genome.fa.s89.2.7.7.80.10.50.1000.18.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: Scaffold89
Parameters: 2 7 7 80 10 50 1000
Length:  5168001

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   

This is table  18  of  27  ( 3236 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)
2953906--2953980	32	2.3	32	84	8	100	45	2	2	49	1.30
2953930--2954023	32	3.0	32	80	12	97	52	0	1	46	1.07
2953975--2954016	19	2.2	19	83	8	50	54	0	0	45	0.99
2956947--2957014	20	3.4	20	70	11	59	45	1	0	52	1.09
2960523--2960565	22	2.0	22	85	0	59	51	0	0	48	1.00
2960676--2960732	25	2.4	24	77	13	64	63	1	0	35	1.05
2960675--2960736	23	2.7	23	81	18	67	59	1	0	38	1.07
2964243--2964328	14	6.1	14	74	14	61	37	0	1	61	1.04
2964252--2964321	30	2.3	29	85	4	86	38	0	0	61	0.96
2964251--2964306	15	3.5	17	74	20	57	39	0	0	60	0.97
2964997--2965066	21	3.1	21	70	21	52	57	0	0	42	0.99
2965218--2965305	28	3.1	28	79	15	83	48	0	1	50	1.08
2965248--2965322	14	4.8	17	68	23	58	48	0	0	52	1.00
2965226--2965282	24	2.6	23	76	15	59	49	0	1	49	1.11
2965226--2965305	12	6.8	12	69	18	51	47	0	1	51	1.08
2965251--2965305	19	3.1	19	79	12	71	47	0	0	52	1.00
2965807--2965856	16	3.0	16	78	18	57	50	0	2	48	1.12
2971699--2971756	18	3.3	18	72	11	57	50	0	0	50	1.00
2971697--2971760	17	3.7	17	75	8	67	51	0	0	48	1.00
2972239--2972268	15	2.0	15	93	0	51	0	16	0	83	0.65
2981091--2981230	30	4.7	29	74	17	110	37	0	2	60	1.14
2982256--2982281	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2982688--2982721	3	11.7	3	87	6	52	35	0	0	64	0.94
2982688--2982721	14	2.3	15	95	5	61	35	0	0	64	0.94
2983106--2983158	14	3.9	14	75	12	56	52	0	0	47	1.00
2984186--2984232	22	2.1	23	88	4	69	40	0	4	55	1.19
2984588--2984664	24	3.3	22	76	16	66	42	0	0	57	0.99
2984635--2984685	27	2.0	26	81	11	61	43	0	1	54	1.11
2985092--2985171	25	3.3	25	70	16	69	56	1	0	42	1.07
2985630--2985754	11	11.8	11	66	20	54	59	0	0	40	0.98
2985644--2985737	10	9.1	10	68	10	55	57	0	0	42	0.98
2986283--2986348	35	1.9	34	84	9	89	57	1	0	40	1.08
2986614--2986643	15	2.0	15	93	0	51	90	0	10	0	0.47
2986858--2986918	26	2.3	28	83	8	74	49	0	3	47	1.18
2986881--2986913	16	2.0	17	88	5	50	54	0	6	39	1.25
2986906--2986942	19	2.0	20	89	10	60	48	0	5	45	1.25
2988198--2988293	48	2.0	48	93	0	165	20	9	16	53	1.71
3001159--3001219	21	2.8	21	74	18	54	67	4	0	27	1.11
3001193--3001236	18	2.5	17	82	10	52	63	2	0	34	1.07
3010667--3010692	13	2.0	13	100	0	52	15	15	7	61	1.55
3016839--3016866	2	14.0	2	100	0	56	50	0	0	50	1.00
3017523--3017548	2	13.0	2	100	0	52	50	0	0	50	1.00
3020759--3020808	22	2.2	22	85	7	64	44	6	2	48	1.39
3020757--3020813	24	2.4	23	80	13	62	43	5	1	49	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3027573--3027607	17	2.1	17	88	0	52	40	0	0	60	0.97
3028525--3028594	22	3.3	19	77	18	68	35	0	0	64	0.94
3030377--3030419	2	21.5	2	100	0	86	51	0	0	48	1.00
3032227--3032285	25	2.3	25	86	13	84	52	0	0	47	1.00
3032249--3032314	20	3.3	19	74	22	55	56	0	0	43	0.99
3032224--3032314	19	4.5	21	73	17	77	56	0	0	43	0.99
3034354--3034382	10	2.9	10	100	0	58	0	6	0	93	0.36
3034655--3034688	5	7.0	5	86	6	52	61	2	0	35	1.11
3035109--3035192	26	3.2	26	78	10	89	61	1	0	36	1.04
3035114--3035164	22	2.4	22	83	3	68	64	0	0	35	0.94
3036257--3036303	14	3.1	15	77	17	60	44	0	0	55	0.99
3036482--3036514	2	16.5	2	100	0	66	51	0	0	48	1.00
3047065--3047089	1	25.0	1	100	0	50	0	0	0	100	0.00
3053037--3053075	20	1.9	21	84	5	53	51	7	0	41	1.31
3054405--3054449	20	2.1	22	92	8	76	42	0	0	57	0.98
3054405--3054474	22	3.0	23	75	24	67	42	0	0	57	0.99
3054425--3054476	25	1.9	26	85	14	70	46	0	0	53	1.00
3054472--3054508	5	7.4	5	93	0	65	56	0	0	43	0.99
3054462--3054536	10	6.5	11	75	15	55	52	0	0	48	1.00
3055012--3055041	5	6.0	5	100	0	60	80	0	0	20	0.72
3057122--3057168	21	2.2	22	85	11	62	68	2	0	29	1.02
3058553--3058599	23	2.0	24	83	4	60	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3058570--3058599	12	2.6	12	94	5	53	50	0	0	50	1.00
3060094--3060238	72	2.0	72	94	0	254	34	24	17	23	1.96
3061307--3061332	2	13.0	2	100	0	52	50	0	0	50	1.00
3062230--3062263	11	3.0	11	91	8	59	73	0	0	26	0.83
3068266--3068315	2	25.0	2	95	0	91	48	0	2	50	1.12
3068086--3068469	209	1.9	204	95	2	696	39	10	12	37	1.78
3068754--3068781	2	14.0	2	100	0	56	50	0	0	50	1.00
3071091--3071161	33	2.2	33	81	0	79	40	0	0	59	0.98
3071475--3071513	18	2.2	18	85	0	51	48	0	0	51	1.00
3071510--3071542	12	2.7	13	86	13	52	36	0	0	63	0.95
3072242--3072271	14	2.1	14	93	0	51	30	0	0	70	0.88
3074118--3074175	29	2.0	29	86	0	80	8	10	1	79	1.01
3074294--3074328	2	17.5	2	100	0	70	48	0	0	51	1.00
3075348--3075372	2	12.5	2	100	0	50	48	0	0	52	1.00
3076322--3076385	25	2.6	24	80	5	65	34	3	0	62	1.11
3077569--3077602	2	17.5	2	93	6	61	50	0	0	50	1.00
3084641--3084674	3	11.3	3	100	0	68	67	0	0	32	0.91
3085229--3085258	2	15.0	2	100	0	60	50	0	0	50	1.00
3086341--3086405	23	2.7	25	81	9	73	41	0	4	53	1.21
3086965--3087014	22	2.2	23	89	3	75	40	4	8	48	1.51
3088610--3088637	3	9.3	3	100	0	56	67	0	0	32	0.91
3088633--3088662	4	7.5	4	100	0	60	76	0	0	23	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3091592--3091625	2	17.0	2	100	0	68	50	0	0	50	1.00
3092084--3092131	18	2.6	17	84	12	60	58	0	0	41	0.98
3092116--3092154	16	2.4	16	87	12	53	43	0	2	53	1.14
3100725--3100781	24	2.4	24	96	0	105	3	12	38	45	1.59
3109304--3109342	5	7.4	5	83	11	51	61	0	0	38	0.96
3109301--3109334	11	3.1	11	86	0	50	67	0	0	32	0.91
3109380--3109451	25	3.0	23	84	10	74	41	4	1	52	1.29
3109405--3109457	25	2.1	25	85	0	70	45	3	1	49	1.31
3109894--3109949	11	5.0	11	77	14	53	33	0	0	66	0.92
3109891--3109947	15	3.9	15	75	25	59	33	0	0	66	0.92
3109891--3109949	24	2.4	25	83	13	77	33	0	0	66	0.92
3109891--3109949	18	3.3	18	83	9	68	33	0	0	66	0.92
3109892--3109948	29	2.0	28	86	10	80	31	0	0	68	0.90
3109899--3109984	18	4.7	18	66	23	54	40	1	0	58	1.06
3110189--3110233	2	22.5	2	90	0	72	48	2	2	46	1.26
3116175--3116222	22	2.2	22	88	7	71	37	0	0	62	0.95
3122167--3122241	27	2.8	27	91	0	114	26	1	18	53	1.53
3122197--3122269	24	2.9	24	83	6	74	27	2	21	47	1.64
3131485--3131532	25	1.9	25	83	8	62	33	2	0	64	1.05
3139084--3139168	17	5.0	17	67	18	52	40	0	1	58	1.05
3139084--3139168	35	2.5	36	80	14	99	40	0	1	58	1.05
3139084--3139170	36	2.4	36	83	11	99	39	0	1	59	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3144123--3144167	18	2.4	18	79	17	56	73	0	0	26	0.84
3147849--3147987	34	4.6	31	73	16	105	43	0	1	54	1.14
3147845--3147979	65	2.1	64	82	8	166	40	0	1	57	1.13
3147849--3147932	17	5.2	17	69	23	56	41	0	1	57	1.06
3147880--3147949	35	2.0	34	83	8	88	37	1	2	58	1.22
3147913--3148007	29	3.5	28	79	10	101	45	1	1	52	1.14
3147911--3148010	26	3.8	26	70	17	71	45	1	1	53	1.14
3147970--3148015	20	2.1	22	84	11	60	45	0	0	54	0.99
3147961--3148064	31	3.2	35	76	18	107	43	0	0	55	1.06
3150032--3150098	18	3.6	18	78	11	64	35	0	0	64	0.94

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