genome.fa.s324.2.7.7.80.10.50.1000.14.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: Scaffold324
Parameters: 2 7 7 80 10 50 1000
Length:  2336777

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

This is table  14  of  16  ( 1878 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)
1962418--1962469	14	3.6	14	79	5	68	61	0	1	36	1.07
1962416--1962478	29	2.2	29	83	5	85	53	1	1	42	1.19
1962667--1962716	25	2.0	25	88	7	75	52	0	0	48	1.00
1963742--1963791	25	2.0	27	81	14	63	46	0	2	52	1.12
1963734--1963807	40	1.9	37	86	8	103	47	0	1	51	1.09
1963988--1964069	41	2.0	41	97	0	155	41	13	12	32	1.81
1965438--1965463	13	2.0	13	100	0	52	38	15	15	30	1.88
1965497--1965565	20	3.3	20	82	7	84	36	14	7	42	1.73
1967906--1967974	27	2.6	27	83	0	84	26	43	13	17	1.85
1969078--1969103	2	13.0	2	100	0	52	50	0	0	50	1.00
1972537--1972609	27	2.7	26	85	6	101	26	5	23	45	1.74
1972590--1972635	24	1.9	24	90	0	74	23	8	21	45	1.80
1976850--1976875	13	2.0	13	100	0	52	38	15	15	30	1.88
1980932--1980962	15	2.1	15	93	0	53	48	16	22	12	1.80
1983042--1983080	13	3.0	13	100	0	78	30	15	15	38	1.88
1983201--1983246	21	2.2	20	81	11	58	32	19	4	43	1.71
1984364--1984392	14	2.1	14	100	0	58	13	41	13	31	1.84
1985646--1985671	13	2.0	13	100	0	52	38	15	15	30	1.88
1990968--1991003	15	2.4	16	90	9	58	72	5	22	0	1.05
1990958--1991009	14	3.7	14	76	16	54	71	3	25	0	1.03
1991890--1991939	19	2.6	19	84	6	57	38	0	2	60	1.09
1997858--1997896	15	2.6	15	91	0	60	20	2	23	53	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1998692--1998738	13	3.7	13	77	11	53	42	0	2	55	1.12
1999873--1999908	17	2.1	17	89	0	54	50	8	2	38	1.47
2000662--2000698	16	2.4	16	90	4	58	21	10	29	37	1.88
2000975--2000999	2	12.5	2	100	0	50	52	0	0	48	1.00
2001883--2001934	14	3.6	14	82	5	68	61	0	1	36	1.07
2002175--2002246	28	2.7	27	75	8	76	43	0	0	56	0.99
2002176--2002248	26	2.7	27	73	8	78	42	0	0	57	0.98
2002436--2002478	21	2.0	21	82	8	52	58	2	0	39	1.11
2005030--2005070	2	20.5	2	100	0	82	48	0	0	51	1.00
2005788--2005838	21	2.5	21	83	3	68	35	15	7	41	1.76
2005784--2005838	20	2.7	20	82	2	74	34	16	9	40	1.80
2005899--2005961	33	1.9	33	93	0	108	34	12	15	36	1.86
2007898--2007968	19	3.8	19	75	5	65	38	15	9	36	1.81
2011858--2011898	21	2.0	21	90	0	64	19	9	9	60	1.55
2011861--2011906	21	2.2	21	84	0	56	19	8	6	65	1.43
2013995--2014049	21	2.7	21	91	2	85	36	16	10	36	1.84
2014129--2014153	13	1.9	13	100	0	50	28	16	16	40	1.89
2014110--2014175	33	2.0	33	93	0	114	33	15	15	36	1.88
2022052--2022086	18	1.9	18	88	11	54	60	0	40	0	0.97
2022970--2023022	20	2.6	19	77	11	52	35	9	1	52	1.45
2023788--2023838	24	2.1	24	88	0	75	43	0	21	35	1.53
2024400--2024425	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2024464--2024493	15	1.9	16	93	6	53	60	0	40	0	0.97
2024989--2025015	7	3.9	7	100	0	54	14	0	0	85	0.61
2025412--2025446	16	2.1	17	89	5	54	48	2	0	48	1.16
2030612--2030649	11	3.5	11	88	0	58	21	0	2	76	0.91
2030618--2030653	16	2.1	18	90	10	58	25	0	2	72	0.98
2030612--2030655	22	2.0	22	86	0	61	27	0	2	70	0.99
2031218--2031244	7	3.9	7	100	0	54	14	14	14	55	1.70
2031855--2031892	19	2.0	20	84	5	51	60	5	5	28	1.40
2032816--2032887	20	3.6	20	78	0	81	33	13	9	43	1.77
2032813--2032890	40	2.0	39	89	2	120	33	12	11	42	1.79
2033389--2033440	20	2.6	20	84	0	68	28	9	15	46	1.77
2033519--2033699	52	3.5	52	93	0	281	40	15	13	30	1.86
2037439--2037484	20	2.4	19	85	10	58	23	13	8	54	1.66
2040983--2041036	14	3.8	14	80	9	65	57	0	1	40	1.09
2044829--2044860	13	2.5	13	94	0	55	25	0	3	71	1.00
2046649--2046679	15	2.1	15	94	5	55	22	12	12	51	1.74
2050846--2050900	25	2.2	25	90	0	83	43	12	5	38	1.66
2052018--2052045	2	14.0	2	100	0	56	50	0	0	50	1.00
2053279--2053318	20	2.0	20	85	0	53	30	12	7	50	1.68
2056156--2056226	28	2.6	28	84	2	90	25	4	22	47	1.69
2057162--2057198	2	18.5	2	100	0	74	48	0	0	51	1.00
2057750--2057805	19	2.9	19	84	7	60	57	1	3	37	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2058049--2058094	14	3.4	14	78	3	58	54	0	4	41	1.20
2060420--2060465	24	1.9	25	91	8	78	45	21	8	23	1.80
2060451--2060518	27	2.5	27	87	0	100	45	20	10	23	1.81
2060506--2060563	26	2.3	25	91	5	91	25	15	25	32	1.95
2064993--2065038	24	1.9	25	86	8	69	43	21	10	23	1.84
2065024--2065091	27	2.5	27	85	0	91	44	20	11	23	1.84
2065079--2065136	26	2.3	25	91	5	91	25	15	25	32	1.95
2065996--2066023	2	14.0	2	100	0	56	50	0	0	50	1.00
2074253--2074283	14	2.3	14	94	5	55	64	0	0	35	0.94
2074266--2074334	36	1.9	36	82	11	88	40	1	1	56	1.17
2074913--2074965	18	2.8	19	83	13	65	60	3	35	0	1.15
2074964--2074990	14	1.9	14	100	0	54	51	0	0	48	1.00
2075228--2075269	21	2.0	22	85	4	59	52	2	2	42	1.27
2078105--2078154	22	2.3	22	85	0	64	34	4	14	48	1.62
2078336--2078371	18	2.0	18	100	0	72	55	0	0	44	0.99
2078577--2078633	16	3.6	16	83	9	80	47	33	12	7	1.68
2078577--2078638	32	1.9	32	93	0	106	46	32	14	6	1.70
2078575--2078644	16	4.4	15	78	18	63	45	34	12	7	1.70
2079017--2079056	16	2.6	15	85	14	55	67	2	27	2	1.16
2079022--2079056	15	2.3	16	90	9	56	68	2	28	0	1.04
2079763--2079807	23	2.0	23	81	0	54	22	0	4	73	1.01
2079857--2079906	16	3.0	16	78	18	57	24	0	0	76	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2079829--2079881	27	2.0	26	85	10	72	28	3	1	66	1.20
2079845--2079897	21	2.4	22	87	6	72	26	1	0	71	0.96
2079859--2079915	11	4.7	13	75	16	52	24	0	1	73	0.92
2079922--2079954	10	3.3	10	100	0	66	39	0	0	60	0.97
2080562--2080621	11	5.5	11	74	21	56	23	1	3	71	1.10
2080562--2080609	12	4.2	12	84	7	64	22	0	4	72	1.01
2080565--2080617	23	2.4	22	90	6	81	22	1	3	71	1.12
2081438--2081503	21	3.3	20	81	10	73	39	7	0	53	1.30
2085049--2085284	50	4.7	50	87	3	341	30	21	16	31	1.95
2085049--2085284	100	2.4	100	91	0	382	30	21	16	31	1.95
2089664--2089893	50	4.6	50	84	4	297	32	20	14	32	1.93
2093101--2093146	2	23.0	2	100	0	92	50	0	0	50	1.00
2094880--2094930	14	3.6	14	79	10	68	64	0	0	35	0.94
2095170--2095212	22	2.0	22	85	0	59	32	0	2	65	1.06
2095879--2095903	4	6.2	4	100	0	50	24	0	0	76	0.80
2097754--2097784	16	1.9	16	93	0	53	16	0	3	80	0.83
2098467--2098592	43	3.0	42	88	5	173	3	34	11	50	1.56
2098477--2098599	41	3.0	41	88	4	174	4	34	11	48	1.60
2099077--2099105	12	2.3	13	94	5	51	27	0	3	68	1.05
2099391--2100722	42	31.4	42	73	10	691	38	18	30	12	1.87
2099391--2100036	128	5.1	126	83	3	731	38	19	31	10	1.86
2099391--2100722	170	8.1	169	77	8	808	38	18	30	12	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2099903--2100336	149	2.9	147	82	4	460	38	17	30	12	1.87
2100259--2100722	43	11.0	42	80	5	432	38	18	29	12	1.89
2100258--2100720	85	5.5	84	81	5	475	38	19	30	12	1.89
2113601--2113636	16	2.2	16	90	0	54	52	16	5	25	1.65
2113925--2114047	43	2.9	42	86	7	169	5	33	13	47	1.65
2113925--2114047	41	3.0	40	84	7	156	5	33	13	47	1.65
2117216--2117246	15	2.1	15	94	5	55	22	12	12	51	1.74
2121379--2121423	18	2.4	18	88	7	63	60	2	0	37	1.09
2122531--2122682	68	2.2	68	87	3	207	44	6	4	44	1.50
2122875--2122962	29	2.9	30	83	10	99	52	3	1	43	1.25

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