genome.fa.s24.2.7.7.80.10.50.1000.13.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: Scaffold24
Parameters: 2 7 7 80 10 50 1000
Length:  3006277

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  13  of  19  ( 2215 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)
1987133--1987173	14	3.1	14	82	10	50	41	0	0	58	0.98
1987150--1987193	23	1.9	23	90	0	70	47	0	0	52	1.00
1987132--1987193	23	2.6	24	77	12	65	43	0	0	56	0.99
1987430--1987473	2	22.0	2	100	0	88	0	50	0	50	1.00
1988383--1988449	17	3.5	19	82	8	66	52	1	0	46	1.09
1988437--1988528	40	2.3	41	81	12	111	51	0	0	48	1.00
1988502--1988550	24	2.0	24	84	7	64	67	0	0	32	0.91
1988973--1989006	3	11.3	3	93	0	59	0	0	29	70	0.87
1991068--1991129	16	3.9	16	78	0	61	41	3	1	53	1.27
1993778--1993816	3	13.0	3	100	0	78	33	0	0	66	0.92
1994327--1994357	3	10.3	3	100	0	62	67	0	0	32	0.91
1996166--1996204	20	2.0	20	90	10	62	56	0	2	41	1.13
1996447--1996475	2	14.5	2	100	0	58	48	0	51	0	1.00
1998532--1998579	21	2.3	21	76	16	55	6	18	0	75	1.01
1999254--1999296	17	2.6	16	81	7	50	53	0	0	46	1.00
1999254--1999298	16	2.7	17	82	6	56	53	0	0	46	1.00
1999679--1999736	26	2.2	27	81	6	75	55	0	3	41	1.17
1999870--1999914	7	6.1	7	80	10	54	37	0	0	62	0.96
1999865--1999910	23	2.0	23	91	0	74	43	0	0	56	0.99
1999875--1999941	16	4.3	16	75	12	77	41	1	0	56	1.08
1999880--1999972	46	2.0	45	80	13	102	46	1	0	52	1.07
1999954--1999984	16	1.9	16	100	0	62	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2003221--2003259	12	3.5	12	83	16	57	58	0	0	41	0.98
2003221--2003251	5	6.0	5	92	7	53	58	0	0	41	0.98
2004139--2004193	28	2.0	28	86	13	78	56	0	0	43	0.99
2015227--2015560	174	1.9	174	88	0	506	29	17	24	27	1.97
2019073--2019129	18	3.4	18	71	26	61	45	0	0	54	0.99
2019718--2019880	83	2.0	82	88	1	245	21	11	12	55	1.67
2023427--2023453	13	2.1	13	100	0	54	48	0	0	51	1.00
2024293--2024317	4	6.2	4	100	0	50	76	0	0	24	0.80
2024364--2024397	5	6.8	5	100	0	68	82	0	0	17	0.67
2027429--2027453	12	2.1	12	100	0	50	32	16	0	52	1.44
2028112--2028141	15	1.9	16	93	6	53	56	10	33	0	1.32
2032496--2032545	23	2.2	23	78	3	57	54	4	0	42	1.19
2035205--2035230	12	2.2	12	100	0	52	30	7	7	53	1.57
2035762--2035830	28	2.4	28	79	11	70	34	4	1	59	1.26
2035774--2035861	39	2.3	39	79	13	101	32	6	1	59	1.31
2037801--2037875	32	2.3	34	76	19	88	54	2	2	40	1.28
2037862--2037908	13	3.8	13	80	11	53	42	0	0	57	0.98
2039295--2039352	27	2.3	26	79	8	66	60	0	3	36	1.14
2042226--2042265	21	2.0	20	90	5	62	45	0	0	55	0.99
2043447--2043502	27	2.1	28	83	12	73	62	0	1	35	1.06
2048940--2048986	24	1.9	24	86	4	67	53	2	8	36	1.44
2049373--2049417	24	1.9	23	86	4	63	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)
2049605--2049645	16	2.6	16	84	3	57	48	0	0	51	1.00
2049666--2049714	22	2.3	22	75	10	57	48	0	0	51	1.00
2050238--2050285	17	2.9	17	81	9	64	60	0	6	33	1.22
2050216--2050302	34	2.5	35	75	12	90	55	0	5	39	1.24
2051609--2051633	12	2.1	12	100	0	50	0	8	0	92	0.40
2052840--2052873	2	17.0	2	100	0	68	50	0	0	50	1.00
2057662--2057695	17	2.0	17	88	0	50	47	17	2	32	1.63
2059433--2059474	2	21.0	2	90	0	66	45	0	2	52	1.13
2062277--2062333	25	2.4	24	80	8	71	45	7	1	45	1.40
2065239--2065273	4	8.8	4	100	0	70	25	0	0	74	0.82
2066890--2066920	16	1.9	16	100	0	62	35	19	19	25	1.95
2068737--2068783	21	2.2	21	84	0	58	55	2	0	42	1.12
2070970--2071017	11	4.4	11	76	10	53	37	6	0	56	1.25
2070998--2071054	27	2.1	27	96	0	105	36	8	3	50	1.50
2072213--2072510	102	2.9	102	85	3	366	23	20	23	32	1.97
2072562--2073475	159	5.7	159	87	1	1256	27	22	22	28	1.99
2074563--2074773	72	2.9	72	80	3	244	27	27	16	28	1.97
2091493--2091538	23	2.0	23	88	12	69	43	0	0	56	0.99
2091502--2091569	22	3.0	22	81	12	68	48	0	0	51	1.00
2091498--2091579	30	2.8	30	77	17	91	46	0	1	52	1.08
2091593--2091657	32	2.1	30	83	11	78	49	1	1	47	1.20
2092175--2092240	11	6.4	11	77	19	54	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2092163--2092271	20	5.2	20	74	22	75	60	1	0	36	1.14
2092166--2092241	29	2.6	29	80	19	86	65	0	0	34	0.93
2092162--2092256	40	2.4	39	76	16	104	62	0	1	36	1.03
2092534--2092584	11	4.5	11	76	18	52	60	0	0	39	0.97
2092541--2092612	5	15.4	5	68	23	50	58	0	0	41	0.98
2092551--2092651	18	6.0	17	72	18	86	56	0	0	43	0.99
2092557--2092645	33	2.7	33	82	8	110	56	0	0	43	0.99
2092818--2092876	18	3.2	19	78	9	68	59	0	0	40	0.97
2093427--2093475	17	2.9	16	82	11	53	28	0	2	69	1.00
2093825--2093891	32	2.0	32	82	8	80	58	0	1	40	1.07
2094576--2094650	18	4.2	17	71	17	55	36	4	0	60	1.16
2097611--2097658	21	2.6	18	81	15	53	39	0	0	60	0.97
2097637--2097702	30	2.2	30	86	8	89	42	1	0	56	1.08
2097714--2097770	21	2.7	22	78	13	57	50	1	3	43	1.29
2098423--2098477	22	2.5	22	82	8	69	49	0	0	50	1.00
2098822--2098852	5	6.2	5	92	0	53	45	0	0	54	0.99
2098820--2098852	15	2.1	16	94	5	59	45	0	0	54	0.99
2103649--2103679	2	15.5	2	100	0	62	51	0	0	48	1.00
2105539--2105573	11	3.2	11	87	0	52	68	0	2	28	1.04
2106455--2106483	3	9.7	3	100	0	58	68	0	0	31	0.89
2107806--2107938	62	2.1	62	81	9	146	45	0	0	53	1.11
2108527--2108607	28	2.9	28	69	18	71	45	0	1	53	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2109452--2109499	19	2.6	19	86	3	62	64	2	4	29	1.23
2109783--2109833	16	3.1	16	74	17	50	37	0	0	62	0.95
2109790--2109890	8	12.1	8	67	29	52	38	0	0	59	1.11
2109782--2109890	26	4.0	26	74	22	89	39	0	0	58	1.10
2109798--2109837	20	2.1	19	85	4	53	37	0	0	62	0.95
2109782--2109890	57	2.0	58	81	16	135	39	0	0	58	1.10
2109790--2109863	34	2.1	33	83	14	87	36	1	1	60	1.13
2110520--2110569	26	1.9	26	84	8	66	48	2	0	50	1.12
2110743--2110808	33	2.0	33	96	0	123	34	9	10	45	1.70
2111155--2111200	24	1.9	24	82	8	58	47	13	6	32	1.68
2111482--2111536	16	3.4	17	70	25	55	43	0	1	54	1.10
2112193--2112218	2	13.0	2	100	0	52	50	0	0	50	1.00
2115899--2115968	30	2.4	29	80	4	77	32	0	1	65	1.01
2116175--2116210	18	2.1	17	94	5	63	47	2	0	50	1.15
2116193--2116226	11	3.1	11	84	16	52	55	0	0	44	0.99
2117153--2117182	15	1.9	16	93	6	53	46	0	0	53	1.00
2118030--2118073	10	4.3	10	77	5	52	61	0	2	36	1.09
2118346--2118385	17	2.3	18	87	8	57	67	0	2	30	1.04
2118783--2118871	44	2.0	44	91	4	144	34	5	11	48	1.62
2123473--2123512	15	2.5	16	88	8	55	57	0	0	42	0.98
2123473--2123515	16	2.6	17	85	10	63	55	0	0	44	0.99
2123754--2123806	24	2.3	23	83	3	61	60	5	1	32	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2124442--2124489	11	4.2	11	75	19	53	68	4	2	25	1.18
2124599--2124651	25	2.0	27	86	13	76	5	22	0	71	1.06
2124784--2124827	22	2.0	23	86	4	63	59	4	4	31	1.38
2124834--2124910	21	3.8	21	76	15	72	66	0	0	33	0.92
2124806--2124926	33	3.7	32	71	9	84	62	0	0	35	1.07
2127011--2127056	2	23.0	2	81	0	56	50	2	6	41	1.40
2129243--2129271	3	9.7	3	100	0	58	65	0	0	34	0.93
2130049--2130126	17	4.8	16	71	15	61	51	0	0	48	1.00
2130062--2130174	27	4.3	26	74	13	99	57	0	0	41	1.05
2130120--2130169	21	2.4	21	86	6	66	66	2	0	32	1.03

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19