genome.fa.s89.2.7.7.80.10.50.1000.13.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: Scaffold89
Parameters: 2 7 7 80 10 50 1000
Length:  5168001

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   26   27   

This is table  13  of  27  ( 3236 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)
1950139--1950215	36	2.1	36	81	9	86	19	3	10	66	1.38
1952193--1952247	27	2.0	27	82	0	65	21	14	50	12	1.76
1952494--1952544	26	1.9	27	92	4	86	43	0	1	54	1.11
1954217--1954264	2	24.0	2	95	0	87	50	2	0	47	1.12
1954338--1954382	21	2.1	21	91	0	72	40	8	4	46	1.55
1954504--1954534	15	2.0	16	93	6	55	58	0	0	41	0.98
1954517--1954559	20	2.0	21	82	8	52	46	0	0	53	1.00
1954781--1954834	6	9.8	6	81	18	73	31	0	0	68	0.90
1954781--1954834	15	3.3	18	80	19	73	31	0	0	68	0.90
1954784--1954834	27	2.0	25	92	7	84	31	0	0	68	0.90
1955086--1955153	23	2.9	24	80	8	86	54	0	0	45	0.99
1955110--1955200	18	5.1	18	69	19	55	51	0	1	47	1.07
1955117--1955210	38	2.4	42	78	12	108	51	0	1	47	1.07
1959050--1959114	23	3.0	22	76	14	62	52	0	0	47	1.00
1959053--1959114	12	5.5	12	73	11	51	51	0	0	48	1.00
1960902--1961155	34	7.5	34	79	11	202	42	23	7	26	1.80
1960903--1961155	68	3.7	67	80	4	292	42	23	7	26	1.80
1960903--1961155	102	2.5	100	84	7	323	42	23	7	26	1.80
1965558--1965779	34	6.6	33	82	6	257	40	22	8	27	1.82
1965558--1965779	102	2.2	101	86	4	322	40	22	8	27	1.82
1967950--1967974	12	2.1	12	100	0	50	32	0	0	68	0.90
1970432--1970493	29	2.1	30	85	8	83	43	0	1	54	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1970481--1970523	18	2.5	17	80	3	50	23	2	4	69	1.18
1971093--1971129	18	2.0	19	89	5	58	59	2	0	37	1.12
1971743--1971780	2	19.0	2	100	0	76	50	0	0	50	1.00
1973081--1973196	38	3.1	38	71	20	93	53	0	3	42	1.23
1973096--1973203	35	3.0	35	77	15	112	52	0	3	42	1.25
1973099--1973242	40	3.8	38	72	21	97	55	0	2	40	1.19
1973174--1973242	24	3.2	23	80	17	78	59	0	1	39	1.06
1973176--1973231	23	2.4	25	72	19	59	55	0	1	42	1.10
1982251--1982314	18	3.7	17	77	8	58	57	0	0	42	0.98
1983002--1983042	3	13.7	3	94	0	73	63	0	0	36	0.95
1983476--1983513	2	19.0	2	100	0	76	50	0	0	50	1.00
1984048--1984076	3	9.7	3	100	0	58	31	0	0	68	0.89
1984703--1984747	17	2.7	16	76	10	54	33	0	2	64	1.06
1984721--1984763	14	3.1	14	80	12	52	23	0	2	74	0.93
2000119--2000151	15	2.3	15	89	5	50	57	0	0	42	0.98
2000475--2000527	27	2.0	27	88	3	81	35	0	3	60	1.15
2000497--2000594	16	6.2	16	75	8	85	34	3	1	61	1.18
2000498--2000589	31	3.0	30	81	10	105	35	3	1	59	1.21
2000584--2000622	17	2.6	14	84	15	51	23	2	2	71	1.10
2000503--2000620	15	7.5	15	71	15	69	31	3	1	63	1.21
2000623--2000652	15	2.0	15	93	0	51	60	0	3	36	1.14
2002218--2002252	3	11.7	3	93	0	61	65	0	2	31	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2003584--2004839	318	4.0	317	98	0	2361	24	12	18	44	1.85
2008692--2008750	30	1.9	30	82	3	73	42	0	0	57	0.98
2008730--2008769	16	2.4	17	79	8	55	40	0	0	60	0.97
2020910--2020941	2	16.0	2	93	0	55	50	3	0	46	1.17
2020970--2021012	3	14.3	3	100	0	86	67	0	0	32	0.91
2021964--2022005	20	2.1	20	86	0	57	38	0	0	61	0.96
2022291--2022325	3	11.7	3	100	0	70	31	0	0	68	0.90
2024956--2025008	21	2.5	21	76	14	54	15	11	3	69	1.31
2025706--2025742	20	1.9	19	89	10	58	64	0	5	29	1.15
2026000--2026035	17	2.0	19	89	10	58	61	2	5	30	1.33
2031056--2031102	15	3.1	15	73	11	51	34	0	0	65	0.93
2031054--2031130	30	2.6	29	78	13	68	38	1	0	59	1.06
2031107--2031153	21	2.1	24	85	14	66	46	0	2	51	1.13
2036936--2036981	21	2.1	22	84	4	58	32	4	2	60	1.28
2040864--2040907	3	14.7	3	86	9	63	34	0	0	65	0.93
2041007--2041051	6	8.0	6	76	14	51	66	2	0	31	1.04
2041004--2041051	11	4.4	11	91	0	78	64	2	0	33	1.05
2041024--2041098	37	2.0	37	82	10	91	54	2	1	41	1.23
2041011--2041138	20	6.4	20	68	17	63	56	1	0	41	1.14
2041004--2041130	11	12.0	11	73	15	54	55	1	0	42	1.15
2043249--2043280	3	10.7	3	100	0	64	34	0	0	65	0.93
2044276--2044317	3	14.0	3	100	0	84	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2045456--2045508	26	2.0	27	85	10	74	49	9	0	41	1.35
2046624--2046671	15	3.1	14	83	16	60	43	0	0	56	0.99
2046626--2046671	16	2.9	16	87	3	67	45	0	0	54	0.99
2046616--2046674	26	2.3	26	88	5	84	40	0	0	59	0.97
2047156--2047181	3	8.7	3	100	0	52	34	0	0	65	0.93
2048009--2048053	19	2.3	20	81	11	58	62	0	2	35	1.08
2048927--2048954	3	9.3	3	100	0	56	32	0	0	67	0.91
2058723--2058780	27	2.0	29	83	9	75	37	1	0	60	1.07
2058782--2058823	17	2.5	17	77	14	50	30	0	2	66	1.04
2059465--2059505	22	2.0	20	85	9	55	51	7	0	41	1.30
2065879--2065920	21	2.0	22	85	4	59	38	0	2	59	1.10
2067112--2067146	2	17.5	2	100	0	70	48	0	0	51	1.00
2074945--2074985	12	3.3	13	83	10	50	43	0	0	56	0.99
2075219--2075299	33	2.4	35	82	13	100	48	0	0	51	1.00
2075280--2075349	18	4.5	15	72	15	61	38	0	1	60	1.06
2078027--2078068	22	1.9	22	85	9	59	57	0	0	42	0.99
2078128--2078183	23	2.5	22	82	8	67	60	1	0	37	1.07
2078140--2078194	23	2.4	24	84	6	69	61	1	0	36	1.06
2078242--2078276	16	2.3	15	90	5	52	62	2	0	34	1.10
2078239--2078283	15	3.1	15	77	22	51	62	2	0	35	1.08
2078743--2078810	18	3.7	19	75	16	72	66	0	0	33	0.92
2080346--2080393	22	2.1	22	85	11	62	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2082437--2082493	16	3.6	16	70	0	51	52	0	0	47	1.00
2082419--2082504	32	2.8	32	87	3	122	53	1	1	44	1.15
2082420--2082522	32	3.3	32	83	2	93	50	1	1	45	1.24
2082645--2082684	19	2.0	20	85	4	55	47	0	0	52	1.00
2083754--2083812	26	2.3	26	79	5	66	49	0	0	50	1.00
2084178--2084202	2	12.5	2	100	0	50	48	0	0	52	1.00
2084511--2084546	12	3.0	12	91	0	54	41	0	0	58	0.98
2084566--2084684	64	1.9	61	81	10	143	52	0	0	46	1.12
2084709--2084756	19	2.5	19	89	0	78	37	0	0	62	0.95
2085563--2085634	9	8.2	8	73	21	56	56	1	2	38	1.22
2085566--2085635	13	5.3	13	75	8	52	58	1	2	37	1.22
2085571--2085635	26	2.3	27	82	15	71	56	1	3	38	1.24
2086835--2086884	18	2.6	19	79	17	59	58	0	0	42	0.98
2087151--2087188	3	12.7	3	100	0	76	68	0	0	31	0.90
2088524--2088566	22	2.0	22	86	8	63	55	0	4	39	1.20
2094418--2094689	53	4.9	52	70	17	174	47	2	1	47	1.28
2094569--2094602	15	2.3	15	94	0	59	67	0	0	32	0.91
2094403--2094742	170	2.0	171	98	1	664	47	3	1	47	1.28
2094403--2094689	54	5.1	54	67	16	158	48	3	1	46	1.28
2094880--2094918	2	19.5	2	100	0	78	51	0	0	48	1.00
2103251--2103324	13	5.7	13	73	25	59	56	5	0	37	1.22
2103278--2103320	11	3.9	11	85	8	61	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2105414--2105478	24	2.7	24	81	11	80	52	0	1	46	1.10
2105604--2105670	18	3.9	18	67	15	52	38	0	4	56	1.19
2105654--2105710	25	2.2	27	78	12	66	35	1	0	63	1.05
2105638--2105738	19	5.5	19	68	26	58	39	1	0	58	1.09
2105638--2105717	34	2.4	34	83	10	94	37	1	0	61	1.04
2105901--2105938	20	2.0	19	90	10	60	31	0	0	68	0.90
2106229--2106261	17	1.9	17	93	0	57	78	0	15	6	0.93
2106227--2106282	21	2.7	20	76	17	60	76	0	19	3	0.93
2106302--2106369	24	2.7	27	77	15	81	36	0	0	63	0.95
2106325--2106355	16	2.0	16	93	6	55	41	0	0	58	0.98

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   26   27