genome.fa.s82.2.7.7.80.10.50.1000.1.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: Scaffold82
Parameters: 2 7 7 80 10 50 1000
Length:  2626005

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  1  of  17  ( 2012 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)
2647--2712	23	2.9	24	82	8	77	54	0	0	45	0.99
3270--3302	10	3.4	10	87	8	50	39	0	0	60	0.97
3210--3325	52	2.3	51	81	15	127	52	0	0	46	1.06
3270--3299	9	3.2	9	95	4	51	36	0	0	63	0.95
3545--3596	26	1.9	28	88	7	81	44	0	0	55	0.99
3523--3764	82	3.1	82	61	19	186	49	6	3	40	1.46
3499--3807	155	2.0	155	98	0	591	51	5	4	38	1.47
4019--4067	23	2.0	23	84	7	62	44	0	0	55	0.99
5137--5172	16	2.3	16	90	4	56	47	8	0	44	1.33
5992--6062	21	3.1	23	76	6	74	59	0	0	40	0.98
6395--6450	18	2.8	19	73	21	53	44	0	0	55	0.99
6388--6457	16	4.2	17	77	16	67	42	0	0	57	0.99
6399--6453	20	2.8	20	72	16	60	43	0	0	56	0.99
6404--6481	34	2.2	36	84	6	99	42	0	0	57	0.98
6433--6504	24	3.0	25	86	6	87	37	0	0	62	0.95
6463--6508	6	7.8	6	81	13	51	32	0	0	67	0.91
6848--6887	21	2.0	21	85	5	55	55	2	0	42	1.13
7575--7616	21	2.1	19	86	13	57	59	0	0	40	0.97
7747--7782	2	18.0	2	100	0	72	50	0	0	50	1.00
9725--9767	22	2.0	22	86	9	61	44	0	6	48	1.29
9975--10033	13	5.1	13	75	24	53	52	0	0	47	1.00
9972--10033	32	1.9	32	87	12	92	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)
9979--10036	19	3.1	19	82	7	66	50	0	0	50	1.00
17333--17364	2	16.0	2	100	0	64	50	0	0	50	1.00
17934--17973	13	2.9	14	85	10	55	40	0	0	60	0.97
21025--21071	17	2.6	19	78	21	57	36	6	0	57	1.24
22225--22279	24	2.3	24	84	6	67	40	0	1	58	1.09
25639--25823	34	5.5	34	87	3	257	40	27	7	25	1.81
25639--25823	102	1.8	101	92	1	316	40	27	7	25	1.81
29889--29951	19	3.3	19	90	0	90	34	19	17	28	1.94
30256--30439	34	5.4	34	87	3	255	40	27	7	25	1.81
30256--30439	102	1.8	101	92	1	314	40	27	7	25	1.81
32128--32179	24	2.1	26	85	7	72	67	5	1	25	1.23
32119--32180	24	2.4	25	78	15	63	66	4	1	27	1.21
34489--34552	33	1.9	34	87	3	94	46	9	3	40	1.52
34698--34759	21	2.9	22	76	19	69	41	0	0	58	0.98
34724--34764	10	3.9	10	84	12	55	39	0	0	60	0.96
34703--34771	22	3.2	22	73	17	65	40	0	0	59	0.97
34774--34821	20	2.4	20	85	0	69	52	2	0	45	1.12
37190--37241	18	2.8	18	83	16	70	40	15	15	28	1.88
37170--37241	20	3.7	19	80	17	78	37	16	15	30	1.90
38426--38450	10	2.5	10	100	0	50	20	20	0	60	1.37
38761--38987	85	2.7	85	92	0	373	21	27	33	16	1.95
38931--39109	59	3.0	59	95	0	322	23	29	33	13	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38682--39477	144	5.6	144	80	9	887	21	27	34	16	1.95
38850--39242	203	1.9	203	94	0	696	21	28	34	15	1.94
39134--39250	59	2.0	59	93	0	198	23	26	35	14	1.94
44144--44199	28	2.0	26	83	10	67	51	5	7	35	1.52
45698--45825	57	2.3	56	95	1	229	43	3	1	50	1.29
46052--46084	3	11.0	3	100	0	66	33	0	0	66	0.92
47543--47632	46	1.9	47	84	2	119	43	4	4	47	1.43
47538--47617	23	3.5	23	75	13	74	45	2	5	47	1.38
47775--47816	13	3.2	13	89	3	66	50	0	0	50	1.00
48220--48304	36	2.3	37	76	11	93	47	0	1	51	1.08
50513--50582	14	5.2	14	71	25	53	37	0	0	62	0.95
50517--50549	10	3.2	11	83	16	52	39	0	0	60	0.97
50517--50587	22	3.5	20	72	25	69	40	0	0	59	0.98
50490--50587	40	2.5	39	81	9	101	40	0	2	57	1.10
51730--51754	4	6.2	4	100	0	50	24	0	24	52	1.48
52429--52548	48	2.6	47	94	4	208	55	19	3	22	1.58
63559--63636	20	4.0	20	73	20	58	39	0	0	60	0.97
63555--63644	26	3.6	25	91	5	130	41	0	0	58	0.98
64015--64048	2	17.0	2	100	0	68	50	0	0	50	1.00
65001--65062	29	2.1	29	81	0	70	24	33	0	41	1.55
66490--66574	16	5.4	16	79	10	68	52	27	9	10	1.66
70491--70541	27	2.0	25	84	7	66	47	0	5	47	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
70480--70667	99	1.9	100	84	3	254	37	6	7	48	1.57
71059--71106	16	3.0	16	87	0	60	37	37	22	2	1.66
76067--76120	19	2.7	19	85	5	72	42	12	14	29	1.83
76064--76122	21	3.0	19	83	11	75	42	11	15	30	1.83
78383--78568	90	2.1	88	89	4	284	28	26	12	32	1.92
78383--78583	88	2.3	89	86	5	273	28	25	12	32	1.93
79983--80070	35	3.0	28	74	24	83	35	1	2	61	1.16
80039--80084	24	1.9	24	86	8	67	36	0	0	63	0.95
80835--80880	16	2.8	16	83	3	56	54	0	0	45	0.99
80851--80909	23	3.1	19	83	16	61	59	0	0	40	0.97
95291--95366	28	2.9	26	81	11	84	56	0	0	43	0.99
95334--95390	30	1.9	29	86	10	80	61	0	0	38	0.96
95304--95372	14	4.8	14	71	7	57	62	0	0	37	0.96
95327--95385	24	2.4	24	80	8	66	57	0	0	42	0.98
95389--95423	17	2.0	17	88	5	52	62	0	0	37	0.95
95512--95562	19	2.7	19	87	6	77	54	0	1	43	1.11
95529--95593	26	2.4	27	82	10	80	49	1	0	49	1.10
95528--95584	19	3.1	17	85	10	60	47	0	0	52	1.00
95538--95613	34	2.3	31	78	13	80	52	1	0	46	1.08
95513--95577	10	6.7	10	72	21	50	53	0	1	44	1.09
96204--96253	23	2.2	23	85	7	66	46	2	0	52	1.12
96572--96619	20	2.4	21	79	10	55	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
97827--97894	9	7.9	9	74	12	54	52	0	1	45	1.09
98733--98776	19	2.4	19	85	11	56	68	0	2	29	1.02
98731--98777	18	2.6	19	80	9	55	65	0	2	31	1.04
99351--99398	22	2.2	22	81	3	53	79	2	14	4	0.98
101478--101509	11	2.8	12	81	18	50	21	0	0	78	0.76
101534--101610	23	3.7	21	72	19	63	53	0	1	45	1.08
101562--101610	18	2.5	19	78	21	57	55	0	0	44	0.99
101564--101610	15	2.7	18	84	15	55	57	0	0	42	0.98
101944--101972	12	2.3	13	94	5	51	72	0	20	6	1.07
102346--102384	19	2.1	19	85	9	53	69	0	0	30	0.89
103074--103111	18	2.1	19	90	9	62	47	0	0	52	1.00
104213--104262	11	4.5	11	76	16	50	66	0	2	32	1.03
104207--104262	22	2.7	21	76	17	64	64	0	3	32	1.11
104234--104307	16	4.7	17	72	24	56	56	0	2	40	1.13
106531--106575	22	2.0	22	83	8	56	44	4	24	26	1.72
107057--107099	13	3.0	15	76	13	54	53	0	0	46	1.00
107317--107367	15	3.3	15	75	21	52	68	3	3	23	1.23
107540--107581	17	2.5	17	81	11	52	64	0	2	33	1.07
108713--108769	29	1.9	30	82	10	73	40	1	0	57	1.09
109772--109865	22	4.0	22	71	15	64	59	0	0	40	0.97
109798--109850	18	2.8	18	80	11	61	58	0	0	41	0.98
110266--110293	2	14.0	2	100	0	56	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)
110616--110702	38	2.3	36	75	14	86	48	1	0	50	1.08
112280--112328	24	2.0	24	84	0	62	55	0	2	42	1.11
112330--112370	19	2.2	18	86	4	55	56	0	0	43	0.99
113893--113944	23	2.2	25	86	6	72	50	1	0	48	1.12
114235--114311	30	2.8	28	79	16	88	41	0	1	57	1.07
114330--114369	13	3.0	13	88	3	53	57	2	0	40	1.12
114434--114505	20	3.7	20	73	17	69	54	0	0	45	0.99
114467--114563	43	2.3	42	80	8	106	54	0	0	45	0.99
115002--115039	15	2.5	15	87	8	51	68	0	0	31	0.90
115003--115071	32	2.1	33	81	7	79	62	1	0	36	1.04

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17