genome.fa.s306.2.7.7.80.10.50.1000.1.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: Scaffold306
Parameters: 2 7 7 80 10 50 1000
Length:  196279

Tables:   1   2   

This is table  1  of  2  ( 133 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)
2303--2370	16	4.1	16	81	9	66	86	5	7	0	0.70
2303--2366	18	3.6	18	83	10	78	85	6	7	0	0.73
2316--2370	17	3.3	16	87	5	74	89	5	5	0	0.61
2315--2370	1	56.0	1	81	0	58	89	5	5	0	0.60
3352--4124	55	13.9	55	89	3	1095	27	30	20	20	1.98
3352--4147	332	2.4	332	89	4	1194	28	30	20	21	1.98
4813--4880	19	3.9	19	71	28	69	35	11	14	38	1.83
4920--4945	13	2.0	13	100	0	52	30	15	15	38	1.88
4900--4966	33	2.0	33	88	0	98	25	14	16	43	1.86
7418--7490	27	2.7	27	87	6	94	23	34	21	20	1.97
7473--7643	51	3.3	51	79	4	198	29	26	11	32	1.92
7626--7707	28	2.9	28	82	5	94	25	31	15	26	1.96
13844--13874	13	2.4	13	100	0	62	38	16	9	35	1.81
25601--25625	12	2.1	12	100	0	50	16	68	8	8	1.38
26717--26748	2	16.0	2	100	0	64	50	0	0	50	1.00
26914--26961	2	24.0	2	91	0	78	0	50	0	50	1.00
32141--32183	6	7.2	6	86	7	61	13	0	2	83	0.74
32139--32183	11	3.8	11	85	8	54	13	0	2	84	0.72
32142--32180	17	2.2	18	90	4	62	12	0	2	84	0.72
32284--32329	24	1.9	24	86	8	67	45	0	2	52	1.13
33343--33387	23	2.0	23	86	0	63	35	4	0	60	1.17
35979--36018	2	20.0	2	100	0	80	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)
36494--36535	18	2.3	19	80	8	52	35	2	7	54	1.41
37102--37186	20	4.6	20	75	16	76	65	0	1	32	1.00
37106--37186	7	10.9	8	73	16	50	65	0	1	33	1.01
37145--37177	12	2.8	12	95	4	59	63	0	0	36	0.95
37214--37256	13	3.2	13	83	6	59	62	4	0	32	1.15
37207--37271	14	4.6	14	78	14	62	63	3	0	33	1.10
37204--37289	35	2.5	37	72	24	89	58	2	0	39	1.11
38095--38147	27	2.0	27	81	7	63	41	0	1	56	1.10
38961--39005	2	22.5	2	95	0	81	0	46	0	53	1.00
39005--39029	2	12.5	2	100	0	50	48	0	0	52	1.00
40356--40394	17	2.3	17	82	8	53	48	0	2	48	1.15
40633--40659	3	9.0	3	100	0	54	33	0	0	66	0.92
42980--43013	2	17.0	2	87	0	50	47	2	2	47	1.32
43570--43614	17	2.8	16	80	16	56	35	2	2	60	1.22
43619--43659	21	2.0	21	85	9	57	65	2	2	29	1.18
44438--44487	25	2.0	26	92	4	84	38	0	38	24	1.56
45394--45534	72	2.0	72	88	2	212	34	12	20	32	1.90
45622--45666	23	2.0	23	90	0	72	51	2	6	40	1.41
45619--45677	23	2.5	23	75	5	64	55	5	5	33	1.43
52900--52945	3	15.3	3	100	0	92	67	0	0	32	0.91
53176--53215	18	2.2	18	100	0	80	75	10	10	5	1.19
53770--53798	2	14.5	2	100	0	58	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62781--62815	1	35.0	1	94	0	61	0	2	97	0	0.19
63212--63276	16	4.4	16	76	16	52	53	3	6	36	1.41
63230--63289	27	2.2	27	79	5	68	60	1	5	33	1.29
63276--63316	19	2.3	19	87	8	59	70	0	0	29	0.87
66915--67023	43	2.5	43	85	2	121	56	9	4	29	1.50
67624--67697	20	3.5	20	70	15	60	48	12	14	24	1.78
68016--68070	28	1.9	28	85	10	76	60	0	7	32	1.24
68025--68112	28	3.1	30	76	12	71	54	3	5	36	1.41
69470--69494	2	12.5	2	100	0	50	52	0	0	48	1.00
69920--69961	22	1.9	23	85	9	61	35	7	4	52	1.50
79547--79577	13	2.4	13	94	0	53	45	12	6	35	1.68
79697--79774	34	2.3	34	93	2	129	46	12	6	34	1.68
80808--80911	36	2.9	35	81	7	102	44	0	0	53	1.13
82721--82757	3	12.3	3	100	0	74	67	0	0	32	0.91
84501--84642	70	2.0	70	88	0	212	18	35	11	34	1.88
87732--87764	8	4.1	8	88	11	50	87	0	9	3	0.63
88515--88546	3	10.7	3	100	0	64	31	0	0	68	0.90
88593--88645	19	2.9	17	78	18	54	67	5	3	22	1.28
89778--89878	46	2.2	44	80	5	112	49	0	3	45	1.27
92924--92975	25	2.1	25	96	0	95	30	7	26	34	1.85
102857--102929	28	2.9	25	75	16	71	47	0	0	52	1.00
103451--103508	21	2.6	23	78	13	68	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
106925--107114	92	2.1	92	90	5	294	31	14	5	48	1.66
107285--107354	31	2.2	32	92	5	115	52	8	12	25	1.67
109047--109112	33	2.0	33	87	0	96	48	15	10	25	1.77
112273--112330	13	4.0	13	76	23	62	29	15	17	37	1.90
112272--112348	32	2.4	32	100	0	154	28	15	19	36	1.92
112286--112348	19	3.6	19	76	24	84	28	15	19	36	1.92
115836--115908	34	2.1	35	85	7	96	57	12	13	16	1.65
116218--116267	19	2.5	20	90	3	75	36	16	16	32	1.90
116642--116716	32	2.3	32	81	4	80	17	6	21	54	1.65
119263--119324	19	3.5	19	76	10	69	79	0	20	0	0.74
119259--119318	6	10.5	6	79	13	56	78	0	21	0	0.75
119829--119893	32	2.0	33	85	8	89	33	7	3	55	1.44
122153--122189	20	1.9	19	89	10	58	40	0	0	59	0.97
122157--122195	19	2.0	20	85	9	55	41	0	0	58	0.98
124005--124052	22	2.1	22	84	3	60	27	2	10	60	1.41
125894--125957	18	3.4	18	68	19	51	54	0	3	42	1.16
126491--126516	4	6.5	4	100	0	52	76	0	0	23	0.78
128409--128441	14	2.4	14	90	10	50	33	0	0	66	0.92
128421--128458	16	2.4	16	86	4	51	36	0	0	63	0.95
129175--129206	12	2.6	12	95	5	55	75	0	0	25	0.81
129468--129503	3	12.0	3	100	0	72	66	0	0	33	0.92
131347--131372	6	4.3	6	100	0	52	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)
131604--131653	17	2.9	17	75	24	52	62	0	0	38	0.96
131604--131652	18	2.8	19	85	11	61	61	0	0	38	0.96
131678--131727	21	2.2	21	82	10	55	36	2	0	62	1.07
131749--131774	2	13.0	2	100	0	52	50	0	0	50	1.00
132405--132456	3	17.3	3	100	0	104	32	0	0	67	0.91
133165--133190	4	6.5	4	100	0	52	73	0	0	26	0.84
133903--133927	2	12.5	2	100	0	50	52	0	0	48	1.00
134859--134889	2	15.5	2	100	0	62	0	51	0	48	1.00
136588--136652	21	3.1	21	95	0	112	26	29	26	18	1.98
137139--137351	78	2.7	78	94	1	363	27	14	20	37	1.92
138238--138356	59	2.0	59	91	0	193	30	21	13	35	1.91
142747--142789	18	2.4	19	76	11	54	58	2	2	37	1.24
142857--142912	22	2.4	24	85	5	71	23	5	26	44	1.74
143137--143186	16	3.1	16	72	18	50	70	0	2	28	0.99
143140--143188	22	2.2	22	85	3	62	69	0	2	28	1.00
144218--144263	14	3.1	15	76	14	51	30	2	6	60	1.34
144234--144272	20	2.0	20	85	10	53	30	5	2	61	1.31
145885--145916	5	6.4	5	100	0	64	37	0	0	62	0.95
146702--146730	15	1.9	15	100	0	58	34	20	10	34	1.87
152702--152740	3	13.0	3	100	0	78	66	0	0	33	0.92
154592--154631	10	3.4	12	83	16	57	60	0	0	40	0.97
154668--154695	3	9.3	3	100	0	56	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
154719--154785	30	2.2	31	86	7	102	56	1	2	38	1.24
155026--155070	21	2.1	21	84	8	56	42	0	2	55	1.12
155104--155194	23	4.0	24	72	15	84	46	3	5	45	1.43
163083--163112	13	2.3	13	94	0	51	90	0	10	0	0.47
163211--163274	32	2.0	32	96	0	119	48	25	3	23	1.65
168058--168576	262	2.0	262	93	0	894	40	19	11	28	1.86
169753--169777	13	1.9	13	100	0	50	36	16	32	16	1.90
172412--172443	2	16.0	2	93	0	55	46	0	3	50	1.17
172455--172485	2	15.5	2	100	0	62	51	0	48	0	1.00
172777--172836	31	1.9	32	86	10	88	45	0	1	53	1.10

Tables:   1   2