genome.fa.s26.2.7.7.80.10.50.1000.1.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: Scaffold26
Parameters: 2 7 7 80 10 50 1000
Length:  1656043

Tables:   1   2   3   4   5   6   7   8   

This is table  1  of  8  ( 947 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)
3409--3467	24	2.5	24	75	5	57	6	20	0	72	1.06
4863--4891	13	2.1	14	93	6	51	44	0	0	55	0.99
5023--5055	16	1.9	17	88	11	50	60	15	0	24	1.35
5331--5383	10	5.4	10	88	4	72	62	11	20	5	1.49
6314--6387	29	2.5	29	86	2	94	39	6	2	51	1.43
6456--6494	20	2.0	20	90	5	62	58	0	7	33	1.26
7458--7509	23	2.3	23	90	3	79	40	0	0	59	0.97
14528--14570	11	4.1	10	80	19	52	58	2	0	39	1.11
14529--14570	20	2.0	20	86	13	57	57	2	0	40	1.12
15575--15624	16	3.1	16	82	5	57	2	14	40	44	1.56
15584--15636	16	3.3	16	86	0	70	3	15	39	41	1.65
16063--16092	6	4.8	6	95	4	51	0	63	3	33	1.11
19815--19866	22	2.3	23	78	15	63	53	0	3	42	1.19
19948--20058	35	3.1	35	74	20	104	47	2	0	48	1.22
19939--20076	38	3.6	38	72	21	110	49	2	0	47	1.21
20364--20407	20	2.2	20	83	4	52	61	9	4	25	1.45
20442--20467	2	13.0	2	100	0	52	50	0	0	50	1.00
20532--20575	17	2.7	16	89	3	61	18	6	0	75	1.02
20532--20575	4	10.8	4	85	4	61	18	6	0	75	1.02
20788--20828	19	2.1	20	86	4	57	29	17	36	17	1.92
23332--23374	20	2.1	21	82	4	52	51	2	0	46	1.13
27563--27599	7	5.3	7	100	0	74	16	0	13	70	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34181--34212	2	16.0	2	100	0	64	50	0	0	50	1.00
35597--35632	19	1.9	18	94	5	63	47	0	0	52	1.00
36096--36136	18	2.2	19	86	4	57	41	0	14	43	1.45
36438--36468	2	15.5	2	100	0	62	51	0	0	48	1.00
36653--36689	18	2.1	18	94	0	65	64	0	2	32	1.07
37426--37455	14	2.1	14	93	0	51	76	0	3	20	0.92
38848--38900	26	2.0	26	100	0	106	47	7	3	41	1.50
38850--38914	26	2.7	25	88	9	82	47	7	1	43	1.41
39806--39886	34	2.4	34	87	2	119	24	6	28	40	1.79
40191--40253	19	3.3	19	90	0	90	28	17	19	34	1.94
44319--44401	34	2.5	34	88	2	123	25	6	27	40	1.79
44720--44775	25	2.2	25	81	9	60	44	5	3	46	1.43
44738--44795	25	2.4	25	88	2	82	46	5	6	41	1.53
45822--45884	31	2.0	32	87	6	94	34	4	0	60	1.18
45813--45884	31	2.4	30	86	6	92	37	4	0	58	1.18
45850--45892	19	2.2	20	84	12	54	34	4	0	60	1.17
49186--49210	12	2.1	12	100	0	50	32	16	8	44	1.76
49246--49271	13	2.0	13	100	0	52	38	15	15	30	1.88
49258--49295	20	1.9	20	100	0	76	31	15	13	39	1.86
50025--50854	49	16.9	49	75	10	619	31	18	25	24	1.97
50025--50854	101	8.4	100	78	9	569	31	18	25	24	1.97
50441--50704	88	2.9	89	86	2	350	31	20	25	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50441--50785	180	1.9	175	81	7	413	30	20	25	23	1.98
50135--50852	229	3.0	233	82	7	721	31	19	25	23	1.98
50665--50854	95	2.0	92	89	5	292	31	20	25	23	1.98
50927--51108	35	5.9	27	70	23	103	32	13	31	21	1.92
50947--51601	35	19.8	33	82	8	594	34	13	32	19	1.91
51453--51536	29	3.0	28	81	6	107	27	14	34	23	1.94
51453--51670	30	7.3	29	77	11	147	33	14	30	22	1.94
51509--51607	31	2.9	34	85	10	132	35	14	30	20	1.92
52899--52933	15	2.3	15	86	13	54	0	0	11	88	0.51
52899--52937	10	4.0	10	83	3	53	0	0	12	87	0.55
59455--59526	36	2.0	36	100	0	144	36	19	19	25	1.95
59953--59990	20	1.9	20	94	0	67	34	15	10	39	1.82
60822--60875	20	2.7	20	91	2	81	35	11	9	44	1.72
62559--62610	27	1.9	27	100	0	104	40	11	5	42	1.65
64881--64943	9	7.0	9	71	20	51	36	0	1	61	1.05
64928--65003	32	2.3	33	80	17	88	44	0	2	52	1.14
75770--75795	2	13.0	2	100	0	52	50	0	0	50	1.00
84498--84540	23	1.9	22	85	4	59	44	2	2	51	1.27
84520--84565	16	2.8	17	87	9	60	43	0	0	56	0.99
84769--84807	20	2.0	20	89	0	60	46	0	2	51	1.14
84844--84887	18	2.4	19	77	11	56	63	0	0	36	0.95
85497--85541	18	2.6	17	82	6	56	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
85494--85532	20	2.0	20	85	10	53	46	0	0	53	1.00
88447--88496	22	2.4	19	84	15	64	46	0	0	54	1.00
89122--89146	12	2.1	12	100	0	50	24	0	8	68	1.16
89446--89519	2	39.0	2	78	10	75	47	4	1	47	1.29
89828--89865	3	13.0	3	83	5	51	31	0	2	65	1.06
90174--90382	50	4.2	50	91	0	328	30	18	20	31	1.96
94775--94983	50	4.2	50	94	0	355	30	19	20	30	1.97
96028--96065	2	19.0	2	88	0	58	50	5	0	44	1.24
99861--99899	19	2.0	19	85	5	51	66	0	0	33	0.92
99854--99913	19	3.0	19	76	11	50	66	0	0	33	0.92
100791--100824	6	5.5	6	89	3	50	58	0	0	41	0.98
100798--100923	32	3.7	34	76	19	111	55	1	1	41	1.19
100791--100848	19	3.1	18	76	16	55	56	1	1	39	1.19
101861--101916	15	3.6	15	80	4	58	23	0	5	71	1.06
102687--102729	22	1.9	23	90	4	70	53	0	2	44	1.13
102769--102806	14	2.7	15	84	12	53	55	0	0	44	0.99
107458--107496	3	13.0	3	100	0	78	66	0	0	33	0.92
112635--112660	2	13.0	2	100	0	52	0	50	0	50	1.00
116020--116459	162	2.7	158	85	7	607	41	9	9	39	1.71
117595--118158	166	3.4	166	84	6	644	50	8	10	30	1.67
119987--120035	16	3.2	15	75	13	55	44	0	0	55	0.99
119965--120030	30	2.2	30	89	5	98	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
119978--120056	13	5.6	13	72	24	54	43	0	0	56	0.99
120118--120206	14	5.5	17	70	19	66	55	0	0	44	0.99
120118--120215	17	6.1	17	70	19	68	54	0	0	45	1.00
120156--120210	18	2.8	19	77	20	67	50	0	0	49	1.00
120797--120832	14	2.6	14	90	0	54	47	0	0	52	1.00
120763--120902	51	2.8	49	79	19	139	53	0	0	46	1.00
120869--120905	17	2.1	19	85	10	51	56	0	0	43	0.99
121055--121101	22	2.1	22	84	0	58	44	0	0	55	0.99
121729--121766	15	2.6	14	88	8	58	36	0	0	63	0.95
122620--122648	11	2.5	12	94	5	51	58	0	0	41	0.98
122800--122851	20	2.7	19	77	16	61	48	1	3	46	1.31
123446--123479	18	1.9	17	88	5	50	67	2	0	29	1.05
123996--124042	24	2.0	22	88	8	67	68	0	0	31	0.90
124575--124616	2	21.5	2	90	4	50	40	0	7	52	1.29
131868--131927	26	2.3	27	82	8	70	46	0	0	53	1.00
132944--132977	13	2.5	14	90	9	61	8	29	20	41	1.82
133667--133701	17	2.1	17	88	0	52	65	0	2	31	1.07
134938--135011	8	9.8	8	71	21	52	52	0	1	45	1.09
135275--135315	21	2.0	20	85	4	55	46	26	12	14	1.80
135283--135326	20	2.1	21	88	12	65	40	27	13	18	1.88
137811--137869	27	2.2	25	80	11	64	61	8	6	23	1.49
139344--139394	16	3.2	16	78	10	61	56	0	1	41	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
140515--140649	16	8.4	16	72	9	89	41	26	15	16	1.88
140538--140687	48	3.1	47	80	5	158	39	26	16	18	1.91
142862--142956	38	2.4	40	80	7	113	26	18	17	36	1.94
144020--144101	43	1.9	43	94	0	146	26	18	10	43	1.83
147329--147364	7	5.1	7	86	0	54	33	0	0	66	0.92
148988--149040	16	3.3	16	91	0	79	49	7	0	43	1.31
148988--149040	4	13.2	4	91	0	70	49	7	0	43	1.31
154618--154651	6	5.7	6	92	0	59	44	0	17	38	1.49
155825--155918	35	2.6	34	90	6	134	22	4	36	37	1.74
155835--155918	12	7.0	12	67	20	50	21	3	36	38	1.71

Tables:   1   2   3   4   5   6   7   8