genome.fa.s417.2.7.7.80.10.50.1000.1.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: Scaffold417
Parameters: 2 7 7 80 10 50 1000
Length:  511691

Tables:   1   2   3   4   5   6   

This is table  1  of  6  ( 614 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)
2881--2936	22	2.5	23	97	2	105	62	8	10	17	1.52
3850--3924	20	3.8	20	78	3	71	40	13	13	33	1.83
3847--3924	40	2.0	39	84	2	102	39	14	12	33	1.84
4400--5916	28	53.4	28	88	6	2110	20	17	33	28	1.96
4400--5916	113	13.3	112	88	6	2110	20	17	33	28	1.96
7147--7207	1	61.0	1	76	0	59	0	1	9	88	0.58
7134--7208	20	3.5	21	76	9	71	1	2	10	85	0.76
7137--7206	23	2.9	25	85	12	76	1	2	10	85	0.76
7154--7206	12	4.6	11	90	9	88	0	0	11	88	0.51
7149--7208	12	5.0	12	85	6	86	0	1	11	86	0.64
20273--20328	22	2.5	23	97	2	105	62	8	10	17	1.52
21239--21313	20	3.8	20	78	3	71	40	13	13	33	1.83
21236--21313	40	2.0	39	84	2	102	39	14	12	33	1.84
21572--21606	17	2.1	17	94	0	61	60	0	0	40	0.97
21782--21868	2	44.0	2	90	2	140	47	0	3	49	1.18
22164--22223	15	3.9	15	71	8	50	56	3	0	40	1.16
22713--22839	63	2.0	64	89	1	193	45	11	8	34	1.70
27383--27433	25	2.1	24	89	7	77	52	1	39	5	1.37
27803--27845	14	2.9	14	89	6	59	67	0	25	6	1.15
31134--31182	16	2.9	17	82	14	66	32	0	0	67	0.91
31575--31603	14	2.0	15	93	6	51	37	6	0	55	1.27
32599--32659	32	1.9	32	89	0	95	13	22	26	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33568--33608	21	2.0	20	86	13	57	41	0	0	58	0.98
33576--33626	27	2.0	25	85	14	68	45	0	0	54	0.99
37029--38169	201	5.7	201	86	2	1392	41	18	11	28	1.85
37029--38169	400	2.9	397	85	3	1429	41	18	11	28	1.85
38014--38321	153	2.0	152	89	1	465	40	19	12	26	1.88
39735--39796	22	2.7	23	78	14	74	58	0	0	41	0.98
39737--39785	23	2.1	23	88	7	73	63	0	0	36	0.95
39788--39867	15	5.5	14	76	10	54	42	3	0	53	1.18
39785--39869	44	1.9	43	83	9	109	42	3	0	54	1.17
39990--40032	17	2.5	17	81	7	52	48	2	6	41	1.43
40027--40066	16	2.3	19	79	16	50	45	2	0	52	1.14
40135--40176	21	2.0	22	85	4	59	47	2	0	50	1.14
40243--40289	15	3.1	15	79	14	51	53	2	0	44	1.12
40243--40303	32	2.0	30	83	6	77	50	3	0	45	1.17
40271--40390	21	5.2	23	69	22	83	47	3	0	48	1.24
40272--40393	45	2.7	46	77	13	135	47	3	0	48	1.24
40338--40394	26	2.2	26	84	9	73	49	1	0	49	1.11
40389--40436	15	3.2	15	82	5	53	47	2	4	45	1.33
40423--40479	25	2.4	25	85	5	73	45	0	1	52	1.11
40415--40479	25	2.7	23	77	13	69	47	0	1	50	1.10
40849--40889	19	2.2	18	91	4	64	29	0	4	65	1.13
41212--41244	17	2.0	17	88	5	50	63	0	3	33	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41400--41445	6	8.0	6	85	11	53	50	0	0	50	1.00
41399--41445	11	4.2	11	78	10	51	51	0	0	48	1.00
41399--41443	16	2.7	16	86	6	54	51	0	0	48	1.00
42097--42167	16	4.4	16	70	18	58	54	7	2	35	1.42
43033--43057	12	2.1	12	100	0	50	28	0	24	48	1.52
43156--43189	14	2.3	15	90	5	52	23	0	2	73	0.97
43165--43205	11	3.8	11	81	12	50	29	0	0	70	0.87
43784--43838	24	2.5	21	72	25	51	45	1	0	52	1.11
44098--44145	2	24.0	2	100	0	96	50	0	0	50	1.00
44595--44639	20	2.2	21	84	11	58	31	0	0	68	0.89
44615--44646	12	2.8	12	95	4	57	34	0	0	65	0.93
46577--46611	12	2.8	13	91	8	63	31	0	0	68	0.90
50070--50094	2	12.5	2	100	0	50	0	48	0	52	1.00
50094--50120	2	13.5	2	100	0	54	48	0	0	51	1.00
51220--51249	2	15.0	2	100	0	60	50	0	0	50	1.00
51395--51440	22	2.1	22	84	8	58	39	0	2	58	1.10
52173--52209	2	18.5	2	100	0	74	51	0	0	48	1.00
52418--52450	3	11.0	3	100	0	66	66	0	0	33	0.92
53244--53305	31	2.0	31	90	3	99	37	3	12	46	1.58
53294--53319	11	2.4	11	100	0	52	46	0	0	53	1.00
54623--54664	22	1.9	22	85	9	59	50	4	0	45	1.23
56416--56490	36	2.1	36	79	18	86	50	1	2	45	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56502--56548	19	2.4	20	85	3	69	44	0	0	55	0.99
58196--58240	2	22.5	2	100	0	90	48	0	0	51	1.00
58978--59038	29	2.2	27	82	11	70	26	3	0	70	1.02
59000--59046	20	2.4	20	79	10	53	29	2	0	68	1.02
58980--59027	25	1.9	25	87	8	71	27	4	0	68	1.07
59241--59315	34	2.2	35	86	9	102	49	0	0	50	1.00
59517--59552	15	2.5	14	86	4	54	44	0	2	52	1.15
59974--60072	34	2.9	32	78	20	103	43	0	3	53	1.16
62208--62258	15	3.4	15	79	17	61	43	0	0	56	0.99
62212--62254	23	1.9	22	86	13	61	46	0	0	53	1.00
62589--62613	3	8.3	3	100	0	50	32	0	0	68	0.90
63002--63104	38	2.6	37	76	13	93	36	0	7	54	1.36
63953--63979	14	1.9	14	100	0	54	44	0	11	44	1.39
65109--65150	2	21.5	2	85	4	59	50	0	2	47	1.14
67407--67438	2	16.0	2	93	0	55	50	3	0	46	1.17
68638--68738	51	2.0	51	90	1	159	47	15	12	23	1.80
69032--69072	21	2.0	21	90	0	64	63	0	0	36	0.95
72088--72154	35	1.9	35	82	11	84	61	5	4	28	1.39
72597--72658	25	2.5	25	81	5	72	50	0	0	50	1.00
73786--73868	18	4.7	17	72	19	62	42	3	1	53	1.26
74629--74663	19	1.9	17	88	11	52	28	0	2	68	1.04
75503--75533	3	10.3	3	92	0	53	0	38	32	29	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
76027--76069	22	2.0	22	85	0	59	55	0	0	44	0.99
77446--77479	16	2.1	16	89	10	52	29	0	0	70	0.87
79819--79879	20	3.2	20	73	15	56	62	0	0	37	0.96
79921--79955	2	17.5	2	93	0	61	48	0	2	48	1.16
81581--81662	33	2.4	33	73	18	78	46	2	0	51	1.14
81937--82005	16	4.1	16	75	14	59	57	4	0	37	1.18
83801--83830	4	7.5	4	92	0	51	23	3	0	73	0.98
83742--84004	91	2.9	91	94	1	438	40	10	6	42	1.66
83892--83921	4	7.5	4	92	0	51	23	3	0	73	0.98
85272--85302	16	2.0	16	93	6	55	58	0	6	35	1.24
85380--85419	15	2.7	15	88	0	53	55	2	0	42	1.13
85833--85926	5	17.8	5	76	13	82	40	1	1	57	1.13
85846--85926	11	7.6	11	76	15	73	40	1	1	56	1.15
85829--85899	38	1.9	35	86	8	97	45	1	0	53	1.09
85885--85944	25	2.4	25	83	8	68	38	1	1	58	1.18
87206--87262	28	2.0	28	83	6	71	70	7	3	19	1.26
87937--87988	16	2.9	17	83	11	52	61	0	0	38	0.96
87964--88015	16	3.4	16	73	21	58	59	0	0	40	0.97
90733--90779	19	2.5	19	86	6	60	68	0	0	31	0.90
91291--91317	6	4.5	6	100	0	54	85	0	0	14	0.61
91993--92025	12	2.8	12	90	4	50	42	0	0	57	0.98
92399--92441	18	2.3	20	80	15	56	23	4	6	65	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
92948--92988	3	13.7	3	100	0	82	68	0	0	31	0.90
93793--93865	5	14.4	5	71	13	51	43	0	1	54	1.08
93828--93875	20	2.4	18	78	18	51	41	0	0	58	0.98
93794--93908	51	2.3	47	76	22	110	42	0	1	55	1.10
93899--93946	14	3.4	14	77	11	53	56	0	0	43	0.99
93899--93953	28	2.0	28	85	0	74	56	0	0	43	0.99
93941--93991	23	2.3	22	82	3	57	49	1	0	49	1.12
94478--94513	2	19.0	2	88	11	58	50	0	0	50	1.00
94905--94949	19	2.4	18	85	7	54	33	2	0	64	1.06
95029--95071	22	2.0	21	90	4	68	39	2	0	58	1.11

Tables:   1   2   3   4   5   6