genome.fa.s66.2.7.7.80.10.50.1000.12.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: Scaffold66
Parameters: 2 7 7 80 10 50 1000
Length:  4623749

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   

This is table  12  of  26  ( 3105 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)
1990648--1990717	10	7.0	10	83	0	77	50	0	8	41	1.33
1993153--1993184	2	16.5	2	93	6	57	46	0	0	53	1.00
1993331--1993356	4	6.5	4	100	0	52	23	0	0	76	0.78
1995878--1995910	15	2.2	15	100	0	66	24	33	9	33	1.87
1996305--1996358	14	4.1	14	68	22	53	59	0	0	40	0.98
1996303--1996364	25	2.4	26	81	10	74	58	0	0	41	0.98
1999671--1999705	12	2.8	12	86	4	52	60	2	2	34	1.26
2001222--2001274	23	2.2	23	83	6	61	45	5	0	49	1.26
2001232--2001289	24	2.3	24	85	11	73	50	1	0	48	1.11
2001947--2002029	33	2.6	32	77	17	84	46	1	2	49	1.22
2002017--2002066	11	4.7	11	81	18	70	34	0	0	66	0.92
2002601--2002670	14	4.9	14	72	16	54	38	1	0	60	1.06
2003154--2003189	18	2.0	18	88	0	54	33	0	0	66	0.92
2003465--2003501	2	18.5	2	100	0	74	51	0	0	48	1.00
2003721--2003768	5	9.2	5	78	17	53	54	0	0	45	0.99
2003721--2003775	19	3.1	18	85	12	69	50	0	0	49	1.00
2004224--2004264	18	2.3	18	84	12	57	58	0	0	41	0.98
2004658--2004695	3	12.7	3	100	0	76	65	0	0	34	0.93
2005131--2005166	2	18.0	2	100	0	72	50	0	0	50	1.00
2005020--2005264	132	1.8	131	91	2	400	31	10	15	42	1.81
2005542--2005617	21	3.7	20	75	15	57	52	0	0	47	1.00
2005889--2005917	2	14.5	2	100	0	58	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2009063--2009144	23	3.0	28	75	23	86	50	0	0	50	1.00
2009040--2009149	53	2.1	54	78	14	122	48	0	0	50	1.07
2009063--2009138	24	3.1	23	75	15	71	50	0	0	50	1.00
2009935--2009972	19	2.1	18	90	5	58	57	0	0	42	0.98
2013826--2013855	2	15.0	2	100	0	60	0	50	0	50	1.00
2016011--2016072	23	2.6	23	76	20	65	35	0	1	62	1.05
2016714--2016760	24	1.9	25	83	12	62	51	4	0	44	1.21
2020437--2020462	3	8.7	3	100	0	52	0	0	30	69	0.89
2021565--2021608	2	22.0	2	95	0	79	47	0	2	50	1.13
2022268--2022301	18	1.9	17	88	5	50	76	11	11	0	1.02
2024666--2024785	61	2.0	61	94	0	213	38	9	21	30	1.85
2034672--2034701	16	1.9	15	93	6	51	26	0	6	66	1.16
2035399--2035424	2	13.0	2	100	0	52	50	0	0	50	1.00
2035840--2035886	7	6.6	7	81	13	60	46	0	0	53	1.00
2035840--2035886	16	3.3	14	83	13	60	46	0	0	53	1.00
2035841--2035893	14	3.5	15	78	14	56	47	0	0	52	1.00
2035843--2035912	23	3.0	23	80	14	81	47	0	0	52	1.00
2037195--2037222	2	14.0	2	100	0	56	50	0	0	50	1.00
2041662--2041728	30	2.2	30	82	10	75	47	1	8	41	1.44
2046067--2046125	22	2.7	22	77	12	68	72	1	23	1	1.02
2046142--2046240	33	2.9	34	80	17	89	34	0	2	63	1.06
2046212--2046267	16	3.4	16	72	16	51	32	1	3	62	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2046157--2046243	34	2.4	36	81	16	110	35	0	2	62	1.08
2046262--2046298	12	2.9	13	84	15	51	48	0	0	51	1.00
2046350--2046448	8	12.1	8	68	23	64	32	4	2	61	1.26
2046337--2046398	31	2.0	32	87	3	90	37	1	0	61	1.06
2046640--2046673	17	2.0	17	88	0	50	23	0	2	73	0.97
2047077--2047163	25	3.5	24	78	13	79	39	1	2	57	1.19
2047120--2047160	19	2.1	20	82	13	50	36	0	0	63	0.95
2047107--2047165	25	2.5	24	83	5	84	42	0	0	57	0.98
2047122--2047180	25	2.4	25	82	0	64	42	0	0	57	0.98
2048092--2048141	11	4.5	11	77	5	55	42	10	12	36	1.76
2048102--2048158	23	2.5	23	85	2	80	42	10	10	36	1.74
2048551--2048594	15	2.8	15	79	6	52	59	2	0	38	1.10
2049430--2049488	28	2.1	28	84	6	75	38	0	3	57	1.15
2049810--2049849	15	2.5	15	92	8	62	60	0	0	40	0.97
2049810--2049852	16	2.6	17	89	10	72	58	0	0	41	0.98
2050227--2050279	23	2.3	23	75	12	63	64	9	5	20	1.44
2051055--2051167	59	1.9	59	83	5	149	49	7	12	30	1.67
2051568--2051609	22	1.9	22	85	9	59	57	16	0	26	1.40
2051901--2051955	9	6.2	9	75	12	60	0	16	0	83	0.64
2052806--2052859	23	2.4	22	78	6	54	55	3	0	40	1.17
2053098--2053133	9	4.0	9	96	0	54	22	22	16	38	1.93
2056665--2056716	20	2.6	20	90	0	86	36	15	13	34	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2059675--2059726	20	2.6	20	84	0	68	28	17	11	42	1.84
2062327--2062366	18	2.1	20	86	9	57	45	0	0	55	0.99
2062556--2062631	35	2.2	34	77	13	84	46	6	1	46	1.37
2063171--2063224	20	2.7	19	83	11	65	33	9	20	37	1.84
2064543--2064567	13	1.9	13	100	0	50	24	40	0	36	1.55
2065591--2065622	15	2.1	16	88	11	50	59	3	0	37	1.13
2079644--2079673	15	2.0	15	93	0	51	50	6	0	43	1.28
2081344--2081376	16	2.1	15	94	5	57	42	0	6	51	1.26
2081580--2081624	15	3.0	15	87	12	74	28	0	0	71	0.87
2081593--2081635	21	2.2	20	84	12	54	27	0	0	72	0.85
2082177--2082228	15	3.5	14	84	7	59	46	0	0	53	1.00
2082178--2082268	23	4.3	21	71	22	66	47	0	0	52	1.00
2082182--2082270	20	4.2	20	72	17	74	47	0	0	52	1.00
2082183--2082235	15	3.3	15	84	10	61	45	0	0	54	0.99
2082231--2082266	11	3.5	11	82	17	51	47	0	0	52	1.00
2082191--2082283	23	4.3	22	75	19	72	45	0	0	54	0.99
2083160--2083196	17	2.2	17	90	9	58	37	0	0	62	0.96
2084012--2084074	18	3.2	20	75	11	67	39	0	1	58	1.07
2084024--2084086	20	3.2	20	76	17	69	42	0	0	57	0.99
2087904--2087951	21	2.5	20	87	12	73	39	0	0	60	0.97
2088895--2088956	29	2.2	27	83	8	79	56	0	0	43	0.99
2088926--2088979	21	2.6	21	77	11	58	61	1	1	35	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2089587--2089625	16	2.5	15	84	8	51	43	0	0	56	0.99
2089630--2089662	11	3.0	11	91	8	50	54	0	0	45	0.99
2094663--2094719	29	1.9	30	86	10	82	50	0	0	49	1.00
2095757--2095790	16	2.2	15	89	5	50	35	0	0	64	0.94
2095762--2095848	31	2.8	31	80	19	94	43	0	1	55	1.07
2095774--2095813	21	1.9	21	85	10	55	50	0	0	50	1.00
2096330--2096371	21	2.0	21	95	0	75	35	11	14	38	1.83
2103152--2103188	15	2.5	15	95	0	65	64	10	21	2	1.37
2103865--2103895	16	2.0	15	93	6	53	41	0	0	58	0.98
2104244--2104269	2	13.0	2	100	0	52	50	0	0	50	1.00
2104949--2105022	22	3.5	21	72	15	62	47	4	0	48	1.20
2105243--2105285	13	3.2	13	83	9	52	53	2	0	44	1.13
2106262--2106313	16	3.2	16	77	15	54	50	0	0	50	1.00
2106250--2106313	32	2.0	32	85	11	87	48	0	0	51	1.00
2106253--2106327	29	2.6	29	81	10	91	45	0	0	54	0.99
2106254--2106336	32	2.7	31	80	12	82	44	0	1	54	1.08
2106753--2106790	15	2.4	17	82	8	53	50	0	0	50	1.00
2113491--2113547	26	2.2	27	93	6	100	45	21	15	17	1.85
2117272--2117311	13	3.3	13	76	16	50	57	0	0	42	0.98
2117305--2117409	18	5.7	20	73	21	63	59	0	0	40	0.98
2117374--2117415	19	2.2	19	91	8	68	69	0	0	30	0.89
2117264--2117443	59	3.2	56	75	13	163	59	0	0	40	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2117533--2117573	16	2.5	17	88	4	57	46	0	0	53	1.00
2120866--2120975	55	2.0	55	100	0	220	30	16	9	43	1.79
2121904--2121946	21	2.0	21	95	0	77	41	18	6	32	1.77
2121907--2121952	21	2.2	21	88	0	65	41	15	8	34	1.78
2123211--2123251	21	2.0	21	85	9	57	9	17	7	65	1.44
2123764--2123794	16	1.9	16	93	0	53	64	0	0	35	0.94
2123947--2123995	3	16.3	3	100	0	98	67	0	0	32	0.91
2124286--2124377	20	4.7	21	71	23	67	66	2	0	31	1.04
2124476--2124504	15	1.9	15	100	0	58	65	0	0	34	0.93
2125104--2125129	11	2.4	11	100	0	52	7	0	7	84	0.77

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