genome.fa.s19.2.7.7.80.10.50.1000.1.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: Scaffold19
Parameters: 2 7 7 80 10 50 1000
Length:  2266706

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

This is table  1  of  15  ( 1733 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)
749--789	6	6.8	6	100	0	82	17	0	68	14	1.22
3690--3721	16	2.0	16	100	0	64	62	0	0	37	0.95
4618--4702	43	2.0	42	88	2	125	52	4	2	40	1.35
7191--7475	72	3.9	72	85	3	340	56	9	17	15	1.65
7193--7465	144	1.9	144	87	1	404	56	10	17	15	1.66
7627--7678	22	2.4	22	96	0	95	53	9	7	28	1.61
9116--9476	187	1.9	187	90	1	580	43	6	7	42	1.58
9913--9982	6	11.2	6	83	11	61	24	1	0	74	0.90
9913--9982	9	7.8	9	80	13	56	24	1	0	74	0.90
9933--9975	3	14.7	3	90	4	70	27	0	0	72	0.85
10677--10714	2	19.0	2	94	0	67	47	0	2	50	1.15
14266--14299	2	17.0	2	93	0	59	50	2	0	47	1.16
15596--15661	28	2.2	28	84	7	78	40	4	4	50	1.43
17602--17657	21	2.7	21	80	0	67	71	0	3	25	1.02
17708--17748	13	3.1	13	89	3	55	53	0	2	43	1.13
18499--18530	2	16.0	2	100	0	64	50	0	0	50	1.00
18773--18820	24	2.1	21	85	11	60	43	0	0	56	0.99
19682--19717	15	2.5	14	86	8	54	47	0	0	52	1.00
19973--20000	12	2.3	12	100	0	56	57	0	0	42	0.99
22138--22185	24	2.0	25	83	4	62	58	0	2	39	1.10
22444--22486	20	2.2	20	91	0	68	32	2	4	60	1.30
23992--24044	17	3.3	17	73	21	60	41	0	1	56	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
24389--24443	7	7.7	7	77	18	60	70	0	0	29	0.87
24379--24423	22	2.0	22	86	4	63	71	2	0	26	0.98
24394--24445	15	3.5	15	85	12	72	67	0	0	32	0.91
24402--24491	9	10.7	9	74	17	52	66	2	0	31	1.04
24447--24492	19	2.5	19	82	3	58	67	4	0	28	1.10
24388--24498	8	13.9	8	74	16	79	69	1	0	28	0.99
24604--24650	18	2.6	17	78	21	51	34	2	2	61	1.20
24671--24818	9	16.4	9	71	24	100	31	0	2	65	1.09
24674--24801	8	15.5	8	70	25	65	30	0	2	66	1.10
24691--24735	22	2.0	23	86	4	65	33	0	0	66	0.92
24670--24838	27	6.4	27	72	18	88	31	1	2	65	1.13
24628--24848	57	3.8	56	74	14	171	30	1	1	65	1.13
25481--25540	17	3.6	17	76	14	63	63	1	0	35	1.05
25481--25537	16	3.5	16	76	4	60	63	1	0	35	1.05
35020--35115	50	2.0	49	84	12	126	44	0	2	53	1.12
35085--35124	21	2.0	21	90	5	64	50	0	0	50	1.00
35223--35276	26	2.0	26	86	10	74	42	0	3	53	1.18
35428--35462	17	2.0	18	88	5	54	42	0	2	54	1.15
35604--35650	18	2.6	18	77	12	51	46	2	2	48	1.25
35800--35830	13	2.3	14	94	5	55	32	0	0	67	0.91
38518--38566	24	2.0	25	92	4	82	59	4	2	34	1.28
38637--38696	32	1.9	31	93	3	102	55	0	8	36	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40391--40431	20	2.0	20	86	9	57	46	0	4	48	1.23
40953--40990	19	2.0	19	94	0	67	65	0	2	31	1.06
41037--41079	18	2.5	17	85	11	52	39	0	6	53	1.28
42730--42768	3	13.0	3	100	0	78	66	0	0	33	0.92
42962--43131	82	2.1	83	92	1	279	38	1	14	46	1.52
44706--44731	3	8.7	3	100	0	52	0	34	0	65	0.93
49945--49973	2	14.5	2	100	0	58	51	0	48	0	1.00
52231--52306	38	2.0	38	100	0	152	50	2	7	39	1.46
52901--52933	17	1.9	17	88	11	50	33	0	0	66	0.92
53290--53331	23	1.9	23	90	9	70	61	0	4	33	1.17
53900--53978	25	3.4	25	70	20	80	49	0	6	44	1.28
62136--62209	24	3.0	25	78	18	82	55	0	1	43	1.08
62143--62209	27	2.7	26	80	11	77	58	0	1	40	1.07
63425--63474	21	2.4	22	86	10	77	28	0	2	70	0.99
65240--65345	55	1.9	56	81	11	128	51	2	2	42	1.31
65366--65408	12	3.3	13	83	6	52	55	0	0	44	0.99
65432--65476	17	2.9	15	78	12	54	60	2	2	35	1.22
65433--65465	17	1.9	17	93	0	57	63	3	0	33	1.10
71246--71273	2	14.0	2	100	0	56	0	50	0	50	1.00
82754--82801	17	3.0	16	81	6	53	52	0	0	47	1.00
82834--82860	7	3.9	7	100	0	54	44	0	0	55	0.99
84298--84377	15	5.3	15	78	12	85	60	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
89754--89802	12	4.1	13	75	17	52	69	4	0	26	1.06
91230--91281	17	3.2	16	71	13	52	42	1	1	53	1.23
91250--91292	23	2.0	23	90	9	72	46	2	0	51	1.13
92084--92128	19	2.3	20	80	3	56	31	0	0	68	0.89
92100--92134	13	2.6	14	90	4	54	25	0	0	74	0.82
93603--93690	32	2.6	34	80	10	108	46	0	1	52	1.08
93603--93689	16	5.2	16	68	21	63	47	0	1	51	1.08
93734--93770	15	2.5	15	91	4	58	40	8	2	48	1.47
94744--94814	29	2.7	26	85	10	74	46	0	0	53	1.00
94753--94814	29	2.2	28	85	8	81	46	0	0	53	1.00
94755--94827	27	2.7	27	80	14	78	45	0	1	53	1.09
95477--95575	31	3.0	33	72	11	87	40	1	3	55	1.22
95557--95589	12	2.8	12	90	4	50	39	3	0	57	1.14
95896--95931	2	18.0	2	100	0	72	50	0	0	50	1.00
96903--96930	13	2.2	13	100	0	56	64	7	0	28	1.20
96899--96943	16	3.0	16	84	15	69	62	6	0	31	1.21
96986--97025	2	20.0	2	100	0	80	50	0	0	50	1.00
97101--97131	4	8.0	4	92	7	55	22	0	0	77	0.77
99196--99233	18	2.1	18	100	0	76	42	10	21	26	1.85
99876--99969	33	2.8	35	70	14	97	29	5	11	53	1.59
101635--101663	13	2.2	13	100	0	58	58	0	13	27	1.36
105993--106032	1	40.0	1	92	0	53	92	0	2	5	0.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
105996--106034	20	2.0	20	100	0	78	87	0	2	10	0.65
106128--106195	19	3.9	19	78	21	85	35	11	14	38	1.83
106149--106173	13	1.9	13	100	0	50	36	16	16	32	1.90
106130--106192	32	2.0	32	96	0	117	34	12	15	36	1.86
106235--106260	13	2.0	13	100	0	52	30	15	15	38	1.88
106215--106281	33	2.0	33	88	0	98	25	14	16	43	1.86
108677--108749	27	2.7	27	87	6	94	23	34	21	20	1.97
108732--108902	51	3.3	51	78	4	189	28	26	11	32	1.92
108885--108966	28	2.9	28	82	7	96	24	31	17	26	1.97
112096--112163	22	3.2	20	78	15	64	58	1	0	39	1.07
111991--112265	102	2.6	105	85	8	337	51	1	1	45	1.20
112237--112295	23	2.5	24	81	8	77	61	5	3	30	1.34
112084--112292	109	1.9	110	82	9	264	53	2	1	42	1.25
112582--112833	123	2.1	121	87	4	364	42	2	1	53	1.25
112766--112828	21	2.9	21	74	9	56	39	1	1	57	1.18
113808--113926	51	2.3	51	81	2	132	30	15	27	26	1.96
113859--114162	79	3.8	79	84	0	383	31	13	26	27	1.94
114100--114281	51	3.5	52	79	8	219	34	9	23	32	1.88
114890--114918	10	2.7	11	94	5	51	65	6	10	17	1.44
116610--116659	21	2.4	21	83	6	57	26	24	10	40	1.86
116697--116769	3	24.3	3	94	0	128	64	1	0	34	1.02
117045--117074	15	2.0	15	93	0	51	63	0	3	33	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
116850--117202	122	2.9	120	80	11	385	53	2	2	41	1.29
117521--117797	108	2.4	114	84	8	343	43	1	2	52	1.23
117710--117734	13	1.9	13	100	0	50	32	0	0	68	0.90
117752--117803	25	2.1	26	82	7	63	44	0	3	51	1.19
117774--117834	32	2.0	31	84	12	83	50	0	1	47	1.10
117966--118012	14	3.4	14	75	13	53	57	2	0	40	1.11
117960--118025	27	2.4	28	76	5	71	65	3	0	31	1.08
119024--119173	67	2.3	67	83	8	191	50	4	4	42	1.40
122914--122998	21	4.0	21	79	0	98	31	1	9	57	1.38
123028--123138	21	5.4	21	74	8	68	37	5	4	52	1.45

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