genome.fa.s2298.2.7.7.80.10.50.1000.1.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: Scaffold2298
Parameters: 2 7 7 80 10 50 1000
Length:  581295

Tables:   1   2   3   

This is table  1  of  3  ( 330 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)
1267--1654	49	7.5	53	69	17	190	28	26	12	32	1.93
1643--1714	28	2.6	28	86	0	90	22	33	19	25	1.97
3133--3208	28	2.5	31	79	8	77	26	18	13	42	1.87
3098--3208	30	3.7	29	75	10	82	26	18	13	42	1.87
3299--3429	30	4.1	30	71	9	91	22	17	13	45	1.84
3305--3662	35	11.1	35	66	17	146	20	18	13	46	1.83
3527--3655	33	3.9	33	77	15	113	19	21	15	43	1.88
3530--3658	31	4.0	31	81	10	116	19	22	15	42	1.88
8748--8815	19	3.5	19	67	16	50	4	29	4	61	1.35
8750--8823	39	1.9	37	84	10	96	5	29	4	60	1.37
8823--8946	11	10.4	11	69	28	60	4	20	0	75	0.99
8823--8947	6	20.7	6	71	17	64	4	20	0	75	0.98
8821--8947	19	6.6	18	70	20	64	4	20	0	74	0.99
8890--8940	23	2.2	24	79	10	61	5	19	0	74	1.02
10938--10974	19	1.9	19	88	0	56	48	5	0	45	1.25
12264--12330	16	4.2	16	75	7	64	34	1	4	59	1.26
12264--12338	32	2.4	32	81	2	89	36	1	5	57	1.30
13136--13177	16	2.6	16	88	0	66	35	2	7	54	1.41
13601--13633	2	16.5	2	93	0	57	45	0	3	51	1.16
18899--19084	90	2.1	89	81	7	207	47	4	3	45	1.38
20749--20795	23	2.1	22	84	7	60	44	38	2	14	1.58
30353--30395	20	2.1	20	86	4	59	9	30	44	16	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30836--30873	13	2.9	13	96	0	67	31	15	18	34	1.92
32954--32984	15	2.1	15	93	0	53	12	22	16	48	1.80
36955--37010	21	2.7	21	80	2	69	33	17	14	33	1.90
37447--37479	16	2.0	17	94	5	59	60	0	0	39	0.97
42628--42661	16	2.1	17	94	5	61	58	0	0	41	0.98
46057--46102	3	15.3	3	95	0	83	34	30	0	34	1.58
53241--53664	214	2.0	214	98	0	812	30	18	21	29	1.97
54113--54139	13	2.1	13	100	0	54	40	14	14	29	1.86
56910--56935	13	2.0	13	100	0	52	38	15	15	30	1.88
60166--60190	13	1.9	13	100	0	50	32	20	16	32	1.94
60211--60299	45	1.9	46	86	8	128	37	6	24	31	1.82
60268--60322	21	2.5	22	94	5	103	36	10	25	27	1.89
60310--60340	10	3.1	10	90	0	53	41	6	29	22	1.78
60364--60500	53	2.6	53	95	1	247	27	17	18	37	1.93
60488--60541	20	2.7	19	83	8	72	31	12	14	40	1.84
60580--60620	21	2.0	21	85	9	57	39	9	12	39	1.76
60914--60972	20	2.9	20	78	14	59	35	13	18	32	1.90
62455--62510	25	2.1	27	81	12	64	62	1	3	32	1.23
64962--65028	37	1.9	35	88	11	102	29	25	11	32	1.92
65501--65536	13	2.8	13	91	0	54	38	19	11	30	1.86
65570--65650	23	3.5	23	74	25	82	38	9	24	27	1.87
65629--65659	10	3.1	10	90	0	53	41	6	29	22	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
65683--65818	53	2.6	53	92	0	218	28	16	18	36	1.93
65736--65818	19	4.6	19	66	22	70	26	15	19	38	1.91
65789--65858	20	3.5	20	77	12	74	30	14	17	38	1.89
66781--66811	13	2.4	13	94	0	53	41	12	12	32	1.81
66897--66921	13	1.9	13	100	0	50	32	16	20	32	1.94
67657--67718	31	2.0	31	90	0	97	25	20	4	48	1.70
69406--69480	32	2.4	31	80	14	82	48	1	20	30	1.58
74958--75098	70	2.0	70	98	0	273	38	5	18	37	1.75
75834--75901	33	1.9	33	85	11	91	35	17	19	27	1.94
75858--75882	13	1.9	13	100	0	50	32	16	20	32	1.94
79503--79614	58	2.0	56	92	3	188	33	11	21	33	1.89
80741--82148	398	3.5	393	76	13	1194	43	5	7	43	1.57
82220--82279	26	2.3	27	75	11	63	48	0	1	50	1.11
83603--83757	16	9.5	16	70	16	68	28	3	10	57	1.48
83603--83676	17	4.6	15	79	12	69	31	1	8	59	1.35
83620--83694	33	2.3	33	84	9	91	29	0	8	62	1.23
83632--83694	17	3.8	16	72	6	54	26	0	9	63	1.25
83620--83727	33	3.3	32	74	14	80	27	1	10	60	1.40
84211--84279	32	2.1	33	89	2	104	34	11	18	34	1.87
84317--84341	13	1.9	13	100	0	50	32	16	16	36	1.90
84296--84362	34	2.0	33	85	8	91	29	17	13	38	1.88
84350--84423	32	2.3	32	95	0	130	32	20	21	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
88010--88058	21	2.2	22	85	10	64	30	2	6	61	1.32
99548--99619	21	3.5	21	80	14	71	77	11	6	4	1.09
99540--99619	42	1.9	42	85	10	110	75	12	8	3	1.17
102743--102783	17	2.5	16	92	4	64	85	12	2	0	0.70
103782--104107	55	5.8	55	88	4	431	26	28	20	24	1.99
103981--104068	26	3.3	26	67	14	70	26	30	20	22	1.98
103782--104107	165	1.9	166	88	5	487	26	28	20	24	1.99
104207--104303	42	2.3	42	77	8	101	16	28	12	42	1.84
105470--105559	19	5.1	18	71	22	75	35	12	15	36	1.85
105516--105540	13	1.9	13	100	0	50	36	16	16	32	1.90
105495--105567	32	2.3	32	97	0	137	34	12	17	35	1.88
105611--105636	13	2.0	13	100	0	52	30	15	15	38	1.88
105591--105657	34	2.0	33	91	2	107	25	16	13	44	1.84
107997--108340	52	6.6	52	67	8	171	29	27	11	31	1.92
108008--108454	210	2.1	211	91	1	720	28	27	12	30	1.93
108064--108414	108	3.3	106	71	12	315	28	28	13	29	1.94
108356--108587	79	2.9	78	78	10	245	26	28	13	31	1.94
110332--110806	27	17.4	27	83	4	479	24	29	15	30	1.95
110331--111284	28	34.4	28	81	6	642	27	28	16	27	1.97
110328--110806	219	2.2	219	81	3	563	24	29	15	30	1.95
110729--111316	56	10.4	56	85	3	707	31	27	16	24	1.96
110746--111352	28	21.2	31	82	8	237	31	27	16	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
111373--111513	69	2.0	69	98	0	273	26	23	13	36	1.92
114807--114884	24	3.4	24	71	20	85	29	15	15	39	1.88
114798--114885	44	2.0	44	100	0	176	27	15	15	40	1.88
117020--117067	20	2.4	20	96	0	87	25	12	16	45	1.82
119574--119599	13	2.0	13	100	0	52	30	15	15	38	1.88
119584--119658	19	3.9	19	92	1	123	29	17	14	38	1.89
119707--119732	13	2.0	13	100	0	52	30	15	15	38	1.88
120543--120594	13	4.0	13	94	0	95	30	15	13	40	1.86
127253--127278	13	2.0	13	100	0	52	38	15	15	30	1.88
127235--127298	32	2.0	33	87	3	94	40	17	14	28	1.88
132553--132578	13	2.0	13	100	0	52	38	15	15	30	1.88
132535--132598	32	2.0	33	87	3	94	40	17	14	28	1.88
142359--142388	9	3.3	9	90	0	51	23	33	0	43	1.54
371703--371828	51	2.4	52	86	5	182	32	11	23	33	1.90
374190--374215	13	2.0	13	100	0	52	38	15	15	30	1.88
374169--374235	33	2.0	33	88	0	98	43	16	14	25	1.86
374277--374301	13	1.9	13	100	0	50	32	16	16	36	1.90
374258--374320	32	2.0	32	93	0	108	34	15	12	36	1.86
374255--374321	19	3.8	19	74	22	74	35	14	11	37	1.84
374948--374982	18	1.9	18	94	0	61	34	0	0	65	0.93
375364--375464	53	1.9	53	83	4	132	28	4	15	50	1.65
377410--377447	20	1.9	20	84	10	51	39	5	7	47	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
378750--378807	16	3.6	16	75	9	55	41	27	13	17	1.87
379639--379716	16	4.8	16	80	1	84	42	25	16	15	1.87
380131--380182	20	2.4	22	90	9	81	40	15	11	32	1.83
389393--389438	23	2.0	23	100	0	92	17	17	26	39	1.91
392873--392915	20	2.1	20	82	4	50	11	30	41	16	1.83
393356--393394	13	3.0	13	96	0	69	35	15	17	30	1.91
395468--395498	15	2.1	15	93	0	53	12	22	16	48	1.80
397301--397345	21	2.1	21	84	8	56	22	20	4	53	1.63
397881--398015	1	135.0	1	74	0	108	86	10	1	1	0.70
397881--398015	11	12.4	11	81	9	145	86	10	1	1	0.70

Tables:   1   2   3