genome.fa.s412.2.7.7.80.10.50.1000.1.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: Scaffold412
Parameters: 2 7 7 80 10 50 1000
Length:  4645160

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   27   28   29   30   31   32   

This is table  1  of  32  ( 3728 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)
643--742	37	2.5	40	88	6	143	52	10	7	31	1.62
2128--2170	5	8.6	5	84	0	59	55	0	6	37	1.27
2700--2735	2	18.0	2	94	0	63	2	47	0	50	1.15
4400--4437	2	19.0	2	94	0	67	47	2	0	50	1.15
5734--5858	24	5.3	23	69	18	78	47	6	2	44	1.42
5737--5880	47	3.1	45	79	8	146	45	6	2	45	1.45
5781--5856	22	3.3	22	72	16	64	46	6	2	44	1.43
7293--7318	6	4.3	6	100	0	52	65	0	34	0	0.93
7601--7643	12	3.6	12	83	0	50	60	2	37	0	1.10
8060--8091	2	16.0	2	100	0	64	50	0	0	50	1.00
11089--11122	2	17.0	2	100	0	68	50	0	0	50	1.00
12565--12617	25	2.1	25	82	6	63	49	0	0	50	1.00
12593--12671	23	3.4	24	77	11	67	53	0	2	44	1.14
13299--13325	1	27.0	1	100	0	54	0	100	0	0	0.00
16164--16204	20	2.0	20	100	0	82	39	9	29	21	1.86
19652--19716	33	1.9	35	84	12	91	61	1	0	36	1.05
19726--19774	23	2.1	23	82	14	57	53	0	0	46	1.00
21738--21943	87	2.4	87	81	7	251	32	12	26	29	1.92
26394--26514	52	2.3	52	94	0	215	29	18	17	34	1.94
26394--26534	52	2.7	51	87	4	203	31	17	17	33	1.94
26523--26547	13	1.9	13	100	0	50	36	16	16	32	1.90
29207--29403	97	2.0	97	79	10	208	40	12	20	26	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31765--31817	21	2.6	21	88	5	74	33	16	13	35	1.88
35035--35065	16	2.0	15	93	6	53	35	25	12	25	1.92
35366--35391	2	13.0	2	100	0	52	50	0	0	50	1.00
37115--37171	28	2.1	27	83	9	71	33	15	26	24	1.95
38846--38875	13	2.4	13	94	5	53	6	0	26	66	1.16
40071--40104	13	2.6	13	90	0	50	2	8	88	0	0.62
40287--40313	2	13.5	2	100	0	54	51	0	48	0	1.00
40330--40419	44	2.0	45	95	2	164	33	24	12	30	1.92
42597--42633	2	18.5	2	94	0	65	0	2	48	48	1.15
50551--50599	11	4.3	11	80	14	55	4	2	57	36	1.30
52737--52808	23	3.2	22	75	16	67	50	19	2	27	1.62
53064--53111	20	2.4	20	92	0	78	41	14	22	20	1.89
58258--58459	52	3.9	52	85	3	246	32	30	11	24	1.91
72914--72984	25	3.1	21	72	21	63	47	0	0	52	1.00
72917--72965	25	2.0	25	92	4	82	48	0	0	51	1.00
72904--72976	20	3.3	20	75	23	67	50	0	0	49	1.00
72904--73052	21	7.0	21	69	20	69	45	0	1	52	1.14
72910--73040	44	3.0	44	75	13	124	45	0	1	51	1.15
72942--73032	14	6.4	14	69	15	53	43	1	2	52	1.20
73327--73374	23	2.1	23	84	7	62	31	0	2	66	1.03
76649--76717	16	4.4	16	70	26	58	57	0	1	40	1.07
76642--76717	22	3.4	21	69	22	57	59	0	1	39	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
78366--78410	3	15.0	3	95	0	81	64	2	0	33	1.06
85004--85037	4	8.5	4	100	0	68	50	23	0	26	1.50
87710--87748	20	2.0	19	90	5	60	51	2	12	33	1.54
88393--88424	15	2.1	15	94	0	55	25	31	6	37	1.81
88398--88443	21	2.2	21	88	0	65	28	26	2	43	1.66
91719--91746	3	9.3	3	100	0	56	67	0	0	32	0.91
92988--93026	13	3.2	12	82	10	53	2	0	53	43	1.14
92988--93026	6	6.5	6	85	11	53	2	0	53	43	1.14
93267--93306	6	6.5	6	85	2	53	2	12	2	82	0.87
94807--94881	39	1.9	39	88	0	114	28	25	21	25	1.99
96146--96243	48	2.0	48	94	0	169	23	34	12	29	1.91
96858--96885	3	9.3	3	100	0	56	32	0	35	32	1.58
97173--97199	13	2.1	13	100	0	54	70	0	0	29	0.88
97228--97284	21	2.6	23	76	18	68	73	0	0	26	0.83
97226--97285	20	3.2	17	73	17	57	73	0	0	26	0.84
101294--101357	33	1.9	33	87	6	94	54	1	1	42	1.19
102628--102660	2	16.5	2	100	0	66	48	0	0	51	1.00
103120--103152	2	16.5	2	100	0	66	51	0	0	48	1.00
105258--105292	3	11.7	3	100	0	70	34	0	0	65	0.93
105603--105662	22	2.7	23	75	10	63	58	0	0	41	0.98
105619--105659	21	2.0	21	90	9	66	63	0	0	36	0.95
106708--106737	3	10.0	3	100	0	60	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
106828--106854	2	13.5	2	100	0	54	48	0	0	51	1.00
106970--106996	2	13.5	2	100	0	54	48	0	0	51	1.00
108766--108849	39	2.2	39	82	0	96	30	7	25	36	1.83
108805--109098	69	4.3	69	88	1	437	35	7	29	28	1.84
108699--108913	108	2.0	106	85	1	286	34	7	25	32	1.85
108985--109095	36	3.2	35	68	22	97	34	7	31	27	1.84
115562--115587	12	2.2	12	100	0	52	57	0	23	19	1.40
115674--115703	6	5.0	6	100	0	60	0	33	33	33	1.58
123432--123633	112	1.8	112	90	2	325	27	13	25	33	1.94
125026--125050	3	8.3	3	100	0	50	64	0	0	36	0.94
125274--125301	2	14.0	2	100	0	56	0	50	0	50	1.00
127097--127331	39	6.0	39	81	2	213	20	36	15	27	1.93
127186--127246	20	3.1	20	68	20	56	18	39	14	27	1.90
130406--130649	127	1.9	126	84	4	321	24	13	18	43	1.86
132070--132125	26	2.2	26	96	0	103	35	16	17	30	1.92
137990--138016	2	13.5	2	100	0	54	48	0	0	51	1.00
139877--139906	2	15.0	2	100	0	60	50	0	0	50	1.00
140493--140522	3	10.0	3	100	0	60	66	0	0	33	0.92
140523--140558	3	12.0	3	93	0	63	30	0	0	69	0.89
142413--142441	2	15.0	2	92	7	51	51	0	0	48	1.00
144467--144506	2	20.0	2	94	0	71	47	0	2	50	1.14
149064--149091	5	5.6	5	100	0	56	0	0	60	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
150093--150130	3	12.7	3	100	0	76	34	0	0	65	0.93
154841--154937	51	1.9	50	85	2	131	34	14	13	38	1.85
156741--156773	2	16.5	2	100	0	66	0	48	0	51	1.00
158876--158900	12	2.1	12	100	0	50	84	0	8	8	0.79
168898--168922	2	12.5	2	100	0	50	52	0	0	48	1.00
172173--172205	2	16.5	2	100	0	66	51	0	48	0	1.00
172686--172733	22	2.2	21	82	10	53	37	0	4	58	1.18
172982--173032	25	2.0	26	96	3	95	60	0	3	35	1.15
173015--173069	18	3.2	17	77	7	58	60	5	3	30	1.37
184401--184429	14	2.0	15	93	6	51	10	41	6	41	1.66
184968--184997	2	15.0	2	92	0	51	53	0	0	46	1.00
185226--185260	6	5.8	6	100	0	70	65	0	0	34	0.93
186694--186732	2	19.5	2	100	0	78	51	0	0	48	1.00
197598--197629	2	16.0	2	93	0	55	46	0	3	50	1.17
202612--202641	2	15.0	2	100	0	60	50	0	0	50	1.00
205046--205080	16	2.2	16	89	0	52	40	0	0	60	0.97
206715--206755	15	2.5	17	88	11	59	36	0	0	63	0.95
207765--207790	12	2.2	12	100	0	52	23	0	7	69	1.14
233845--233887	21	2.1	20	87	12	61	41	0	0	58	0.98
233847--233888	11	4.0	10	80	20	50	42	0	0	57	0.99
234453--234487	2	17.5	2	100	0	70	0	48	0	51	1.00
235031--235057	2	13.5	2	100	0	54	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)
239042--239125	41	2.0	41	97	0	159	23	19	13	44	1.85
250138--250170	15	2.1	16	94	5	59	6	9	6	78	1.08
254879--254927	3	16.3	3	100	0	98	67	0	0	32	0.91
257104--257131	3	9.3	3	100	0	56	0	35	32	32	1.58
258550--258582	2	16.5	2	100	0	66	51	0	0	48	1.00
262201--262233	2	16.5	2	100	0	66	51	0	0	48	1.00
263180--263204	6	4.2	6	100	0	50	48	32	0	20	1.50
269005--269033	14	2.1	14	100	0	58	20	0	0	79	0.74
269978--270032	13	4.1	15	72	27	61	43	0	0	56	0.99
270629--270658	2	15.0	2	92	0	51	46	0	3	50	1.18

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   27   28   29   30   31   32