genome.fa.s400.2.7.7.80.10.50.1000.1.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: Scaffold400
Parameters: 2 7 7 80 10 50 1000
Length:  2847997

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

This is table  1  of  17  ( 1977 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)
4097--4144	2	24.0	2	100	0	96	50	0	0	50	1.00
6398--6438	22	1.9	22	85	5	57	46	0	0	53	1.00
8025--8062	19	2.0	19	94	0	67	26	10	7	55	1.61
8593--8642	26	1.9	26	84	8	66	30	2	12	56	1.47
8942--9001	16	3.8	16	82	4	50	48	13	8	30	1.71
8958--9010	16	3.3	17	82	10	67	49	13	7	30	1.69
10388--10431	2	22.0	2	100	0	88	50	0	0	50	1.00
11076--11117	2	21.0	2	100	0	84	50	0	0	50	1.00
14150--14202	19	2.8	19	83	8	65	56	0	0	43	0.99
14721--14782	6	10.3	6	94	0	88	43	0	6	50	1.28
14721--14782	14	4.4	14	91	0	88	43	0	6	50	1.28
14721--14782	20	3.1	20	95	0	106	43	0	6	50	1.28
14722--14789	6	11.0	6	87	6	64	39	1	8	50	1.43
16085--16137	21	2.5	21	81	0	61	18	1	62	16	1.42
16097--16131	18	1.9	18	88	0	52	17	2	65	14	1.38
16219--16269	12	4.2	12	76	0	57	11	1	62	23	1.39
16226--16276	24	2.1	24	96	0	93	15	3	62	17	1.47
16289--16335	12	3.9	12	81	8	60	17	10	44	27	1.81
16349--16395	15	3.1	15	81	0	58	10	2	68	19	1.30
16316--16563	126	2.0	126	90	0	388	17	10	52	18	1.73
16471--16522	12	4.3	12	82	0	68	13	7	65	13	1.46
16589--16629	12	3.4	12	82	0	55	12	0	60	26	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
24674--24699	13	2.0	13	100	0	52	46	23	15	15	1.83
25826--25925	25	3.7	27	71	22	86	55	0	0	45	0.99
25852--25914	16	4.2	16	72	25	57	57	0	0	42	0.99
26720--26767	21	2.3	21	75	13	55	60	0	0	39	0.97
26718--26774	30	1.9	30	82	13	73	59	1	0	38	1.08
27156--27233	30	2.6	29	80	15	86	47	0	1	51	1.09
29655--29687	2	16.5	2	100	0	66	51	0	0	48	1.00
31630--31704	29	2.6	29	91	0	123	52	0	0	48	1.00
31819--31864	24	2.0	24	83	12	60	54	0	2	43	1.12
33053--33124	20	3.6	20	76	0	72	33	13	11	41	1.80
33049--33127	40	2.0	39	87	2	113	34	12	12	40	1.81
36975--37025	18	2.8	18	81	0	57	49	5	5	39	1.51
36976--37034	18	3.3	17	75	11	55	45	6	6	40	1.57
38489--38524	17	2.1	17	89	0	54	38	2	2	55	1.29
43850--43959	58	1.9	58	84	3	150	36	9	5	49	1.58
44200--44236	8	4.8	8	87	12	51	13	5	2	78	1.03
44818--44842	13	1.9	13	100	0	50	44	8	8	40	1.63
45061--45100	21	1.9	21	90	10	64	40	0	0	60	0.97
45067--45132	28	2.3	28	75	17	64	42	0	1	56	1.08
45689--45737	17	2.9	17	80	17	57	65	0	2	32	1.04
46150--46180	3	10.3	3	100	0	62	35	32	0	32	1.58
46179--46205	3	9.0	3	100	0	54	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46820--46884	25	2.7	24	76	9	60	47	0	3	49	1.17
47592--47636	22	2.1	22	91	4	74	55	0	0	44	0.99
47568--47618	25	2.1	23	82	13	59	49	0	0	50	1.00
47558--47643	27	3.1	27	76	17	81	51	0	0	48	1.00
47875--47914	2	20.0	2	94	0	71	52	0	0	47	1.00
49097--49142	18	2.5	19	92	3	76	23	8	0	67	1.18
49097--49142	19	2.5	18	89	3	65	23	8	0	67	1.18
49265--49405	69	2.0	69	94	0	246	31	8	15	44	1.76
49804--49831	2	14.0	2	100	0	56	50	0	0	50	1.00
50186--50227	16	2.9	14	83	13	57	71	0	0	28	0.86
52369--52437	27	2.7	26	76	19	72	47	0	0	52	1.00
52394--52439	25	1.9	23	82	8	56	47	0	0	52	1.00
52384--52468	41	2.0	41	82	6	100	48	1	0	50	1.08
52450--52493	16	2.7	17	80	20	58	36	0	0	63	0.95
52450--52501	15	3.2	16	84	13	63	38	0	0	61	0.96
53111--53190	31	2.5	33	85	4	110	32	1	8	57	1.37
53237--53286	22	2.3	21	76	10	57	36	0	12	52	1.39
55554--55628	16	4.6	16	69	28	52	38	0	61	0	0.96
55551--55630	25	3.0	26	77	18	76	37	0	62	0	0.95
55695--55741	24	1.9	25	83	12	62	44	6	48	0	1.28
59467--59509	2	21.5	2	100	0	86	51	0	0	48	1.00
60166--60310	11	14.1	11	66	21	64	34	1	0	63	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60164--60308	21	7.0	22	70	18	107	35	1	0	62	1.09
61075--61113	20	2.0	21	90	10	64	56	0	0	43	0.99
61795--61853	30	2.0	30	86	6	84	54	1	3	40	1.27
63671--63695	13	1.9	13	100	0	50	24	4	0	72	1.02
63690--63746	22	2.6	22	78	13	64	45	0	0	54	0.99
63783--63889	25	3.9	26	73	19	76	39	0	0	60	0.97
63794--63853	10	6.3	9	73	16	50	36	0	0	63	0.95
63796--63889	29	3.3	27	73	17	84	40	0	0	59	0.97
63803--63887	43	2.0	44	84	11	113	40	0	0	60	0.97
63986--64055	27	2.6	27	84	8	81	58	0	1	40	1.07
64183--64209	6	4.5	6	100	0	54	85	0	0	14	0.61
68079--68132	24	2.2	24	96	0	99	40	11	9	38	1.73
68086--68164	14	5.5	14	72	3	59	40	7	8	43	1.64
68081--68160	24	3.5	22	80	16	92	40	8	8	42	1.67
72264--72323	19	3.3	19	68	13	63	35	3	6	55	1.43
72252--72334	35	2.4	35	100	0	166	39	2	4	53	1.35
72704--72743	19	2.0	20	90	4	64	37	2	7	52	1.43
74987--75078	24	3.8	24	77	14	82	58	0	0	41	0.98
75408--75514	2	56.5	2	77	14	93	44	0	0	53	1.13
76712--76751	20	2.0	20	90	9	64	62	0	0	37	0.95
77613--77839	78	2.9	78	91	0	373	39	9	14	36	1.78
78704--78750	3	15.7	3	95	0	85	31	0	2	65	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
80859--80901	21	2.0	21	82	8	52	39	13	9	37	1.78
80996--81051	16	3.2	16	85	10	67	60	0	1	37	1.07
81216--81260	10	4.3	10	78	10	54	8	37	0	53	1.32
82588--82613	2	13.0	2	100	0	52	50	0	0	50	1.00
84064--84098	17	2.0	17	88	5	52	54	0	0	45	0.99
84434--84498	14	4.2	15	74	18	53	53	0	0	46	1.00
84453--84506	15	3.4	15	74	20	56	55	0	0	44	0.99
84447--84511	32	2.0	33	88	8	98	53	0	0	46	1.00
84456--84521	16	4.1	17	77	22	63	56	0	0	43	0.99
84435--84510	40	1.9	40	81	10	93	55	0	0	44	0.99
86727--86751	2	12.5	2	100	0	50	52	0	0	48	1.00
88158--88212	17	3.4	17	75	25	55	56	3	0	40	1.17
88166--88226	27	2.2	28	77	13	65	54	1	0	44	1.10
88848--88886	21	1.9	21	89	5	62	64	0	35	0	0.94
89594--89643	17	2.9	17	84	3	55	32	0	0	68	0.90
90162--90245	32	2.6	32	79	9	82	42	9	11	35	1.74
91413--91446	10	3.3	10	84	8	50	50	0	0	50	1.00
91413--91445	11	3.1	11	86	4	50	51	0	0	48	1.00
91887--91960	19	3.6	20	73	25	57	39	0	0	60	0.97
92167--92280	24	4.7	23	70	18	70	57	2	2	36	1.26
92217--92272	16	3.8	15	77	17	55	64	3	3	28	1.27
92167--92280	28	3.8	29	71	14	79	57	2	2	36	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
92265--92336	32	2.2	32	85	5	90	52	0	0	47	1.00
92265--92336	17	4.4	17	67	19	53	52	0	0	47	1.00
96390--96441	16	3.3	16	75	2	52	48	1	0	50	1.12
99076--99116	17	2.6	16	84	7	57	82	0	17	0	0.66
100361--100428	24	2.8	24	73	8	75	39	1	0	58	1.07
100366--100406	18	2.2	19	87	12	59	31	0	0	68	0.90
100378--100434	17	3.3	17	80	2	51	40	0	0	59	0.97
100406--100441	17	2.1	17	94	0	63	47	0	2	50	1.15
102795--102860	30	2.2	30	83	8	89	34	10	16	37	1.83
104088--104165	38	2.1	38	95	0	138	37	16	20	25	1.93

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