genome.fa.s283.2.7.7.80.10.50.1000.1.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: Scaffold283
Parameters: 2 7 7 80 10 50 1000
Length:  2945114

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  1  of  15  ( 1700 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)
2229--2284	26	2.1	27	86	3	78	41	0	0	58	0.98
2725--2758	2	17.0	2	93	0	59	50	2	0	47	1.16
5013--5067	19	3.1	18	82	7	76	41	0	0	58	0.98
6856--6888	13	2.5	13	95	0	57	33	0	3	63	1.10
6879--6934	28	2.0	29	82	10	71	60	1	0	37	1.07
6895--6950	21	2.6	21	75	13	51	66	3	0	30	1.09
8548--8597	2	25.0	2	100	0	100	50	0	0	50	1.00
9223--9291	34	2.0	34	85	2	93	39	15	18	26	1.91
10071--10104	1	34.0	1	93	0	59	0	97	0	2	0.19
10648--10683	18	2.0	18	88	0	54	16	33	25	25	1.96
17558--17593	2	18.0	2	100	0	72	50	0	0	50	1.00
17593--17629	2	18.5	2	100	0	74	51	0	48	0	1.00
18996--19024	2	14.5	2	100	0	58	51	0	0	48	1.00
21089--21121	3	11.0	3	100	0	66	33	0	0	66	0.92
27587--27769	91	2.0	91	96	0	339	32	11	16	39	1.85
28639--28798	50	3.2	50	78	0	167	32	16	16	35	1.91
33181--33540	50	7.2	50	92	0	578	29	20	19	31	1.96
38621--38742	61	2.0	61	100	0	244	31	9	16	42	1.81
39434--39471	18	2.1	19	90	5	60	28	2	5	63	1.30
39640--39730	45	2.0	45	93	0	155	35	14	25	25	1.93
41319--41389	30	2.4	30	100	0	142	25	28	21	25	1.99
45039--45092	3	17.7	3	88	3	54	62	9	0	27	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45753--45795	15	2.7	15	78	21	52	46	0	0	53	1.00
45721--45809	38	2.3	37	80	16	92	47	1	0	51	1.08
45808--45854	25	2.0	25	87	8	71	38	2	2	57	1.23
46245--46279	15	2.3	15	90	0	52	54	2	2	40	1.30
47141--47182	3	14.0	3	100	0	84	0	0	33	66	0.92
48191--48227	16	2.2	17	90	4	58	35	0	0	64	0.94
48191--48326	6	21.7	6	67	23	59	38	0	0	60	1.02
48263--48336	15	5.1	15	78	17	77	39	1	0	59	1.06
48626--48652	2	13.5	2	100	0	54	51	48	0	0	1.00
49983--50011	2	14.5	2	100	0	58	48	0	0	51	1.00
50175--50230	28	2.0	29	86	10	80	48	0	1	50	1.11
50210--50253	22	2.0	23	91	8	74	61	0	0	38	0.96
50431--50460	9	3.2	9	95	4	51	76	0	0	23	0.78
51670--51758	32	2.7	32	76	11	90	55	0	2	42	1.12
51704--51784	32	2.5	32	78	15	85	59	0	0	40	0.98
51761--51801	6	6.5	6	83	10	55	68	0	0	31	0.90
51761--51800	13	3.0	14	78	14	57	67	0	0	32	0.91
51714--51802	46	1.9	47	82	11	112	60	0	0	39	0.97
51761--51829	32	2.2	32	87	10	97	65	0	1	33	1.02
52269--52307	13	2.8	15	81	18	57	46	0	2	51	1.14
52267--52328	14	4.5	14	80	11	74	46	0	1	51	1.10
52897--52926	2	15.0	2	100	0	60	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)
53020--53053	16	2.3	15	90	10	52	52	0	2	44	1.16
54043--54076	2	17.0	2	100	0	68	50	0	0	50	1.00
56284--56321	17	2.2	18	90	4	60	21	2	0	76	0.91
56376--56424	24	2.1	23	82	14	57	26	2	8	63	1.34
56500--56532	16	2.1	16	94	0	57	36	12	9	42	1.74
57615--57678	28	2.2	28	84	13	78	64	4	0	31	1.14
58275--58313	3	13.0	3	100	0	78	33	0	33	33	1.58
58312--58339	3	9.3	3	100	0	56	64	0	35	0	0.94
61607--61631	11	2.3	11	100	0	50	48	0	8	44	1.32
62671--62708	12	3.2	12	92	3	60	34	0	0	65	0.93
63939--63976	2	19.0	2	100	0	76	50	0	0	50	1.00
66313--66378	32	2.1	32	97	0	123	27	6	7	59	1.49
67869--67900	2	16.0	2	100	0	64	50	0	0	50	1.00
71676--71717	22	2.0	20	86	9	57	42	0	0	57	0.99
71768--71818	21	2.6	20	75	9	52	68	1	0	29	1.00
71768--71828	20	3.1	20	77	18	65	65	1	0	32	1.02
72324--72356	12	2.6	13	95	4	59	63	0	0	36	0.95
74882--74928	20	2.3	21	88	3	69	57	2	10	29	1.44
86065--86100	15	2.5	14	91	8	63	50	0	0	50	1.00
86066--86097	15	2.1	15	100	0	64	43	0	0	56	0.99
86166--86198	15	2.1	17	88	11	52	30	0	3	66	1.06
86252--86290	18	2.1	19	90	4	62	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
89734--89887	77	2.0	77	96	0	281	30	18	14	36	1.91
94209--94238	8	3.6	8	95	4	51	23	40	26	10	1.86
94662--94798	20	6.9	19	69	16	73	37	0	0	62	0.96
94663--94800	47	2.7	49	80	11	163	38	0	0	61	0.96
94698--94778	27	3.2	25	77	13	85	40	0	0	59	0.98
94704--94802	32	3.1	32	84	11	107	38	0	0	61	0.96
94762--94802	7	5.7	7	83	16	57	31	0	0	68	0.90
94764--94789	13	2.0	13	100	0	52	23	0	0	76	0.78
94720--94799	9	10.2	8	74	16	62	37	0	0	62	0.95
94958--95000	2	21.5	2	100	0	86	48	0	0	51	1.00
95089--95147	27	2.2	28	85	14	88	50	0	0	49	1.00
95081--95164	34	2.5	33	78	16	91	47	0	0	52	1.00
95124--95169	23	2.0	22	87	8	65	43	0	0	56	0.99
95100--95169	26	2.9	23	83	14	72	45	0	0	54	0.99
95109--95173	32	2.1	32	81	18	77	43	0	0	56	0.99
96131--96170	3	13.3	3	100	0	80	32	0	0	67	0.91
101149--101256	57	1.9	57	83	10	143	59	0	0	40	0.98
101191--101232	18	2.5	16	79	20	50	57	0	0	42	0.99
103910--103943	2	17.0	2	87	0	50	44	0	5	50	1.26
103911--103969	14	4.2	14	86	0	73	35	1	13	49	1.52
103921--103979	18	3.3	18	90	0	82	32	1	16	49	1.56
104341--104369	14	2.1	14	93	6	51	48	0	6	44	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
104714--104754	2	20.0	2	90	5	64	46	2	2	48	1.28
106401--106454	18	2.8	19	80	8	56	55	0	0	44	0.99
107140--107188	16	2.9	17	78	6	55	55	0	0	44	0.99
107140--107189	26	2.0	25	88	4	73	54	0	0	46	1.00
111403--111431	2	14.5	2	100	0	58	48	0	0	51	1.00
111812--111918	19	5.7	19	77	10	105	57	0	0	42	0.98
111806--111918	25	4.8	25	67	26	79	58	0	0	41	0.98
111807--111930	11	12.4	10	68	20	64	58	0	0	41	1.04
111964--111999	3	12.3	3	94	5	65	33	0	0	66	0.92
112204--112255	17	3.1	18	79	20	67	53	0	0	46	1.00
112828--112880	16	3.2	16	78	10	54	58	0	0	41	0.98
112844--112890	16	2.9	16	75	15	51	61	0	0	38	0.96
114558--114583	2	13.0	2	100	0	52	50	0	0	50	1.00
114992--115023	2	16.0	2	100	0	64	50	0	0	50	1.00
116597--116653	29	2.0	29	96	0	105	24	26	7	42	1.80
116615--116758	72	2.0	72	97	0	270	24	24	6	44	1.78
116772--116805	16	2.2	16	89	5	52	38	2	8	50	1.49
118174--118206	15	2.2	15	100	0	66	39	0	6	54	1.25
118277--118361	24	3.4	24	79	11	73	54	0	2	43	1.13
118288--118367	24	3.3	23	77	14	81	56	0	1	42	1.07
119652--119718	12	5.6	12	73	19	52	64	0	1	34	1.03
119660--119769	10	11.7	9	70	22	59	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
119662--119724	27	2.2	28	81	15	69	65	0	0	34	0.93
119695--119797	46	2.1	49	81	12	124	53	0	0	46	1.00
119691--119800	54	2.0	55	81	12	127	54	0	0	45	0.99
123925--123988	23	2.7	23	74	11	67	46	0	0	53	1.00
124015--124093	40	2.0	40	80	16	92	40	1	0	58	1.06
132589--132634	24	1.9	25	91	8	78	45	21	8	23	1.80
132620--132687	27	2.5	27	87	0	100	45	20	10	23	1.81
132675--132732	26	2.3	25	91	5	91	25	15	25	32	1.95
137186--137231	24	1.9	25	91	8	78	45	21	8	23	1.80
137217--137284	27	2.5	27	87	0	100	45	20	10	23	1.81

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15