genome.fa.s163.2.7.7.80.10.50.1000.1.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: Scaffold163
Parameters: 2 7 7 80 10 50 1000
Length:  1788591

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

This is table  1  of  13  ( 1505 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)
175--269	26	3.8	24	69	18	52	52	2	1	44	1.19
181--240	32	1.9	31	86	10	86	51	1	1	45	1.21
215--268	22	2.3	24	84	6	67	59	1	0	38	1.08
1601--1636	18	2.1	18	89	5	56	30	16	30	22	1.96
2362--2391	15	1.9	16	93	6	53	26	0	3	70	1.03
2414--2449	16	2.2	17	90	5	56	47	2	0	50	1.15
7153--7177	2	12.5	2	100	0	50	52	48	0	0	1.00
9778--9813	16	2.2	16	90	0	54	41	0	0	58	0.98
11990--12026	2	19.5	2	83	10	51	45	2	0	51	1.15
12251--12279	7	4.3	7	91	8	51	0	27	0	72	0.85
12251--12279	13	2.1	14	93	6	51	0	27	0	72	0.85
13948--13976	7	4.3	7	95	4	51	72	0	27	0	0.85
16457--16498	21	1.9	23	90	9	70	45	2	0	52	1.13
19115--19149	2	17.5	2	100	0	70	0	0	48	51	1.00
20813--20844	15	2.0	17	88	11	50	37	0	12	50	1.41
22247--22280	16	2.1	16	100	0	68	20	32	17	29	1.96
23830--23855	4	6.5	4	100	0	52	73	0	0	26	0.84
24710--24831	41	2.9	41	81	12	133	36	2	0	61	1.09
24744--24831	41	2.1	43	89	6	135	31	3	0	64	1.10
25372--25406	10	3.4	11	88	11	56	45	0	0	54	0.99
25358--25401	21	2.0	23	86	8	65	38	0	0	61	0.96
25941--26028	31	2.8	31	80	13	99	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26704--26734	11	2.7	12	90	10	55	58	0	0	41	0.98
27391--27430	14	2.9	14	80	0	53	35	0	0	65	0.93
27459--27499	19	2.2	19	100	0	82	41	17	9	31	1.82
29222--29254	14	2.3	15	90	10	52	36	0	0	63	0.95
29483--29537	23	2.4	23	75	6	58	49	1	0	49	1.11
30532--30704	85	2.0	85	100	0	346	38	6	21	32	1.81
34754--34894	29	5.0	28	81	12	162	17	4	10	68	1.35
34742--34895	56	2.7	58	82	7	179	16	6	10	66	1.41
35866--35906	20	2.0	20	86	9	57	53	0	0	46	1.00
35909--35954	22	2.1	21	96	4	83	65	0	0	34	0.93
35907--35968	30	2.1	30	81	6	72	64	0	0	35	0.94
36579--36614	16	2.3	16	90	4	56	47	0	0	52	1.00
36575--36616	16	2.8	15	79	10	50	52	0	0	47	1.00
36595--36659	33	2.0	33	84	0	85	55	0	3	41	1.15
37255--37293	17	2.4	17	86	4	53	35	0	0	64	0.94
37999--38035	19	1.9	19	89	10	58	64	0	0	35	0.94
38029--38053	12	2.1	12	100	0	50	28	0	0	72	0.86
39690--39727	20	1.9	20	94	0	67	50	0	0	50	1.00
39923--39972	22	2.3	23	79	10	59	56	8	2	34	1.40
40558--40596	3	13.0	3	100	0	78	66	0	0	33	0.92
41049--41081	3	11.0	3	100	0	66	0	33	0	66	0.92
41757--41781	13	1.9	13	100	0	50	88	0	12	0	0.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46450--46491	2	21.5	2	95	4	77	50	0	0	50	1.00
49061--49114	18	3.0	18	80	0	54	24	37	11	27	1.89
51364--51398	2	18.0	2	94	5	63	51	0	0	48	1.00
58451--58486	2	18.0	2	94	0	63	50	2	47	0	1.15
59623--59692	33	2.0	33	84	13	88	62	1	0	35	1.04
59651--59692	11	3.8	11	78	12	50	64	0	0	35	0.94
59724--59765	21	2.0	20	86	9	57	47	0	0	52	1.00
59717--59767	22	2.3	21	80	12	59	49	0	0	50	1.00
59731--59780	17	2.9	17	77	14	57	44	0	0	56	0.99
59945--59992	20	2.4	20	75	0	51	56	0	0	43	0.99
65231--65284	22	2.5	22	84	0	72	53	11	3	31	1.53
65231--65293	22	2.9	22	80	4	65	53	11	3	31	1.52
67263--67298	18	2.0	18	94	0	63	22	13	36	27	1.92
72157--72207	27	2.0	27	84	7	70	45	0	0	54	0.99
72364--72433	19	3.9	19	72	12	58	40	0	0	60	0.97
73808--73894	17	5.1	16	75	15	59	44	1	0	54	1.07
73843--73924	21	3.8	23	72	18	61	50	1	0	48	1.08
74045--74089	10	4.3	10	78	10	54	46	0	0	53	1.00
74984--75011	3	9.3	3	100	0	56	32	0	0	67	0.91
79143--79187	19	2.5	19	89	7	67	40	2	0	57	1.11
79473--79504	15	2.2	15	94	5	57	37	0	6	56	1.25
79783--79832	26	1.9	26	91	0	82	52	2	6	40	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
79936--79969	13	2.6	13	90	0	50	32	2	0	64	1.08
81035--81079	23	2.0	23	86	0	63	37	2	0	60	1.09
81780--81822	16	2.7	16	85	0	50	55	0	0	44	0.99
83338--83371	17	2.0	17	100	0	68	35	35	0	29	1.58
87788--87845	22	2.6	24	76	15	61	41	1	0	56	1.09
94085--94156	24	3.0	23	73	15	56	59	1	0	38	1.06
94424--94465	10	4.6	9	80	14	50	26	0	0	73	0.83
94421--94458	13	2.8	14	80	19	53	28	0	0	71	0.87
94417--94490	23	3.1	23	77	16	71	33	0	0	66	0.92
94777--94817	3	14.7	3	85	14	61	68	0	0	31	0.90
94777--94817	17	2.5	17	96	4	75	68	0	0	31	0.90
94788--94816	14	2.1	14	100	0	58	65	0	0	34	0.93
94922--95036	37	3.1	35	72	16	90	50	0	1	47	1.11
95520--95586	33	2.0	33	88	0	98	34	11	13	40	1.81
95540--95564	13	1.9	13	100	0	50	36	16	16	32	1.90
95607--95749	52	2.7	52	94	1	241	34	18	16	29	1.94
98998--99051	22	2.5	20	78	18	63	38	0	1	59	1.08
99562--99614	21	2.4	21	81	6	70	37	0	3	58	1.16
99602--99631	15	2.0	15	93	0	51	36	0	0	63	0.95
99613--99693	34	2.3	35	82	16	98	49	0	1	49	1.08
100304--100355	23	2.5	21	85	14	65	57	1	0	40	1.10
100304--100360	12	5.4	11	74	21	59	56	3	0	40	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
107656--107749	16	5.9	15	71	15	55	63	0	0	36	0.94
107686--107764	17	4.6	17	73	25	60	62	0	0	37	0.96
107679--107741	21	3.3	19	78	19	60	63	0	0	36	0.95
107809--107835	13	2.1	13	100	0	54	48	0	0	51	1.00
108274--108313	21	1.9	21	85	10	55	37	0	0	62	0.95
109629--109690	26	2.6	23	77	10	63	50	0	0	50	1.00
109679--109727	26	1.9	25	84	12	64	46	6	2	44	1.39
111269--111312	16	2.9	16	86	6	56	45	0	0	54	0.99
112655--112715	19	3.2	19	84	6	63	59	6	3	31	1.39
115123--115170	2	24.0	2	95	0	87	52	0	0	47	1.00
116897--116938	16	2.5	17	76	3	50	33	0	2	64	1.07
120284--120339	3	18.3	3	89	10	87	32	0	0	67	0.91
121535--121569	18	2.1	18	89	10	56	54	0	0	45	0.99
121557--121597	14	2.9	14	85	0	55	46	0	0	53	1.00
122271--122307	17	2.1	18	90	5	58	29	0	0	70	0.88
122305--122357	19	2.7	19	82	14	63	58	0	0	41	0.98
125699--125750	17	3.2	16	76	12	54	65	0	0	34	0.93
126376--126415	13	3.1	13	82	13	55	15	32	7	45	1.74
126380--126422	13	3.3	13	83	0	50	13	30	6	48	1.69
128876--128916	21	2.0	21	85	0	55	31	14	26	26	1.95
133786--133820	17	2.0	18	88	5	54	82	0	14	2	0.77
137203--137259	17	3.5	17	85	4	55	45	0	5	49	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
137220--137274	17	3.4	17	85	10	69	45	0	1	52	1.11
137220--137283	32	2.0	33	84	3	85	48	0	1	50	1.10
137283--137337	21	2.6	21	88	8	76	47	0	0	52	1.00
137978--138033	19	2.8	19	71	23	53	48	0	0	51	1.00
139372--139404	14	2.3	15	90	10	52	36	0	0	63	0.95
139400--139446	17	2.8	16	77	22	51	57	0	0	42	0.98
140155--140217	27	2.3	27	81	10	76	60	0	3	36	1.13
140371--140395	13	1.9	13	100	0	50	40	0	4	56	1.18
140518--140558	3	13.7	3	100	0	82	68	0	0	31	0.90
140988--141042	15	3.8	14	77	15	58	45	0	0	54	0.99

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