genome.fa.s59.2.7.7.80.10.50.1000.15.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: Scaffold59
Parameters: 2 7 7 80 10 50 1000
Length:  3999109

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   

This is table  15  of  25  ( 2913 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)
2265425--2265478	15	3.8	15	75	22	62	37	0	0	62	0.95
2265414--2265480	11	6.5	11	75	17	65	37	0	0	62	0.95
2265680--2265729	17	3.2	16	76	13	52	50	0	0	50	1.00
2265868--2265906	19	2.1	19	85	0	51	43	2	0	53	1.14
2266899--2266931	2	16.5	2	100	0	66	0	48	0	51	1.00
2267887--2267932	20	2.3	20	84	0	56	32	4	52	10	1.56
2269958--2270003	21	2.1	22	84	4	58	19	30	19	30	1.97
2275414--2275452	15	2.8	14	81	11	53	64	0	0	35	0.94
2275652--2275711	26	2.2	28	82	8	79	40	0	0	60	0.97
2275645--2275714	34	2.0	35	83	5	88	41	0	0	58	0.98
2276079--2276173	17	5.6	17	74	17	83	45	1	1	52	1.14
2276080--2276177	6	17.3	6	69	17	50	46	1	1	51	1.14
2276189--2276250	29	2.0	29	82	14	72	54	0	0	45	0.99
2277229--2277289	21	2.9	22	75	20	60	49	0	0	50	1.00
2277224--2277297	22	3.5	22	70	22	59	47	0	0	52	1.00
2278049--2278092	2	22.0	2	100	0	88	50	0	0	50	1.00
2281045--2281090	17	2.9	17	81	12	62	60	0	2	36	1.09
2281586--2281638	23	2.2	24	81	15	58	49	1	0	49	1.12
2282190--2282228	15	2.8	14	81	11	53	64	0	0	35	0.94
2282428--2282487	26	2.2	28	82	8	79	40	0	0	60	0.97
2282421--2282490	34	2.0	35	83	5	88	41	0	0	58	0.98
2282855--2282949	17	5.6	17	74	17	83	45	1	1	52	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2282856--2282953	6	17.3	6	69	17	50	46	1	1	51	1.14
2282965--2283026	29	2.0	29	82	14	72	54	0	0	45	0.99
2284005--2284065	21	2.9	22	75	20	60	49	0	0	50	1.00
2284000--2284073	22	3.5	22	70	22	59	47	0	0	52	1.00
2284825--2284868	2	22.0	2	100	0	88	50	0	0	50	1.00
2286566--2286607	20	2.1	20	86	8	59	26	4	0	69	1.08
2292267--2292366	24	4.1	24	71	13	64	44	1	0	55	1.06
2292328--2292396	28	2.5	28	81	6	86	40	1	0	57	1.07
2292798--2292839	19	2.2	19	83	8	50	52	0	0	47	1.00
2293293--2293330	18	2.1	19	85	5	51	31	7	0	60	1.25
2293468--2293498	2	15.5	2	100	0	62	48	0	0	51	1.00
2293701--2293740	11	3.6	11	83	10	55	42	0	0	57	0.98
2293822--2293864	2	21.5	2	100	0	86	0	48	0	51	1.00
2295799--2295823	13	1.9	13	100	0	50	84	0	0	16	0.63
2297364--2297391	10	2.8	10	100	0	56	53	0	0	46	1.00
2297381--2297431	15	3.2	17	81	13	72	58	0	1	39	1.09
2298413--2298514	6	16.2	6	70	22	50	60	0	0	38	1.03
2298375--2298472	33	3.0	32	75	15	85	60	0	1	38	1.04
2298435--2298489	15	3.8	15	79	13	62	60	0	0	40	0.97
2298455--2298515	8	7.5	8	77	20	56	62	1	0	36	1.05
2298421--2298480	21	2.9	21	76	20	63	58	0	0	41	0.98
2298419--2298521	28	3.9	27	77	17	83	60	0	0	38	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2298444--2298542	27	3.6	28	77	14	91	58	1	0	40	1.05
2298853--2298886	5	6.8	5	100	0	68	58	0	0	41	0.98
2298985--2299058	17	4.4	17	74	19	66	47	0	0	52	1.00
2298957--2299058	36	2.9	34	82	8	98	48	0	0	50	1.07
2298990--2299080	43	2.1	45	83	4	114	49	0	0	50	1.00
2300346--2300402	12	5.3	11	76	17	57	36	1	1	59	1.18
2300340--2300388	24	2.0	24	88	0	71	40	2	2	55	1.23
2300365--2300402	19	2.0	20	89	5	60	34	2	0	63	1.09
2300444--2300501	29	2.0	30	86	3	82	34	1	1	62	1.16
2300444--2300494	14	3.6	14	78	5	57	33	1	1	62	1.17
2300510--2300566	22	2.8	20	74	15	55	57	1	7	33	1.36
2301477--2301522	16	2.6	18	80	16	60	50	4	0	45	1.21
2303383--2303450	19	3.4	19	74	25	61	54	1	2	41	1.24
2303657--2303699	12	3.6	13	82	17	58	37	0	0	62	0.95
2304234--2304272	9	4.6	8	84	6	51	48	2	2	46	1.29
2305257--2305315	28	2.1	28	87	9	86	35	1	5	57	1.31
2305394--2305424	16	1.9	16	93	0	53	19	12	0	67	1.22
2305415--2305458	22	2.0	22	86	0	61	38	2	2	56	1.24
2305761--2305790	13	2.3	13	94	0	51	40	0	0	60	0.97
2306619--2306658	14	2.9	14	76	0	53	47	2	0	50	1.14
2308289--2308363	30	2.5	29	76	20	73	33	10	4	52	1.55
2309656--2309691	19	1.9	18	88	5	54	61	5	2	30	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2309813--2309861	22	2.3	22	85	3	64	44	2	6	46	1.39
2310402--2310452	21	2.4	21	75	18	52	50	0	9	39	1.35
2310609--2310664	21	2.5	23	82	8	71	44	0	1	53	1.11
2310622--2310671	26	1.9	26	84	8	66	46	0	2	52	1.12
2310941--2310971	2	15.5	2	100	0	62	51	0	0	48	1.00
2312541--2312581	21	2.0	21	90	9	66	56	0	0	43	0.99
2312550--2312609	30	2.0	30	84	9	79	55	0	1	43	1.10
2312970--2313003	17	2.0	17	94	0	59	44	2	5	47	1.42
2313341--2313394	24	2.2	24	81	15	67	57	0	0	42	0.98
2313813--2313881	16	4.4	16	81	9	70	49	0	0	50	1.00
2313774--2313888	14	7.4	16	70	18	75	53	0	0	46	1.06
2313780--2313882	47	2.2	46	78	14	113	51	0	0	48	1.00
2314589--2314645	16	3.4	16	82	4	69	54	0	0	45	0.99
2318495--2318548	17	3.2	16	85	14	74	61	0	0	38	0.96
2319630--2319709	23	3.3	23	76	10	72	51	0	0	48	1.00
2319637--2319737	32	3.1	34	78	13	97	53	0	0	46	1.00
2319676--2319784	15	7.0	15	72	20	73	56	0	0	42	1.05
2319656--2319784	9	13.9	10	67	24	70	55	0	0	44	1.05
2319683--2319777	29	3.2	30	76	19	92	57	0	1	41	1.05
2319704--2319795	15	6.6	14	66	20	50	57	0	1	41	1.06
2319740--2319800	29	2.1	28	88	8	88	54	0	0	45	1.00
2319774--2319824	21	2.3	23	83	6	70	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2319811--2319861	23	2.2	24	86	10	70	29	0	1	68	1.00
2320277--2320317	21	1.9	22	85	5	57	46	0	4	48	1.23
2320634--2320682	14	3.3	16	78	16	61	48	0	0	51	1.00
2320633--2320702	29	2.4	29	80	17	76	48	0	2	48	1.16
2321094--2321148	25	2.2	25	77	6	58	49	3	1	45	1.30
2324311--2324396	16	5.6	15	77	9	84	52	0	1	46	1.08
2324303--2324396	30	3.1	31	81	6	95	54	0	1	44	1.07
2324311--2324400	47	1.9	47	82	10	114	52	0	1	46	1.07
2324876--2324929	22	2.3	23	75	15	58	51	1	0	46	1.11
2325214--2325265	16	3.2	16	81	8	52	50	0	1	48	1.12
2326761--2326835	20	3.8	20	76	0	78	34	14	12	38	1.83
2326761--2326838	40	2.0	39	84	2	102	34	14	12	38	1.84
2333902--2333944	15	2.7	17	79	17	56	65	11	18	4	1.42
2333925--2333976	23	2.3	23	83	12	63	75	7	11	5	1.19
2335253--2336784	27	56.0	27	92	2	2452	22	34	14	27	1.94
2335253--2336784	82	18.7	81	91	2	2452	22	34	14	27	1.94
2335253--2336784	219	7.0	217	92	2	2469	22	34	14	27	1.94
2336768--2337317	32	17.2	32	94	0	904	29	33	18	17	1.94
2337892--2337966	20	3.8	20	76	0	78	34	14	12	38	1.83
2337892--2337969	40	2.0	39	84	2	102	34	14	12	38	1.84
2342129--2342190	25	2.4	25	83	2	88	32	1	3	62	1.20
2342129--2342197	26	2.7	24	73	10	66	30	1	4	63	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2342757--2342812	22	2.5	22	80	16	62	48	0	0	51	1.00
2342807--2342888	17	5.2	16	71	21	59	43	1	1	53	1.16
2342798--2342888	29	3.0	28	79	14	101	45	1	1	52	1.15
2342910--2343017	57	1.9	55	81	9	128	39	2	0	56	1.20
2344227--2344260	15	2.1	17	89	10	54	44	11	0	44	1.40
2344401--2344444	23	2.0	22	83	12	56	45	0	0	54	0.99
2351293--2351331	5	7.8	5	88	11	62	17	0	0	82	0.68
2351293--2351326	16	2.1	16	100	0	68	17	0	0	82	0.67
2352523--2352560	16	2.5	15	87	8	51	55	2	0	42	1.14
2356449--2356542	15	6.1	15	68	21	61	57	2	2	38	1.23

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25