genome.fa.s46.2.7.7.80.10.50.1000.12.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: Scaffold46
Parameters: 2 7 7 80 10 50 1000
Length:  2524624

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  12  of  15  ( 1780 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)
1880367--1880416	19	2.6	19	87	0	82	40	10	12	38	1.76
1881203--1881537	49	7.0	49	77	8	210	32	15	25	26	1.95
1881306--1881532	43	5.0	43	75	13	161	31	16	25	26	1.96
1881628--1881901	27	9.1	32	71	17	201	34	11	31	21	1.90
1881646--1881809	32	5.7	27	72	14	130	32	10	32	23	1.90
1881625--1881901	59	4.6	59	83	2	329	34	11	31	22	1.90
1881625--1881901	120	2.3	118	85	3	358	34	11	31	22	1.90
1883317--1883374	27	2.2	26	87	9	82	1	1	12	84	0.78
1888211--1888339	52	2.5	52	92	0	213	28	17	17	37	1.92
1888348--1888372	13	1.9	13	100	0	50	36	16	16	32	1.90
1888425--1888489	19	3.7	19	73	23	70	38	16	10	33	1.84
1888418--1888487	32	2.2	32	94	0	122	37	17	11	34	1.85
1888444--1888468	13	1.9	13	100	0	50	32	16	16	36	1.90
1889433--1889619	49	3.9	48	75	10	150	31	16	24	28	1.96
1889312--1889614	87	3.4	86	78	5	300	30	17	23	28	1.97
1889621--1889762	28	5.0	28	79	11	137	19	18	28	33	1.96
1889636--1889794	85	1.9	85	81	12	193	21	15	30	32	1.94
1889760--1889867	35	3.1	34	88	5	146	38	12	30	18	1.87
1889908--1889993	32	2.7	32	81	5	84	37	16	29	17	1.91
1889978--1890142	30	5.7	29	81	11	189	20	17	30	31	1.95
1889969--1890142	87	2.0	87	89	2	269	21	16	31	30	1.96
1890001--1890148	57	2.6	56	87	7	190	21	16	31	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1891575--1891654	16	4.7	18	70	22	66	0	6	11	82	0.83
1891591--1891647	14	3.6	16	79	11	73	0	7	10	82	0.84
1891589--1891642	22	2.4	21	82	11	63	0	5	11	83	0.80
1891577--1891658	30	2.9	28	79	15	96	0	7	10	81	0.86
1891638--1891676	11	3.6	11	79	6	53	0	17	2	79	0.84
1891575--1891677	49	2.1	49	82	13	124	0	9	9	80	0.90
1896178--1896247	33	2.1	33	89	0	104	34	11	14	40	1.82
1896198--1896222	13	1.9	13	100	0	50	36	16	16	32	1.90
1896287--1896311	13	1.9	13	100	0	50	32	16	16	36	1.90
1896320--1896440	52	2.3	52	95	0	215	35	17	18	28	1.93
1912037--1912183	52	2.8	52	88	2	215	31	16	17	34	1.92
1912251--1912315	19	3.7	19	75	23	79	38	16	12	32	1.86
1912244--1912313	32	2.2	32	97	0	131	37	17	12	32	1.87
1912270--1912294	13	1.9	13	100	0	50	32	16	16	36	1.90
1919434--1919499	19	3.7	19	69	29	63	43	13	12	30	1.80
1919452--1919477	13	2.0	13	100	0	52	38	15	15	30	1.88
1919434--1919498	34	2.0	33	90	6	105	44	13	12	29	1.81
1925656--1925693	13	2.9	13	96	0	67	34	18	15	31	1.92
1925805--1925850	21	2.2	20	81	11	58	32	19	4	43	1.71
1928240--1928265	13	2.0	13	100	0	52	38	15	15	30	1.88
1928222--1928286	34	2.0	33	87	6	96	46	13	10	29	1.77
1930281--1930356	25	3.0	25	86	7	100	32	9	19	38	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1930281--1930414	26	5.2	26	77	5	119	32	8	20	39	1.82
1937028--1937081	20	2.7	20	85	8	65	42	9	14	33	1.78
1937143--1937353	105	2.0	104	96	0	386	30	16	10	42	1.83
1946662--1946777	29	3.9	30	80	4	119	30	31	11	26	1.91
1946662--1946777	59	2.0	60	81	5	137	30	31	11	26	1.91
1946746--1946835	33	2.6	34	84	8	103	22	27	10	40	1.86
1946908--1947315	31	12.8	31	80	4	420	32	31	16	20	1.94
1946908--1947315	64	6.4	63	79	5	385	32	31	16	20	1.94
1946907--1947271	95	3.9	94	82	6	373	32	31	15	20	1.94
1947383--1947521	52	2.7	52	85	0	197	28	20	12	38	1.89
1947530--1947789	113	2.3	113	80	0	304	25	24	14	35	1.93
1947675--1947850	61	2.9	61	82	1	219	26	24	13	36	1.92
1958809--1958836	2	14.0	2	100	0	56	0	0	50	50	1.00
1964948--1964982	15	2.3	15	90	5	52	37	2	0	60	1.12
1964948--1964996	16	3.1	15	85	5	53	40	2	0	57	1.10
1968901--1968954	20	2.7	20	88	11	76	33	18	14	33	1.92
1969625--1969677	24	2.2	24	96	0	97	9	26	7	56	1.57
1978835--1978862	13	2.2	13	100	0	56	32	0	7	60	1.24
1987030--1987068	20	2.0	20	94	0	69	35	2	2	58	1.25
1987187--1987245	24	2.5	23	69	2	55	49	3	1	45	1.28
1987216--1987303	26	3.3	25	73	17	72	59	2	0	38	1.10
1987195--1987315	51	2.4	49	76	17	122	55	2	0	41	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1987216--1987284	29	2.6	27	72	14	63	59	2	0	37	1.12
1987922--1987956	16	2.2	16	94	0	61	57	0	2	40	1.14
1988373--1988414	19	2.3	19	87	4	59	52	4	0	42	1.22
1991441--1991523	41	2.0	40	81	6	96	48	1	0	50	1.08
1992320--1992399	31	2.5	31	84	8	99	51	0	3	45	1.19
1992316--1992432	17	7.3	16	65	17	55	53	0	2	43	1.14
1993031--1993061	14	2.3	14	94	5	55	41	6	3	48	1.45
1993427--1993460	15	2.3	15	100	0	68	20	20	11	47	1.81
1999755--1999796	22	2.0	21	81	13	50	45	9	4	40	1.58
2001596--2001620	13	1.9	13	100	0	50	36	16	16	32	1.90
2001575--2001639	33	2.0	32	88	8	96	30	15	15	38	1.88
2001626--2001664	20	2.0	20	100	0	78	43	10	15	30	1.80
2001690--2001763	20	3.9	19	75	20	75	28	14	17	39	1.89
2001691--2001758	35	1.9	35	88	5	102	30	14	17	36	1.90
2007831--2007856	13	2.0	13	100	0	52	30	15	15	38	1.88
2009726--2009798	30	2.4	30	97	2	137	39	12	19	28	1.88
2010360--2010384	13	1.9	13	100	0	50	36	16	16	32	1.90
2010432--2010483	13	4.5	13	68	26	53	32	15	15	36	1.89
2022623--2022709	36	2.5	35	74	9	88	39	2	1	57	1.19
2023676--2023786	39	2.8	39	76	0	114	42	2	12	42	1.57
2023837--2024246	165	2.5	165	84	4	513	41	7	18	32	1.78
2024426--2024494	22	3.1	22	87	0	102	39	8	17	34	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2027919--2027982	28	2.3	28	89	5	94	25	32	18	23	1.97
2027948--2028304	80	4.5	80	82	3	396	27	29	11	31	1.92
2032453--2032499	14	3.3	14	82	5	58	2	23	0	74	0.93
2032562--2032616	20	2.7	21	80	11	60	56	10	1	30	1.44
2033765--2033814	22	2.1	21	82	17	55	48	6	0	46	1.27
2037717--2037774	23	2.6	22	71	12	57	34	10	0	55	1.34
2040561--2040625	18	3.8	17	69	18	55	46	1	1	50	1.20
2041764--2041799	16	2.2	16	90	0	54	16	5	27	50	1.68
2042650--2042726	16	4.8	16	77	6	84	14	16	24	44	1.85
2042650--2042742	32	2.9	32	85	4	107	15	15	24	45	1.84
2043511--2043550	9	4.7	9	87	12	66	80	10	0	10	0.92
2043511--2043550	16	2.4	17	91	8	64	80	10	0	10	0.92
2043475--2043602	55	2.4	54	81	15	149	75	4	0	18	1.02
2044151--2044240	44	2.0	44	93	0	153	38	21	24	15	1.92
2044263--2044296	13	2.6	13	90	0	59	82	0	0	17	0.67
2057618--2057676	21	2.7	22	77	15	52	61	10	11	16	1.57
2057899--2058333	42	10.3	43	84	3	291	13	30	18	37	1.90
2057918--2058331	84	4.9	83	83	3	463	13	30	19	36	1.90
2057918--2058332	126	3.3	126	84	5	516	13	30	19	36	1.90
2058812--2058925	24	5.0	23	75	15	101	72	4	0	21	1.07
2059965--2060166	79	2.6	79	83	3	228	29	16	28	25	1.97
2060118--2060189	28	2.6	28	88	0	99	23	19	34	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2060178--2060514	52	6.4	52	68	17	194	31	12	26	30	1.92
2060334--2060404	27	2.6	27	86	2	88	22	19	32	25	1.98
2060064--2060456	107	3.7	106	72	11	334	30	14	27	27	1.95
2060111--2060516	212	1.9	212	89	3	629	31	13	27	28	1.94
2060393--2060511	51	2.3	53	84	7	145	33	10	22	32	1.89
2062873--2062898	13	2.0	13	100	0	52	38	15	15	30	1.88
2062852--2062918	33	2.0	33	88	0	98	41	16	16	25	1.88
2062938--2063005	19	3.9	18	76	23	83	38	14	11	35	1.83
2062960--2062984	13	1.9	13	100	0	50	32	16	16	36	1.90
2062941--2063003	32	2.0	32	96	0	117	36	15	12	34	1.86

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15