genome.fa.s317.2.7.7.80.10.50.1000.1.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: Scaffold317
Parameters: 2 7 7 80 10 50 1000
Length:  576627

Tables:   1   2   3   4   5   6   7   

This is table  1  of  7  ( 806 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)
333--363	2	15.5	2	100	0	62	51	48	0	0	1.00
2002--2037	1	36.0	1	94	0	54	5	94	0	0	0.31
2001--2031	16	1.9	16	100	0	62	9	90	0	0	0.46
8112--8170	31	1.9	30	86	10	84	49	0	0	50	1.00
8121--8193	37	2.0	37	88	0	110	43	1	1	53	1.17
8443--8502	21	2.7	22	84	7	68	35	3	0	61	1.12
8520--8565	21	2.2	20	80	3	56	39	4	6	50	1.48
8730--8779	23	2.2	24	78	10	59	48	4	2	46	1.32
8872--8905	17	2.1	16	88	5	50	23	0	2	73	0.97
10256--10341	28	3.1	28	74	11	70	34	1	0	63	1.02
10296--10354	17	3.5	17	77	13	68	28	0	0	71	0.87
10300--10356	12	5.2	12	76	16	52	26	0	0	73	0.83
10300--10356	28	2.1	27	87	9	80	26	0	0	73	0.83
10296--10361	34	1.9	34	84	6	89	28	0	0	71	0.87
11813--11846	3	11.3	3	100	0	68	67	0	0	32	0.91
12156--12227	28	2.6	28	78	8	76	16	15	0	68	1.22
21793--21834	18	2.3	19	88	12	61	33	0	0	66	0.92
21891--22596	368	1.9	368	85	2	977	36	19	7	35	1.81
25881--25933	20	2.7	20	79	5	54	20	16	18	43	1.88
28769--28889	51	2.4	51	81	0	152	37	7	22	33	1.82
30912--30967	20	2.7	21	88	2	87	33	10	16	39	1.83
38294--38378	20	3.7	20	71	28	71	43	11	16	28	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39755--39793	12	3.2	12	88	0	51	35	0	15	48	1.45
39977--40009	2	16.5	2	100	0	66	51	0	0	48	1.00
40012--40051	18	2.2	18	86	0	53	55	0	42	2	1.13
40554--40596	13	3.3	12	81	12	50	41	0	0	58	0.98
41413--41458	14	3.4	14	82	11	53	56	4	4	34	1.39
42498--42554	19	2.9	19	82	15	55	28	1	3	66	1.18
42541--42585	17	2.6	18	86	6	58	37	0	2	60	1.09
50686--50883	98	2.0	98	90	1	308	33	14	9	42	1.77
51173--51366	96	2.0	96	96	0	361	31	19	14	33	1.93
55967--55998	14	2.1	16	88	11	50	21	25	15	37	1.93
59536--59655	17	7.2	17	66	20	67	46	3	4	45	1.38
60991--61108	51	2.3	51	84	5	141	32	16	22	28	1.95
60912--61236	179	1.8	181	86	4	478	33	15	24	26	1.95
61093--61314	78	2.8	78	84	6	297	33	14	26	26	1.94
61485--61586	52	1.9	52	88	4	150	33	11	25	29	1.91
61247--61596	51	6.7	52	69	9	217	31	12	27	28	1.93
63918--63984	34	2.0	33	85	2	89	47	13	13	25	1.79
64016--64069	21	2.7	20	77	8	65	38	14	12	33	1.85
64105--64160	19	2.8	20	83	8	78	32	14	16	37	1.88
65255--66332	156	7.0	154	76	9	721	38	19	17	24	1.93
65333--66254	302	3.0	294	74	8	765	37	19	17	25	1.93
66825--67112	150	1.9	150	81	10	349	39	12	12	35	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
68313--68415	54	1.9	53	84	7	136	18	17	23	40	1.91
69304--69474	7	23.7	7	72	17	79	18	1	9	71	1.19
69302--69481	8	22.6	8	72	14	99	18	1	8	71	1.18
69292--69345	26	2.2	23	81	12	63	16	3	5	74	1.16
69302--69419	26	4.9	25	72	22	67	19	0	9	70	1.19
69311--69473	64	2.5	63	80	14	174	18	1	9	71	1.19
69375--69474	23	4.2	24	79	11	82	17	2	9	72	1.20
69361--69481	9	13.8	9	69	17	69	17	1	8	72	1.17
70865--70900	2	18.0	2	100	0	72	50	0	0	50	1.00
71446--71641	93	2.1	94	87	2	288	44	6	8	40	1.61
71692--71725	7	4.9	7	88	0	50	29	2	2	64	1.22
72168--72197	16	1.9	16	93	6	53	33	10	0	56	1.32
77910--77948	10	3.9	10	87	9	53	46	0	0	53	1.00
82646--82687	2	21.0	2	100	0	84	50	0	0	50	1.00
84495--84537	2	21.0	2	90	4	68	46	0	2	51	1.13
92154--92192	2	19.5	2	100	0	78	51	0	0	48	1.00
92836--92868	12	2.7	12	95	4	57	72	3	0	24	0.98
93724--93760	2	18.5	2	100	0	74	51	0	0	48	1.00
94281--94311	2	16.0	2	93	6	55	48	0	0	51	1.00
96500--96540	10	4.3	10	75	12	50	43	2	0	53	1.13
96392--96632	126	1.9	129	91	5	402	43	8	4	43	1.56
96702--96760	29	2.0	29	83	6	75	37	28	0	33	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
96716--96761	14	3.2	14	78	6	56	39	32	0	28	1.57
99106--99169	9	6.9	9	76	16	51	18	4	1	75	1.06
99099--99168	19	3.7	18	73	19	63	17	7	1	74	1.11
99117--99167	9	5.6	9	80	17	52	15	5	1	76	1.07
99099--99168	28	2.5	28	83	4	79	17	7	1	74	1.11
101543--101605	28	2.3	27	78	13	65	44	0	3	52	1.17
102418--102701	155	1.8	154	82	5	367	31	11	7	50	1.65
103204--103228	11	2.3	11	100	0	50	84	0	16	0	0.63
103209--103271	21	3.0	20	74	21	56	71	1	20	6	1.16
103215--103272	22	2.6	22	84	12	75	72	1	18	6	1.16
104030--104463	155	2.8	155	79	10	442	37	10	13	39	1.79
104447--104489	7	5.9	7	91	8	68	81	0	0	18	0.69
104020--104463	156	2.9	154	79	10	483	37	10	13	39	1.78
104861--105423	155	3.6	151	79	6	556	23	15	20	39	1.91
110363--110416	20	2.7	20	82	0	63	35	12	14	37	1.85
119884--119923	17	2.3	18	91	4	64	82	12	0	5	0.82
121179--121436	30	8.2	30	75	14	200	21	27	14	35	1.93
121177--121427	93	2.7	92	84	6	306	22	27	15	34	1.94
121184--122610	33	44.8	32	73	13	808	20	30	12	36	1.90
121374--122610	67	19.4	66	75	13	846	20	30	12	36	1.89
121604--121970	27	12.2	27	74	15	139	21	32	11	33	1.90
121504--122022	215	2.4	215	93	3	862	21	31	11	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
121504--122511	219	4.6	218	78	11	883	20	30	12	36	1.89
122080--122133	27	2.0	27	88	0	81	22	25	16	35	1.95
122103--122511	60	6.5	60	75	13	192	20	28	12	39	1.88
122259--122319	27	2.3	27	85	0	95	19	22	13	44	1.85
122419--122511	27	3.2	27	75	16	96	19	32	11	36	1.88
121408--122617	159	7.6	157	73	14	734	20	30	12	36	1.89
122615--123222	87	7.0	87	87	0	829	27	25	17	28	1.98
122747--123173	39	10.0	39	68	18	235	26	26	19	27	1.99
122611--123217	175	3.5	175	88	1	894	27	25	17	28	1.98
122873--123235	48	8.1	47	70	17	236	26	26	18	28	1.98
123145--123365	49	4.5	49	73	5	205	23	25	18	32	1.97
124190--124241	20	2.6	20	93	0	86	40	13	9	36	1.77
124155--124303	79	1.9	79	88	2	228	34	19	14	31	1.91
133701--133825	20	5.7	20	69	18	88	42	10	15	32	1.80
133701--133875	90	1.9	91	88	3	264	44	10	15	29	1.80
138034--138071	20	1.9	20	88	0	58	39	10	18	31	1.85
138517--138556	20	2.0	20	85	0	53	30	20	7	42	1.79
142596--142724	52	2.5	52	97	0	240	28	17	17	36	1.93
142733--142757	13	1.9	13	100	0	50	36	16	16	32	1.90
142798--142880	25	3.0	26	80	19	89	37	16	12	33	1.86
142836--142892	13	3.9	13	76	24	60	33	17	14	35	1.90
142831--142912	32	2.5	32	96	2	146	34	17	12	36	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
143566--144410	43	17.9	52	75	14	476	31	18	25	24	1.97
143721--144411	43	15.1	43	77	12	664	30	18	26	24	1.98
143669--144411	92	8.1	92	91	1	1148	31	18	25	24	1.98
143566--144411	184	4.5	184	89	3	1201	31	18	25	24	1.97
144424--144804	97	3.9	95	87	6	473	18	18	33	29	1.95
144424--144795	129	2.9	126	87	7	516	18	18	33	30	1.95
144424--144804	32	11.8	32	86	5	509	18	18	33	29	1.95
144811--144969	64	2.4	66	78	10	164	32	12	33	20	1.90
144811--145436	34	19.5	34	76	13	551	31	12	35	20	1.90
145079--145440	61	5.8	61	83	10	409	30	12	35	20	1.90

Tables:   1   2   3   4   5   6   7