genome.fa.s503.2.7.7.80.10.50.1000.1.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: Scaffold503
Parameters: 2 7 7 80 10 50 1000
Length:  995855

Tables:   1   2   3   4   5   6   7   

This is table  1  of  7  ( 749 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)
85--178	2	49.0	2	71	19	67	43	3	4	48	1.38
77--118	21	2.0	22	86	13	61	35	4	7	52	1.50
82--178	16	6.1	15	75	15	81	43	3	4	49	1.37
86--178	37	2.5	37	75	19	86	44	3	4	48	1.38
206--250	18	2.5	18	85	0	63	33	0	0	66	0.92
198--274	35	2.2	35	84	9	95	28	3	0	67	1.08
287--315	12	2.5	12	94	5	51	41	0	0	58	0.98
311--348	14	2.7	14	84	12	51	36	2	7	52	1.45
342--367	12	2.2	12	100	0	52	57	0	0	42	0.98
349--375	14	1.9	14	100	0	54	59	0	0	40	0.98
5575--5606	17	1.9	17	93	6	57	62	9	0	28	1.26
6397--6450	20	2.7	20	88	0	72	35	12	12	38	1.82
7306--7354	21	2.3	21	92	0	80	28	18	16	36	1.92
8676--8906	97	2.4	96	79	7	252	29	25	12	32	1.93
10167--10197	2	15.5	2	100	0	62	51	0	0	48	1.00
10582--10622	3	14.0	3	94	5	75	31	0	0	68	0.90
10906--10951	22	2.1	21	84	8	56	50	0	0	50	1.00
11182--11217	2	18.0	2	100	0	72	50	0	0	50	1.00
13249--13325	32	2.3	34	82	13	97	49	1	5	44	1.33
13854--13891	18	2.2	18	86	9	53	55	0	0	44	0.99
13876--13918	22	2.0	21	86	4	59	58	0	4	37	1.19
13942--13993	17	2.8	19	83	13	56	23	0	3	73	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14053--14112	24	2.5	24	91	5	95	40	3	8	48	1.50
17323--17363	3	13.7	3	100	0	82	31	0	0	68	0.90
18055--18106	20	2.7	20	77	16	56	40	1	0	57	1.10
18071--18104	17	2.1	17	88	5	52	38	0	0	61	0.96
21719--21774	21	2.6	22	75	13	55	51	1	0	46	1.11
21719--21772	20	2.5	20	79	8	54	51	1	0	46	1.11
21943--21979	2	18.5	2	100	0	74	48	0	0	51	1.00
25531--25566	18	1.9	19	88	5	56	55	0	0	44	0.99
26328--26402	20	4.0	20	81	8	77	33	14	13	38	1.85
26372--26402	16	1.9	16	100	0	62	38	16	12	32	1.86
28593--28821	97	2.4	97	81	1	280	29	28	11	29	1.92
30493--30527	3	12.0	3	93	6	63	31	0	0	68	0.90
30801--30846	22	2.1	21	84	8	56	50	0	0	50	1.00
31077--31106	2	15.0	2	100	0	60	50	0	0	50	1.00
31302--31367	29	2.4	29	80	12	68	54	3	0	42	1.15
31350--31375	12	2.2	12	100	0	52	57	0	0	42	0.98
31969--32015	17	2.8	17	79	17	53	31	0	2	65	1.04
33918--33973	18	3.2	18	80	11	55	53	0	1	44	1.11
33929--33973	18	2.5	18	82	10	56	51	0	2	46	1.13
34886--34924	19	2.1	19	90	0	60	79	0	12	7	0.93
36234--36271	19	2.0	20	85	15	53	21	0	5	73	1.02
36314--36381	26	2.7	26	84	15	97	39	5	8	45	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36309--36378	24	2.8	25	89	4	97	37	5	8	48	1.58
39613--39644	3	10.7	3	100	0	64	31	0	0	68	0.90
39886--39914	13	2.2	13	100	0	58	34	0	0	65	0.93
40348--40399	20	2.7	20	77	16	56	40	1	0	57	1.10
40364--40397	17	2.1	17	88	5	52	38	0	0	61	0.96
44026--44081	21	2.6	22	75	13	55	51	1	0	46	1.11
44026--44079	20	2.5	20	79	8	54	51	1	0	46	1.11
44249--44287	2	19.5	2	100	0	78	48	0	0	51	1.00
46590--46637	25	1.9	25	86	0	69	52	0	0	47	1.00
47864--47897	8	4.1	8	96	3	59	0	14	0	85	0.60
47861--47901	19	2.2	19	91	4	66	0	17	0	82	0.66
49833--49875	17	2.6	16	77	3	50	60	2	2	34	1.22
49999--50041	21	2.3	18	84	15	52	67	0	0	32	0.91
51761--51826	31	2.1	30	81	10	71	57	3	0	39	1.14
52299--52989	369	1.8	369	82	5	864	25	24	17	32	1.97
54331--54377	23	2.0	23	84	8	60	48	0	2	48	1.13
54430--54459	2	15.5	2	93	6	53	50	0	0	50	1.00
55370--55402	2	16.5	2	93	0	57	45	0	3	51	1.16
55839--55893	26	2.1	26	83	6	67	45	5	9	40	1.59
56209--56256	24	2.0	24	83	0	60	56	2	4	37	1.30
60496--60538	19	2.2	21	88	12	65	44	0	2	53	1.13
60548--60592	20	2.2	21	84	4	56	51	0	6	42	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60603--60697	30	3.1	30	80	7	93	49	0	2	48	1.13
60709--60750	15	2.9	15	75	3	50	59	2	2	35	1.23
61955--62085	64	2.0	64	97	0	244	42	7	3	46	1.47
69452--69504	23	2.4	22	87	9	72	15	13	7	64	1.49
69461--69504	23	1.9	23	95	0	79	13	13	6	65	1.44
70049--70087	15	2.6	15	91	0	60	33	0	2	64	1.08
70518--70556	16	2.5	16	91	4	62	43	0	2	53	1.14
80876--80948	26	2.7	27	76	4	67	56	4	1	38	1.27
82259--82295	14	2.5	15	91	8	58	32	10	0	56	1.34
82383--82429	25	2.0	23	88	12	69	36	0	4	59	1.17
83444--83480	18	2.1	18	89	0	56	37	0	2	59	1.12
85339--85403	32	2.0	32	84	0	85	30	15	18	35	1.92
93863--93935	22	3.2	23	77	11	69	45	1	0	53	1.09
94114--94165	22	2.4	21	80	3	59	30	0	5	63	1.18
98360--98407	22	2.2	22	85	7	62	37	0	0	62	0.95
101008--101040	16	2.1	16	94	0	57	36	12	3	48	1.56
104800--104828	14	2.0	15	93	6	51	37	0	0	62	0.96
105876--105961	2	45.5	2	72	19	51	52	2	2	43	1.26
105876--105973	34	3.0	33	91	8	166	54	3	3	39	1.32
105877--105973	30	3.1	31	86	10	142	53	3	3	40	1.32
106639--106686	24	1.9	25	91	8	80	58	0	0	41	0.98
110113--110170	29	2.0	29	93	0	98	36	18	20	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
111939--111978	17	2.2	18	86	8	55	65	2	0	32	1.06
113125--113151	2	13.5	2	100	0	54	48	0	51	0	1.00
114060--114089	2	15.0	2	100	0	60	50	0	0	50	1.00
114209--114255	2	23.5	2	100	0	94	51	0	0	48	1.00
116019--116192	50	3.5	50	86	0	231	32	16	18	32	1.93
116026--116207	100	1.8	100	86	2	267	31	14	19	34	1.92
120499--120660	50	3.2	50	89	0	243	29	17	20	32	1.96
122236--122267	12	2.4	14	90	10	50	50	0	0	50	1.00
122793--122895	31	3.4	31	71	12	88	63	0	1	34	1.06
122798--122875	21	3.9	21	73	14	74	64	0	0	35	0.94
131796--131925	52	2.5	53	91	1	217	28	17	17	36	1.93
132007--132038	16	2.0	16	93	0	55	40	15	6	37	1.73
138516--138541	2	13.0	2	100	0	52	50	0	50	0	1.00
139294--139328	17	2.0	18	94	5	63	68	0	0	31	0.90
139565--139590	9	2.9	9	100	0	52	42	0	0	57	0.98
139539--139611	24	3.0	24	73	13	69	36	0	0	63	0.95
139570--139630	24	2.6	23	76	5	59	45	0	0	54	1.00
142456--142489	17	2.0	17	100	0	68	41	11	17	29	1.85
144816--144863	11	4.1	12	76	13	55	29	0	2	68	1.01
148251--148310	29	2.1	29	87	0	84	30	20	16	33	1.94
152061--152131	33	2.2	33	81	0	79	46	19	5	28	1.72
155197--155250	19	2.8	19	75	13	56	50	5	3	40	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
155275--155299	2	12.5	2	100	0	50	52	0	0	48	1.00
161673--161710	15	2.5	15	87	8	51	44	2	5	47	1.39
161971--162015	20	2.2	20	84	7	56	46	8	0	44	1.34
162801--162830	14	2.1	14	93	0	51	33	0	0	66	0.92
163519--163561	17	2.4	18	78	14	54	11	4	2	81	0.93
163592--163621	16	1.9	15	93	6	51	43	3	0	53	1.17
163639--163689	24	2.1	24	82	7	59	41	3	0	54	1.19
164429--164484	29	1.9	29	88	0	85	35	7	10	46	1.66
165617--165678	18	3.2	19	77	17	65	37	0	0	62	0.95
165640--165683	18	2.7	16	83	16	63	34	0	0	65	0.93

Tables:   1   2   3   4   5   6   7