genome.fa.s488.2.7.7.80.10.50.1000.1.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: Scaffold488
Parameters: 2 7 7 80 10 50 1000
Length:  2093548

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

This is table  1  of  14  ( 1614 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)
897--950	17	3.1	17	76	12	56	64	0	0	35	0.94
904--953	11	4.9	10	79	18	50	68	0	0	32	0.90
904--966	20	3.0	20	81	9	65	66	1	1	30	1.10
902--955	5	10.6	5	76	11	56	66	0	0	33	0.92
902--965	15	4.1	16	80	8	60	65	1	1	31	1.11
913--1041	8	15.1	8	66	24	52	58	3	0	37	1.19
4129--4157	13	2.1	14	93	6	51	75	6	0	17	1.01
4424--4518	32	3.0	31	76	6	100	54	4	1	40	1.27
4617--4646	14	2.1	15	93	6	53	26	0	0	73	0.84
5795--5831	17	2.2	18	90	9	60	27	5	5	62	1.39
5901--5970	14	5.1	14	76	15	65	41	0	0	58	0.98
6842--6894	28	1.9	27	84	3	70	50	0	0	49	1.00
6702--7150	222	2.0	222	98	0	871	43	3	4	48	1.40
7064--7116	28	1.9	27	84	3	70	50	0	0	49	1.00
7920--7960	21	2.0	21	85	9	57	46	12	0	41	1.41
8056--8124	21	3.2	21	80	13	79	59	0	0	40	0.97
8064--8131	21	3.4	21	78	13	63	61	0	0	38	0.96
10809--10845	20	1.9	20	88	5	58	78	2	5	13	1.03
11309--11366	30	1.9	30	89	0	89	24	13	20	41	1.89
11468--11545	14	5.8	14	73	18	60	61	1	1	35	1.12
11482--11530	5	10.2	5	79	16	59	57	0	0	42	0.99
11583--11622	16	2.5	17	84	12	57	40	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13390--13420	14	2.2	14	100	0	62	35	16	25	22	1.94
13552--13581	4	7.5	4	100	0	60	76	0	0	23	0.78
15540--15745	104	2.0	104	92	1	342	27	16	15	40	1.88
15431--15842	223	1.9	222	88	2	630	25	15	16	42	1.87
15644--16262	119	5.2	119	80	8	661	25	15	15	43	1.87
15644--16219	231	2.4	231	80	8	619	25	15	15	43	1.86
16241--16301	32	1.9	32	89	0	95	27	4	16	50	1.65
17069--17098	2	15.0	2	100	0	60	50	0	0	50	1.00
23550--23607	16	3.7	15	79	11	55	27	0	1	70	0.97
23571--23608	16	2.3	16	90	4	58	23	0	0	76	0.79
23829--23873	2	22.5	2	100	0	90	51	0	0	48	1.00
24750--24797	20	2.3	20	89	3	69	50	0	2	47	1.12
25412--25455	17	2.4	18	85	7	63	34	4	0	61	1.16
25632--25690	24	2.2	28	80	19	74	64	0	1	33	1.04
29792--29836	20	2.3	20	85	7	58	64	0	2	33	1.06
30264--30295	3	10.7	3	100	0	64	68	0	0	31	0.90
34494--34520	2	13.5	2	100	0	54	48	0	0	51	1.00
34730--34756	2	13.5	2	100	0	54	48	0	0	51	1.00
35179--35203	2	12.5	2	100	0	50	52	0	0	48	1.00
36111--36148	20	1.9	20	84	10	51	55	0	2	42	1.14
37066--37104	3	13.0	3	100	0	78	66	0	0	33	0.92
37132--37167	18	2.0	18	88	0	54	66	0	25	8	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37473--37509	2	19.0	2	94	5	67	51	0	0	48	1.00
37984--38020	2	18.5	2	94	0	65	48	0	2	48	1.15
38085--38114	2	15.0	2	100	0	60	50	0	0	50	1.00
38530--38563	2	17.0	2	100	0	68	50	0	0	50	1.00
38981--39037	2	28.5	2	87	7	80	45	0	3	50	1.18
39217--39257	21	2.0	21	90	9	66	53	0	7	39	1.29
39564--39612	19	2.5	19	87	9	64	2	18	0	79	0.83
40388--40438	20	2.5	20	81	9	59	52	1	5	39	1.37
40457--40492	11	3.2	11	92	4	54	66	0	0	33	0.92
40461--40513	28	1.9	27	85	11	72	64	0	1	33	1.05
40549--40616	27	2.5	27	74	9	75	61	0	1	36	1.05
40549--40626	27	2.9	26	71	21	70	60	1	1	37	1.13
41168--41205	2	19.0	2	100	0	76	50	0	0	50	1.00
41456--41488	2	16.5	2	100	0	66	51	0	0	48	1.00
42214--42263	20	2.4	21	80	6	57	62	2	0	36	1.07
43666--43731	23	2.8	23	78	17	73	63	7	4	24	1.40
44023--44053	2	15.5	2	100	0	62	48	0	0	51	1.00
44106--44138	2	16.5	2	93	0	57	48	3	0	48	1.17
44023--44183	85	1.9	85	97	0	304	38	7	8	45	1.63
45145--45181	15	2.2	17	86	13	51	45	0	2	51	1.15
45383--45415	16	2.1	16	94	0	57	66	0	12	21	1.23
49985--50017	15	2.2	15	100	0	66	45	6	18	30	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50182--50209	2	14.0	2	100	0	56	50	0	0	50	1.00
58993--59017	4	6.2	4	100	0	50	24	0	0	76	0.80
60074--60129	24	2.2	27	78	18	66	60	1	1	35	1.17
61576--61613	18	2.1	18	95	0	67	28	5	23	42	1.76
64851--64884	17	2.0	17	88	0	50	44	0	2	52	1.16
65354--65392	18	2.3	17	82	8	53	53	7	5	33	1.51
66334--66379	23	2.0	22	83	4	56	41	0	0	58	0.98
66335--66430	33	2.9	31	87	6	120	44	1	1	53	1.14
66516--66565	25	2.0	25	96	0	91	34	12	22	32	1.90
66720--66744	11	2.3	11	100	0	50	68	0	0	32	0.90
67247--67295	23	2.3	21	79	10	55	44	2	0	53	1.12
67489--67529	19	2.4	16	78	21	55	46	14	7	31	1.72
67494--67531	19	2.0	19	100	0	76	42	15	10	31	1.81
67817--67866	10	5.1	10	75	20	52	38	2	0	60	1.09
68830--68937	32	3.4	32	94	0	171	32	13	18	35	1.90
68862--68924	19	3.6	19	72	24	75	31	14	19	34	1.91
74308--74346	18	2.2	18	86	9	53	46	0	2	51	1.14
74550--74598	23	2.1	24	84	3	64	57	4	6	32	1.42
78449--78474	2	13.0	2	100	0	52	50	0	0	50	1.00
79542--79570	14	2.0	15	93	6	51	68	0	3	27	1.05
79753--79805	25	2.0	26	85	10	72	45	9	1	43	1.47
80598--80784	96	1.9	96	90	0	293	39	2	5	51	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
80811--80882	17	4.2	18	72	16	55	33	0	0	66	0.92
80839--80881	5	9.4	5	80	19	58	34	0	0	65	0.93
80811--80881	10	8.0	9	79	16	69	33	0	0	66	0.92
80795--80895	18	5.3	18	70	23	57	33	0	0	66	0.92
85195--85241	12	4.2	12	70	29	50	40	0	2	57	1.11
85203--85241	20	2.0	20	90	10	62	43	0	2	53	1.14
90318--90358	20	2.0	20	85	0	55	19	0	19	60	1.36
91356--92079	311	2.3	307	75	7	660	30	13	16	39	1.87
95476--95504	2	14.5	2	100	0	58	51	0	0	48	1.00
96984--97031	21	2.3	21	85	0	60	66	0	16	16	1.25
100494--100629	65	2.1	64	82	5	166	33	5	5	55	1.44
101842--101888	21	2.2	21	84	0	58	65	0	17	17	1.27
105346--105481	65	2.1	64	82	5	166	33	5	5	55	1.44
106694--106740	21	2.2	21	84	0	58	65	0	17	17	1.27
112889--112931	19	2.3	19	84	8	52	62	13	13	9	1.53
113557--113595	20	2.0	19	85	14	53	38	0	0	61	0.96
113541--113595	27	2.0	28	86	10	78	36	1	0	61	1.06
114536--114565	6	5.0	6	100	0	60	33	50	16	0	1.46
128877--129201	178	1.8	178	95	0	596	34	21	16	27	1.95
131290--131363	26	2.9	27	74	11	75	45	1	0	52	1.09
131290--131365	25	3.0	26	74	12	77	44	1	0	53	1.08
132399--132446	23	2.1	23	88	0	69	43	6	6	43	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
132832--132901	33	2.1	33	89	0	104	52	10	12	24	1.69
133844--133879	15	2.4	15	90	9	56	52	0	0	47	1.00
135777--135806	2	15.0	2	100	0	60	50	0	0	50	1.00
136021--136050	11	2.7	11	94	0	51	76	0	23	0	0.78
138730--138760	14	2.3	13	94	5	53	9	9	0	80	0.90
139169--139205	17	2.1	19	85	10	51	40	2	2	54	1.29
140129--140178	25	1.9	26	84	8	66	32	0	10	58	1.31
143288--143330	22	2.0	22	85	0	59	4	9	2	83	0.87
143411--143597	70	2.7	66	76	17	180	55	11	1	31	1.46
145018--145086	23	3.3	21	74	23	65	55	0	1	43	1.08

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