genome.fa.s396.2.7.7.80.10.50.1000.1.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: Scaffold396
Parameters: 2 7 7 80 10 50 1000
Length:  560635

Tables:   1   2   3   4   

This is table  1  of  4  ( 452 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)
222--281	29	2.1	29	90	0	93	65	13	8	13	1.48
679--728	26	1.9	26	100	0	100	18	14	8	60	1.58
2094--2135	20	2.1	20	100	0	84	30	23	23	21	1.99
2770--2823	26	2.1	26	89	0	81	20	9	11	59	1.59
10308--10349	19	2.3	17	88	12	57	40	0	0	59	0.97
10321--10351	16	2.0	15	93	6	53	41	0	0	58	0.98
10321--10382	25	2.5	24	76	7	63	41	0	1	56	1.09
10882--10921	20	2.0	20	95	0	71	47	0	0	52	1.00
14083--14124	20	2.1	20	100	0	84	30	38	14	16	1.89
15081--15134	26	2.1	26	89	0	81	59	11	9	20	1.59
15769--15810	20	2.1	20	100	0	84	21	23	23	30	1.99
17178--17227	26	1.9	26	100	0	100	60	8	14	18	1.58
22313--22376	23	2.7	24	75	15	62	56	1	0	42	1.09
30776--30857	31	2.8	27	74	18	65	54	6	2	36	1.38
31426--31477	4	13.0	4	87	0	59	26	7	25	40	1.82
31663--31765	43	2.3	46	86	5	140	55	1	2	39	1.26
31693--31766	22	3.4	22	78	12	80	52	1	2	43	1.23
31695--31765	21	3.3	21	79	11	81	53	1	2	42	1.24
31753--31798	24	2.0	24	86	4	67	52	0	0	47	1.00
33559--33688	66	2.0	66	86	3	181	36	5	3	55	1.38
35164--35297	26	5.1	26	66	12	67	50	0	2	47	1.19
35536--35565	4	7.5	4	92	0	51	70	0	3	26	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35928--35987	26	2.2	28	82	8	79	63	1	0	35	1.05
35943--36025	5	17.2	5	72	19	52	62	1	2	33	1.16
35928--36029	22	4.9	22	74	17	69	62	0	1	34	1.13
38586--38628	20	2.3	19	84	11	61	46	2	0	51	1.13
41764--41808	3	15.0	3	100	0	90	66	0	0	33	0.92
42750--42840	33	2.8	32	82	16	89	64	9	0	25	1.24
42974--43021	18	2.6	19	78	18	57	50	0	2	47	1.12
47989--48031	19	2.2	20	87	4	61	48	0	0	51	1.00
48032--48065	2	17.0	2	100	0	68	50	0	0	50	1.00
48224--48269	16	2.9	16	80	3	58	28	2	0	69	1.00
49538--49580	7	6.0	7	88	2	59	16	39	2	41	1.61
50923--50984	24	2.5	24	71	2	61	56	1	3	38	1.25
51141--51187	15	2.8	18	75	21	57	46	2	0	51	1.13
51141--51190	17	3.1	17	75	21	61	46	2	0	52	1.12
51180--51239	27	2.2	28	80	14	72	35	3	0	61	1.12
51185--51248	24	2.6	25	81	13	78	32	3	0	64	1.10
51185--51263	24	3.3	21	78	18	59	36	2	0	60	1.10
51411--51440	6	5.0	6	91	0	51	33	30	16	20	1.94
51434--51477	18	2.4	19	80	3	54	31	18	15	34	1.92
51777--51833	18	3.1	18	79	5	60	45	3	0	50	1.18
52013--52052	18	2.1	20	86	9	57	45	2	5	47	1.38
52713--52766	21	2.6	21	82	5	65	44	7	1	46	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53105--53155	26	2.0	26	84	7	68	45	3	1	49	1.32
53070--53171	47	2.2	47	81	10	120	48	1	1	48	1.24
53033--53160	15	8.6	16	69	20	82	43	1	1	53	1.19
53096--53169	22	3.2	22	72	20	62	45	2	1	50	1.24
53538--53619	29	2.7	30	86	3	112	41	18	7	32	1.78
53728--53796	16	4.2	17	74	10	72	59	0	0	40	0.97
53708--53814	23	4.4	27	72	17	76	63	0	0	36	0.95
53716--53821	32	3.3	32	80	2	106	63	0	0	36	0.95
53717--53823	5	23.2	5	69	16	61	62	0	0	37	0.95
53769--53834	27	2.6	25	76	9	78	59	0	1	39	1.07
53766--53809	18	2.4	18	81	11	54	63	0	0	36	0.95
54012--54057	18	2.3	21	82	14	62	56	0	0	43	0.99
58891--58931	16	2.7	15	88	7	57	34	2	2	60	1.23
59312--59352	21	2.0	21	85	9	57	60	0	2	36	1.10
59577--59618	15	2.8	16	85	10	61	59	0	2	38	1.10
59611--59662	26	2.1	25	85	7	70	30	1	1	65	1.14
59776--59844	29	2.5	27	81	9	68	40	4	0	55	1.20
59776--59845	27	2.6	27	81	6	79	40	4	0	55	1.19
61034--61147	56	2.0	56	91	3	185	28	8	11	51	1.67
61116--61175	30	2.0	30	96	0	111	21	16	11	50	1.77
62954--63012	28	2.1	28	96	0	109	16	22	23	37	1.94
70059--70097	20	1.9	21	89	5	62	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
70059--70103	20	2.3	19	85	11	56	60	0	0	40	0.97
71259--71329	30	2.2	33	80	14	87	42	7	1	49	1.38
71493--71524	2	16.5	2	93	6	57	50	0	0	50	1.00
73047--73092	24	2.0	24	91	8	78	26	0	0	73	0.83
73170--73214	2	22.0	2	95	4	81	48	0	2	48	1.13
74392--74426	18	1.9	18	94	0	61	71	0	0	28	0.86
76010--76069	19	2.9	21	76	14	63	36	0	0	63	0.95
76006--76084	27	2.8	28	73	17	74	35	1	0	63	1.03
76010--76082	23	3.4	23	71	19	68	34	1	0	64	1.02
76280--76308	2	14.5	2	100	0	58	48	0	0	51	1.00
83329--83388	18	3.6	17	75	24	56	45	0	0	55	0.99
83336--83388	16	3.2	16	75	19	56	43	0	0	56	0.99
83330--83393	32	2.0	33	87	3	94	45	0	0	54	0.99
84646--84677	3	10.7	3	93	0	55	34	0	0	65	0.93
85100--85153	27	2.0	27	82	7	65	42	3	1	51	1.30
85517--85563	16	3.0	16	75	6	51	40	0	0	59	0.97
85496--85557	21	2.7	23	70	17	56	35	0	3	61	1.12
87767--87808	22	1.9	22	90	9	68	38	0	0	61	0.96
87813--87851	21	2.0	18	85	14	51	53	0	0	46	1.00
93986--94086	45	2.4	39	77	17	112	47	0	3	48	1.20
93999--94091	45	2.1	45	91	0	150	51	0	4	44	1.21
96066--96102	15	2.5	15	83	16	51	29	13	27	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
96238--96293	26	2.2	26	83	6	69	64	0	0	35	0.94
96246--96293	8	5.6	8	78	11	51	62	0	0	37	0.95
97428--97477	20	2.5	21	83	9	68	46	0	0	54	1.00
97794--97826	14	2.3	15	89	5	50	42	0	0	57	0.98
98434--98464	16	1.9	16	93	0	53	51	0	0	48	1.00
98442--98500	26	2.3	26	82	8	68	59	0	0	40	0.97
98587--98632	15	3.0	15	75	6	56	58	4	2	34	1.30
100238--100277	19	2.1	19	85	0	53	72	7	0	20	1.08
100949--101007	22	2.8	20	76	16	55	67	0	0	32	0.91
101933--101964	3	10.7	3	100	0	64	65	0	34	0	0.93
103198--103381	92	2.0	92	100	0	368	29	9	19	41	1.83
109552--109612	33	1.9	33	84	15	85	44	0	0	55	0.99
109552--109635	35	2.6	32	80	16	84	45	0	0	54	0.99
110167--110224	28	2.0	29	87	9	84	65	1	1	31	1.13
110167--110214	15	3.3	15	77	22	57	58	2	2	37	1.22
110170--110223	12	4.0	13	78	21	58	66	1	1	29	1.12
110170--110224	15	4.0	14	76	19	53	67	1	1	29	1.11
110577--110635	31	1.9	31	89	0	91	37	23	15	23	1.93
111578--111635	16	3.9	16	72	21	63	51	0	0	48	1.00
111569--111640	27	2.6	27	91	2	108	48	0	1	50	1.09
112612--112649	2	19.0	2	100	0	76	50	0	0	50	1.00
119889--119929	2	20.5	2	100	0	82	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)
120126--120208	27	3.0	28	75	19	77	56	0	3	39	1.17
120547--120598	25	2.1	24	86	10	70	30	5	0	63	1.18
121027--121075	2	25.5	2	78	15	50	40	0	4	55	1.19
121859--121964	29	3.7	26	74	20	79	38	1	0	59	1.08
121849--121992	27	5.1	27	73	18	84	38	1	0	59	1.11
122237--122317	5	16.4	5	76	10	69	37	0	0	62	0.95
122208--122284	32	2.4	31	84	4	91	42	1	1	54	1.16
122237--122284	16	3.1	16	80	14	55	37	0	0	62	0.95
122868--122913	20	2.3	20	89	10	69	45	0	0	54	0.99
124011--124061	19	2.4	21	75	21	52	45	3	5	45	1.46

Tables:   1   2   3   4