genome.fa.s85.2.7.7.80.10.50.1000.1.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: Scaffold85
Parameters: 2 7 7 80 10 50 1000
Length:  1350895

Tables:   1   2   3   4   5   6   

This is table  1  of  6  ( 625 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)
12146--12227	28	2.9	28	80	7	96	26	17	31	24	1.97
12210--12380	51	3.3	51	79	4	198	32	11	26	29	1.92
12363--12438	27	2.8	28	88	6	102	21	21	34	23	1.97
14906--14931	13	2.0	13	100	0	52	38	15	15	30	1.88
14885--14951	33	2.0	33	88	0	98	43	16	14	25	1.86
14971--15038	19	3.9	18	76	23	83	38	14	11	35	1.83
14993--15017	13	1.9	13	100	0	50	32	16	16	36	1.90
14974--15036	32	2.0	32	96	0	117	36	15	12	34	1.86
15094--15192	21	4.7	21	100	0	198	37	22	10	30	1.87
15201--15226	13	2.0	13	100	0	52	7	7	0	84	0.77
18149--18176	13	2.2	13	100	0	56	39	17	14	28	1.89
18221--18272	13	3.5	13	73	26	50	34	19	13	32	1.90
18229--18310	19	4.6	19	81	17	113	35	18	12	34	1.88
18221--18291	32	2.2	32	100	0	142	35	19	12	32	1.90
20148--20203	19	2.9	19	89	2	85	35	12	19	32	1.89
20169--20230	32	1.9	31	87	12	90	38	12	17	30	1.88
21568--21622	20	2.8	20	83	5	67	32	14	14	38	1.87
28675--28738	6	10.7	6	81	17	62	85	12	0	1	0.66
28683--28737	9	6.1	9	83	8	76	87	10	0	1	0.63
28675--28750	12	6.2	12	83	9	73	84	14	0	1	0.69
28683--28737	27	2.0	27	89	6	85	87	10	0	1	0.63
28685--28738	1	54.0	1	77	0	54	88	9	0	1	0.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30027--30730	30	22.6	30	79	9	560	23	28	14	33	1.93
30038--30749	63	11.4	63	81	10	580	23	28	14	33	1.94
30038--30713	157	4.3	157	82	7	729	23	28	14	32	1.94
30538--31109	27	18.8	27	74	15	246	21	31	13	33	1.91
30601--31147	95	6.0	89	75	15	410	20	31	13	34	1.91
30538--31048	122	4.1	125	80	9	475	21	31	12	34	1.91
30771--31147	34	12.0	34	76	13	312	19	32	12	35	1.89
30805--31087	61	4.5	61	86	6	370	19	32	12	36	1.88
31029--31112	26	3.2	26	89	1	123	22	32	13	32	1.92
31121--31244	30	4.3	30	79	10	134	29	30	19	20	1.97
31329--31567	39	5.7	39	71	18	183	25	25	20	28	1.99
31271--31790	87	6.0	87	89	0	707	25	24	19	30	1.98
31599--31719	48	2.9	39	68	19	98	28	23	19	28	1.98
31663--31740	39	2.0	39	89	0	120	29	23	21	25	1.99
31702--31986	49	5.7	49	80	5	277	24	25	18	31	1.98
31702--31986	101	2.8	101	84	4	337	24	25	18	31	1.98
34774--34828	20	2.8	21	81	15	64	36	0	1	61	1.06
34794--34865	26	2.7	26	77	10	74	37	2	4	55	1.34
34820--34863	16	2.6	17	83	13	56	38	4	4	52	1.42
38578--38611	2	16.5	2	93	6	59	50	2	0	47	1.16
40089--40148	30	2.0	30	90	0	93	50	0	6	43	1.28
40750--40786	7	5.6	7	81	12	51	40	0	0	59	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40778--40820	19	2.3	18	80	11	50	48	9	0	41	1.35
41217--41254	18	2.1	18	95	0	67	47	0	0	52	1.00
41258--41302	17	2.5	20	75	17	53	60	0	0	40	0.97
41233--41303	26	2.7	27	72	12	67	60	0	0	39	0.97
41370--41406	13	2.6	15	83	8	51	32	0	2	64	1.07
41352--41418	33	2.0	33	83	11	84	34	0	4	61	1.16
41498--41535	15	2.4	16	82	8	51	55	0	0	44	0.99
41865--41909	23	2.0	23	86	8	65	66	0	0	33	0.92
42800--42849	17	3.0	16	78	18	57	64	0	0	36	0.94
42803--42869	19	3.4	21	74	16	70	67	0	0	32	0.91
42934--42967	13	2.6	14	86	13	54	29	0	0	70	0.87
44040--44098	21	3.0	20	76	19	61	52	6	0	40	1.28
44045--44098	20	2.8	18	81	13	63	55	7	0	37	1.28
45103--45152	21	2.5	20	81	9	59	32	6	6	56	1.48
49160--49203	13	3.1	14	77	9	54	75	0	15	9	1.05
49283--49332	2	25.0	2	100	0	100	50	0	0	50	1.00
55443--55574	28	4.9	27	70	16	78	37	1	2	59	1.19
55554--55584	16	1.9	16	93	0	53	32	6	3	58	1.40
55534--55583	20	2.5	20	87	9	66	32	2	4	62	1.25
70903--70936	14	2.4	14	95	0	59	20	32	11	35	1.89
75954--76017	1	64.0	1	77	0	65	89	10	0	0	0.50
75954--76017	14	4.4	14	84	7	92	89	10	0	0	0.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
75954--76017	30	2.2	29	91	8	103	89	10	0	0	0.50
75954--76017	27	2.4	26	92	5	101	89	10	0	0	0.50
77248--77349	31	3.3	31	84	10	154	24	34	15	25	1.95
77242--77361	62	1.9	62	93	0	204	23	34	15	26	1.95
77331--77682	37	9.5	37	97	0	661	19	35	10	34	1.86
77750--78881	95	11.9	95	98	0	2153	25	25	18	31	1.97
79570--79594	13	1.9	13	100	0	50	36	16	16	32	1.90
79550--79616	33	2.0	33	88	0	98	32	11	14	40	1.83
79657--79681	13	1.9	13	100	0	50	32	16	16	36	1.90
86150--87539	57	24.2	57	85	6	1497	30	31	16	21	1.95
86150--87539	87	16.1	87	84	7	1429	30	31	16	21	1.95
86150--87519	144	9.6	143	88	3	1524	30	31	17	21	1.96
87605--87671	21	3.2	21	66	29	61	26	25	17	29	1.98
87593--87659	21	3.1	23	65	30	65	28	25	19	26	1.99
87582--87995	49	8.8	49	77	12	368	25	24	17	33	1.96
87717--87906	92	2.1	92	91	2	310	25	22	16	35	1.94
87574--88004	141	3.1	140	84	7	497	24	24	17	33	1.96
96896--96933	17	2.3	17	90	4	60	31	0	2	65	1.06
100997--101071	35	2.1	38	87	12	113	46	0	1	52	1.09
103887--103962	30	2.5	30	77	8	91	42	1	10	46	1.46
104387--104438	26	1.9	28	84	7	72	57	3	1	36	1.28
104945--104986	17	2.5	17	88	7	59	45	0	2	52	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
104980--105020	19	2.2	19	86	8	57	63	0	0	36	0.95
104975--105050	35	2.3	35	86	13	108	64	1	0	34	1.02
105121--105147	8	3.4	8	100	0	54	25	0	0	74	0.83
105245--105297	16	3.6	14	78	14	52	49	1	1	47	1.23
108903--108957	20	2.8	20	88	5	76	38	12	16	32	1.86
108987--109049	19	3.7	18	76	24	73	36	19	12	31	1.89
108979--109049	32	2.2	32	94	0	124	36	19	12	30	1.89
112194--112223	2	15.5	2	93	6	53	50	0	0	50	1.00
112377--112431	27	2.0	27	100	0	110	45	10	10	32	1.74
112739--113102	186	2.0	182	86	4	511	38	6	12	43	1.67
116133--116188	2	28.0	2	100	0	112	50	0	0	50	1.00
118498--118526	3	9.7	3	100	0	58	31	0	0	68	0.89
119624--119687	29	2.2	31	77	11	71	43	0	6	50	1.27
120718--120770	2	26.0	2	84	3	70	47	0	5	47	1.26
120999--121079	33	2.4	32	82	14	83	32	0	6	61	1.20
121141--121539	110	3.7	109	84	3	426	34	17	16	31	1.92
121168--121615	110	4.1	110	81	6	340	34	16	17	32	1.92
122127--122156	11	2.7	11	94	0	51	20	23	10	46	1.80
127358--127412	20	2.8	20	86	5	67	40	12	14	32	1.84
132119--132143	13	1.9	13	100	0	50	36	16	16	32	1.90
132186--132248	19	3.7	18	76	24	73	36	17	12	33	1.88
132181--132281	32	3.1	32	94	1	166	35	15	11	36	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
132205--132259	13	3.8	13	75	25	56	32	16	14	36	1.89
139674--140063	28	14.3	26	73	8	251	33	27	16	22	1.95
139677--140063	54	7.1	54	77	5	268	33	28	16	22	1.95
140359--140393	18	1.9	18	88	0	52	82	5	0	11	0.82
141619--141652	2	17.5	2	87	6	52	47	0	2	50	1.16
141658--141700	16	2.7	15	79	13	50	30	0	4	65	1.13
141775--142211	110	4.0	109	84	4	504	34	17	16	30	1.93
141772--142210	218	2.0	219	83	3	544	34	17	16	31	1.93
143567--143632	35	1.9	35	81	3	80	36	1	0	62	1.05
143590--143632	17	2.5	17	80	3	59	34	0	0	65	0.93

Tables:   1   2   3   4   5   6