genome.fa.s420.2.7.7.80.10.50.1000.1.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: Scaffold420
Parameters: 2 7 7 80 10 50 1000
Length:  186816

Tables:   1   2   

This is table  1  of  2  ( 128 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)
3--6105	7	878.7	7	83	10	5184	41	45	2	10	1.51
27--4016	48	86.9	43	76	18	1368	44	41	1	12	1.49
1912--1939	9	3.1	9	100	0	56	57	32	0	10	1.33
2894--2936	9	5.0	9	83	11	63	55	32	0	11	1.36
5837--6135	7	43.3	7	76	7	110	36	47	7	9	1.62
6196--6230	15	2.4	14	86	9	52	40	51	2	5	1.40
6213--6283	28	2.5	28	80	11	74	38	46	8	7	1.62
6195--6283	14	6.3	14	70	15	58	39	47	6	6	1.57
11327--11451	20	5.7	20	70	18	88	45	10	13	30	1.77
11375--11451	20	3.8	20	81	6	93	42	12	12	31	1.81
13106--13147	21	2.0	21	86	13	61	40	0	0	59	0.97
13302--13335	2	17.0	2	93	0	59	47	0	2	50	1.16
15551--15579	2	14.5	2	100	0	58	51	0	48	0	1.00
17757--17803	2	23.0	2	95	4	85	48	0	2	48	1.13
21171--21195	8	3.1	8	100	0	50	28	12	48	12	1.76
21797--21881	42	2.0	42	100	0	170	29	18	18	32	1.95
26555--26579	8	3.1	8	100	0	50	28	12	48	12	1.76
27181--27265	42	2.0	42	100	0	170	29	18	18	32	1.95
30923--31297	192	2.0	185	82	5	457	34	21	13	30	1.92
32300--32338	12	3.2	12	92	0	60	51	10	0	38	1.36
32308--32342	2	17.5	2	87	0	52	51	5	0	42	1.25
34490--34579	45	2.0	45	97	0	171	22	23	30	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37864--37895	3	10.7	3	100	0	64	31	0	0	68	0.90
38665--38694	2	15.0	2	100	0	60	50	0	0	50	1.00
43130--43171	2	21.5	2	90	4	68	52	0	0	47	1.00
43754--44002	81	3.0	82	85	1	304	24	17	16	41	1.89
47069--47146	18	4.3	18	71	18	54	57	1	1	39	1.15
47159--47201	12	3.5	12	84	6	59	25	0	2	72	0.97
47158--47216	25	2.2	29	79	17	81	30	0	1	67	1.00
47167--47217	25	2.0	27	92	7	88	31	0	0	68	0.90
47253--47299	24	2.0	24	87	4	69	51	4	2	42	1.33
49071--49100	4	7.5	4	92	0	51	23	23	0	53	1.46
53497--53527	2	15.5	2	100	0	62	48	0	51	0	1.00
56658--56696	6	6.5	6	90	0	60	28	20	35	15	1.93
58890--58927	2	19.0	2	94	0	67	0	0	52	47	1.00
68616--68653	3	12.7	3	100	0	76	34	0	0	65	0.93
76713--76752	2	20.0	2	100	0	80	50	0	0	50	1.00
78560--78584	1	25.0	1	100	0	50	0	100	0	0	0.00
81736--81771	5	7.2	5	90	0	54	2	19	33	44	1.65
90152--90183	3	10.7	3	93	0	55	31	0	3	65	1.08
90507--90546	2	20.0	2	89	0	62	47	2	2	47	1.29
92178--92210	2	16.5	2	100	0	66	51	0	0	48	1.00
92210--92238	2	14.5	2	100	0	58	51	0	48	0	1.00
92415--92460	14	3.3	14	81	9	58	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
93805--93853	3	16.7	3	95	4	91	69	0	0	30	0.89
94949--95004	26	2.2	26	80	6	60	53	5	1	39	1.34
96085--96122	19	2.0	20	90	10	62	50	0	5	44	1.24
96140--96166	14	1.9	14	100	0	54	77	0	0	22	0.76
96171--96220	22	2.2	24	85	7	68	54	0	0	46	1.00
97827--97856	2	15.0	2	92	0	51	50	3	0	46	1.18
102651--102718	23	3.0	23	75	12	68	60	1	1	36	1.15
103720--103764	23	1.9	23	82	13	56	68	0	0	31	0.89
111634--111663	2	15.0	2	100	0	60	50	0	0	50	1.00
112535--112574	2	20.0	2	100	0	80	50	0	50	0	1.00
113867--113918	10	4.8	11	75	13	54	46	1	0	51	1.12
118051--118089	18	2.1	18	85	4	51	48	0	7	43	1.31
118225--118271	20	2.3	20	96	3	85	29	8	23	38	1.84
118280--118349	22	2.8	25	87	10	92	54	0	2	42	1.15
118336--118366	16	1.9	16	93	0	53	54	0	3	41	1.16
118427--118481	16	3.4	16	73	14	51	50	3	9	36	1.51
118933--119127	97	2.0	97	92	0	327	42	4	2	50	1.34
118962--119118	49	3.2	48	70	19	135	45	3	1	49	1.29
119094--119133	19	2.0	21	90	9	66	45	0	0	55	0.99
120007--120080	23	3.1	24	72	14	64	70	5	2	21	1.20
122709--122752	2	22.0	2	100	0	88	50	0	0	50	1.00
129999--130096	47	2.1	46	88	7	153	26	21	22	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
131211--131278	32	2.0	36	86	11	99	54	0	0	45	0.99
131220--131280	27	2.3	27	81	16	81	55	0	0	44	0.99
131681--131746	19	3.6	17	75	23	62	48	3	0	48	1.17
136709--136768	30	2.0	30	100	0	120	13	23	23	40	1.90
137772--137796	2	12.5	2	100	0	50	52	48	0	0	1.00
138213--138268	15	3.5	15	76	11	58	51	0	3	44	1.18
139070--139095	13	2.0	13	100	0	52	46	0	0	53	1.00
139344--139394	16	3.2	16	85	0	66	58	5	1	33	1.33
139408--139480	16	4.7	15	76	8	67	60	8	1	30	1.34
139413--139474	31	1.9	32	83	6	81	61	9	1	27	1.37
140164--140218	27	1.9	30	89	10	89	54	0	0	45	0.99
146597--146635	3	13.0	3	100	0	78	33	0	0	66	0.92
146697--146735	3	12.7	3	94	5	69	66	0	0	33	0.92
153355--153494	5	26.8	5	67	18	54	50	0	2	47	1.13
153416--153462	15	3.0	16	81	6	60	51	0	0	48	1.00
153355--153493	37	3.8	36	79	9	133	51	0	2	46	1.13
153416--153497	16	5.3	15	76	16	69	51	0	0	48	1.00
153486--153521	16	2.2	16	90	0	54	47	0	8	44	1.33
153443--153498	21	2.8	20	83	5	85	51	0	0	48	1.00
153546--153622	16	4.8	16	79	9	93	54	0	0	45	0.99
153874--153905	16	1.9	17	93	6	57	56	0	0	43	0.99
154235--154273	19	2.1	19	85	9	53	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
154994--155043	23	2.3	21	86	6	64	64	2	0	34	1.05
155224--155278	2	28.5	2	90	7	87	54	0	0	45	0.99
155635--155679	23	2.0	23	87	8	67	48	4	2	44	1.35
155633--155684	23	2.3	23	77	19	63	48	3	1	46	1.31
155732--155773	22	2.0	22	90	4	68	35	11	9	42	1.74
160361--160488	16	7.7	16	76	17	118	39	0	1	58	1.07
160352--160482	31	4.0	32	75	16	124	39	0	1	58	1.07
160357--160507	69	2.2	69	87	5	209	41	1	1	55	1.19
160384--160487	53	1.9	55	84	3	140	41	0	1	56	1.10
161420--161477	22	2.7	22	81	7	66	36	3	5	55	1.39
161751--161799	21	2.3	21	75	0	53	48	0	0	51	1.00
162203--162229	2	13.5	2	100	0	54	48	0	0	51	1.00
163840--163945	16	6.6	16	71	4	88	55	3	2	37	1.33
163840--163884	22	2.0	22	83	8	56	60	0	0	40	0.97
163840--163945	32	3.3	32	77	5	124	55	3	2	37	1.33
163924--163961	17	2.3	17	86	4	51	52	2	0	44	1.14
164388--164436	17	2.9	18	77	20	52	48	2	0	48	1.12
166058--166093	3	12.0	3	100	0	72	66	0	33	0	0.92
168127--168158	2	16.0	2	93	0	55	50	3	0	46	1.17
170317--170371	23	2.3	25	81	9	69	65	3	0	30	1.10
170602--170644	2	21.5	2	100	0	86	51	0	0	48	1.00
170783--170813	2	15.5	2	93	0	53	48	3	0	48	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
172105--172159	21	2.7	21	81	13	62	50	5	3	40	1.43
174040--174085	13	3.1	15	81	15	60	30	0	0	69	0.89
174093--174139	19	2.4	19	86	10	60	53	2	0	44	1.12
174346--174405	31	2.0	31	86	3	86	36	21	10	31	1.87
174742--174792	2	25.5	2	87	0	75	49	5	0	45	1.26
174918--174976	26	2.2	27	84	3	75	52	0	5	42	1.23
174911--175186	139	2.0	136	84	9	362	47	2	5	44	1.38
175546--175581	10	3.5	10	92	3	54	77	8	13	0	0.98
176117--176168	27	1.9	27	96	0	95	34	23	9	32	1.87
177534--177599	2	33.0	2	100	0	132	50	0	0	50	1.00

Tables:   1   2