genome.fa.s223.2.7.7.80.10.50.1000.1.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: Scaffold223
Parameters: 2 7 7 80 10 50 1000
Length:  4172444

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   

This is table  1  of  26  ( 3021 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)
4409--4453	11	4.0	12	77	13	51	37	0	2	60	1.09
4405--4441	12	3.2	12	84	7	58	37	0	0	62	0.96
10212--10238	12	2.2	12	100	0	54	18	33	7	40	1.78
11579--11611	2	16.5	2	100	0	66	51	0	48	0	1.00
11747--11786	2	20.0	2	89	0	62	47	5	0	47	1.24
15607--15636	4	7.5	4	100	0	60	23	0	0	76	0.78
18927--18965	5	7.8	5	88	0	60	2	2	35	58	1.25
20034--20081	6	8.7	6	78	15	50	31	0	0	68	0.90
20043--20086	15	2.9	16	76	10	56	29	0	0	70	0.88
20047--20086	19	2.1	20	86	9	57	30	0	0	70	0.88
20055--20102	21	2.4	19	80	13	51	29	2	2	66	1.14
20041--20165	24	5.2	23	67	26	64	36	0	1	60	1.12
20659--20694	16	2.2	16	90	0	54	30	5	13	50	1.65
21188--21217	2	15.0	2	92	0	51	46	0	3	50	1.18
21924--21994	30	2.4	30	76	19	78	26	1	8	63	1.31
21927--21994	28	2.3	30	82	12	88	26	1	8	63	1.32
26999--27048	15	3.3	15	77	0	55	20	44	12	24	1.85
27144--27202	27	2.2	27	87	0	82	28	42	1	27	1.65
27521--27714	36	5.2	36	70	11	149	30	7	22	39	1.82
27501--27690	36	5.1	37	66	12	127	28	8	23	38	1.84
27501--27718	75	2.9	75	94	0	382	29	8	22	38	1.83
34748--34789	2	21.0	2	100	0	84	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)
35214--35238	2	12.5	2	100	0	50	48	0	0	52	1.00
37108--37498	147	2.6	147	89	2	611	39	21	7	30	1.82
37108--37498	75	5.3	75	90	1	608	39	21	7	30	1.82
41018--41146	52	2.5	52	94	0	231	28	17	17	35	1.93
41155--41179	13	1.9	13	100	0	50	36	16	16	32	1.90
41222--41351	19	7.8	18	70	29	110	36	17	12	33	1.87
41217--41349	32	4.1	32	98	0	248	35	18	12	34	1.87
41241--41329	13	5.9	13	72	27	70	33	17	13	34	1.89
43963--43990	3	9.3	3	100	0	56	67	0	0	32	0.91
46217--46255	17	2.5	15	83	8	51	61	0	0	38	0.96
46208--46254	15	3.1	15	81	9	60	59	0	0	40	0.97
47364--47423	30	2.0	30	86	0	84	41	1	1	55	1.20
48060--48090	2	15.5	2	100	0	62	48	0	51	0	1.00
50051--50098	24	2.0	24	83	4	60	58	4	8	29	1.46
51994--52019	2	13.0	2	100	0	52	50	0	0	50	1.00
52660--52684	6	4.2	6	100	0	50	16	48	0	36	1.46
53180--53204	10	2.5	10	100	0	50	28	0	12	60	1.32
54367--55069	360	1.9	363	94	1	1241	33	16	24	25	1.96
58467--58518	2	26.0	2	96	0	95	48	0	1	50	1.12
58735--58773	2	19.5	2	100	0	78	51	0	0	48	1.00
58863--58907	2	22.5	2	100	0	90	48	0	0	51	1.00
59342--59373	2	16.0	2	100	0	64	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)
59755--59799	2	23.0	2	95	4	83	48	0	0	51	1.00
59866--59900	18	2.0	17	88	5	52	60	0	0	40	0.97
69062--69097	2	18.0	2	100	0	72	50	0	0	50	1.00
70171--70221	14	3.9	13	78	12	52	64	0	0	35	0.94
70161--70225	25	2.5	27	82	9	82	63	0	0	36	0.95
70161--70221	8	8.0	8	77	17	51	62	0	0	37	0.96
70179--70221	20	2.1	21	95	4	79	65	0	0	34	0.93
70261--70317	18	3.1	17	82	10	60	43	0	1	54	1.10
72561--72588	2	14.0	2	100	0	56	50	0	0	50	1.00
79359--79629	132	2.1	130	92	1	443	25	17	16	40	1.90
85128--85168	2	20.5	2	100	0	82	48	0	0	51	1.00
85897--85932	5	7.2	5	87	0	54	38	0	0	61	0.96
86488--86522	2	17.5	2	100	0	70	51	0	0	48	1.00
86821--86882	3	21.0	3	75	15	58	35	0	1	62	1.05
86816--86882	18	3.6	21	73	24	69	35	0	1	62	1.04
88905--88936	5	6.4	5	100	0	64	0	59	0	40	0.97
90675--90732	2	29.0	2	79	6	55	43	0	10	46	1.38
90824--90900	1	77.0	1	94	0	136	1	97	0	1	0.20
92542--92586	2	22.5	2	100	0	90	48	0	0	51	1.00
92859--92944	27	3.1	28	79	14	81	56	0	0	43	0.99
92904--92951	21	2.3	21	96	0	87	58	0	0	41	0.98
93714--93740	2	13.5	2	100	0	54	48	0	51	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
93842--93971	66	2.0	67	92	1	217	26	16	16	40	1.90
96920--96959	15	2.7	15	88	0	53	42	0	5	52	1.23
97007--97047	17	2.3	18	87	4	57	34	0	0	65	0.93
107940--107965	3	8.7	3	100	0	52	34	0	0	65	0.93
108154--108184	2	15.5	2	100	0	62	48	0	0	51	1.00
108413--108447	2	17.5	2	100	0	70	48	0	0	51	1.00
111311--111368	2	29.0	2	79	6	64	48	0	6	44	1.29
113932--113990	2	29.5	2	100	0	118	0	50	0	49	1.00
119783--119821	7	5.4	7	93	6	69	25	0	0	74	0.82
120921--120965	2	22.5	2	95	0	81	46	0	2	51	1.13
121605--121648	2	22.0	2	100	0	88	50	0	0	50	1.00
122648--122730	19	4.6	19	67	20	61	48	0	1	50	1.08
122656--122730	33	2.3	33	84	6	91	46	0	1	52	1.09
122650--122736	37	2.3	39	82	11	101	45	0	1	52	1.08
122674--122736	19	3.2	19	76	19	67	44	0	1	53	1.10
126930--126956	2	13.5	2	100	0	54	48	0	0	51	1.00
127307--127511	109	1.9	109	83	7	256	54	1	2	40	1.27
127476--127538	23	2.9	22	83	4	65	61	4	3	30	1.32
127333--127538	109	1.9	109	84	5	281	55	2	2	39	1.26
127849--128191	123	2.8	125	85	7	445	41	2	2	53	1.27
128017--128074	22	2.7	20	76	12	53	37	1	1	58	1.18
127882--128237	123	2.9	118	79	13	280	41	2	1	53	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
131989--132183	70	2.8	70	93	3	322	30	17	11	40	1.85
132113--132554	179	2.5	178	89	2	672	33	16	7	42	1.78
132113--132554	87	4.9	90	85	6	603	33	16	7	42	1.78
132493--132607	57	2.0	58	91	1	187	32	18	9	40	1.83
132401--132702	149	2.0	150	90	1	473	32	17	8	41	1.80
132562--132736	91	1.9	91	91	0	287	33	14	8	42	1.77
135223--135273	22	2.3	22	100	0	102	58	9	11	19	1.60
136184--136258	20	3.8	20	78	3	71	40	13	13	33	1.83
136181--136258	40	2.0	39	84	2	102	39	14	12	33	1.84
136924--136963	21	1.9	22	90	10	66	55	5	0	40	1.22
136925--136981	20	2.8	20	77	20	55	59	3	0	36	1.14
136925--137282	123	2.9	122	84	10	453	53	1	2	42	1.25
137235--137265	15	2.0	16	93	6	55	61	0	0	38	0.96
138721--138775	16	3.4	16	77	7	58	32	1	1	63	1.15
139088--139158	22	3.3	22	76	9	74	46	1	0	52	1.09
139018--139123	16	6.7	15	69	20	56	41	0	1	56	1.10
139399--139442	2	22.0	2	100	0	88	50	0	0	50	1.00
140050--140091	22	1.9	22	90	0	66	42	2	2	52	1.27
144617--144656	2	20.0	2	100	0	80	50	0	0	50	1.00
145441--145466	5	5.2	5	100	0	52	57	0	42	0	0.98
145755--145782	4	7.0	4	100	0	56	0	50	0	50	1.00
155288--155316	6	4.8	6	100	0	58	0	34	34	31	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
160815--160868	16	3.8	15	74	16	53	48	0	1	50	1.11
162994--163482	236	2.0	240	91	5	801	38	17	15	29	1.90
164756--164794	21	1.9	21	89	5	62	43	0	2	53	1.14
164741--164795	28	1.9	29	82	10	69	43	0	3	52	1.18
166983--167032	15	3.3	15	82	2	64	54	0	0	46	1.00
169224--169252	2	14.5	2	100	0	58	48	0	0	51	1.00
175841--175879	3	13.0	3	100	0	78	66	0	0	33	0.92
177218--177273	31	1.9	30	82	13	73	51	10	0	37	1.37
177262--177291	14	2.1	14	93	0	51	46	6	0	46	1.29
177286--177324	15	2.6	16	88	12	64	53	0	5	41	1.23

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