	233	3.0	232	93	1	1180	38	6	8	45	1.61
3166758--3166782	2	12.5	2	100	0	50	52	0	0	48	1.00
3175658--3175688	15	2.0	16	93	6	55	41	6	6	45	1.55
3175766--3175798	3	11.0	3	100	0	66	66	0	0	33	0.92
3179487--3179522	2	18.0	2	100	0	72	50	0	0	50	1.00
3182476--3182559	28	3.0	28	85	3	123	42	7	3	46	1.48
3186585--3186617	13	2.6	13	90	4	50	36	3	0	60	1.12
3186580--3186617	12	3.2	12	85	10	51	42	2	0	55	1.14
3186959--3187020	11	5.6	11	73	21	58	30	0	0	69	0.89
3186957--3187024	34	1.9	36	85	11	97	29	0	0	70	0.87

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