genome.fa.s357.2.7.7.80.10.50.1000.1.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: Scaffold357
Parameters: 2 7 7 80 10 50 1000
Length:  802879

Tables:   1   2   3   4   5   6   

This is table  1  of  6  ( 658 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)
742--796	15	3.4	16	78	14	60	52	0	1	45	1.11
791--870	36	2.2	36	80	12	85	47	0	5	47	1.24
745--910	87	1.9	87	84	9	223	49	1	4	44	1.31
970--1008	16	2.5	17	88	12	57	53	0	0	46	1.00
1529--1586	17	3.1	19	74	16	59	56	1	0	41	1.09
1551--1608	24	2.4	25	77	8	66	55	6	0	37	1.27
2093--2134	20	2.1	20	91	8	68	45	0	0	54	0.99
2456--2769	155	2.0	156	97	0	594	48	11	7	33	1.66
3895--3936	12	3.3	13	80	16	52	30	0	0	69	0.89
4009--4052	21	2.1	21	91	8	72	11	22	2	63	1.38
8526--8551	9	2.9	9	100	0	52	46	7	0	46	1.31
8788--8831	23	1.9	23	86	9	63	25	2	2	70	1.10
9179--9243	34	1.9	34	81	12	80	47	0	1	50	1.10
9280--9321	14	2.9	15	80	19	54	61	4	0	33	1.17
18886--18952	7	9.7	7	82	10	68	0	16	1	82	0.75
18888--18926	4	10.5	4	84	15	57	0	20	0	79	0.73
18895--18947	11	4.9	11	77	11	56	0	18	1	79	0.83
23023--23061	18	2.1	19	85	4	53	41	0	0	58	0.98
24780--24804	2	12.5	2	100	0	50	48	0	0	52	1.00
26085--26154	35	1.9	36	83	11	90	42	0	1	55	1.08
30703--30765	32	2.0	32	90	0	99	42	7	4	44	1.54
30791--30847	23	2.5	22	78	18	64	50	3	3	42	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31828--31904	38	2.0	38	85	10	102	48	0	0	51	1.00
32906--32945	21	1.9	21	85	10	55	40	5	5	50	1.46
33411--33466	20	2.8	20	83	2	67	35	0	1	62	1.06
33434--33536	18	5.9	18	72	20	78	39	0	0	58	1.11
35547--35613	29	2.2	32	84	10	88	50	2	2	43	1.32
37588--37634	24	1.9	25	82	4	60	36	4	0	59	1.17
38210--38249	2	20.0	2	84	0	53	42	0	2	55	1.13
38210--38245	16	2.2	16	95	0	63	41	0	2	55	1.14
39640--39774	19	7.1	19	64	18	59	38	0	1	60	1.06
39684--39764	18	4.6	19	71	22	70	43	0	1	55	1.07
39688--39759	32	2.2	33	90	2	110	41	0	1	56	1.07
39644--39774	8	16.1	8	65	24	53	38	0	1	59	1.07
41889--41991	51	2.0	51	100	0	206	39	11	11	36	1.78
41971--42010	2	20.0	2	100	0	80	50	0	0	50	1.00
44983--45009	4	6.8	4	100	0	54	22	0	0	77	0.76
45732--45784	15	3.2	17	76	15	58	54	0	0	45	0.99
45798--45822	13	1.9	13	100	0	50	36	0	0	64	0.94
45797--45829	6	5.5	6	86	13	50	33	0	0	66	0.92
46527--46567	21	1.9	22	85	5	57	34	0	2	63	1.08
46864--46922	13	4.3	14	78	6	59	45	0	0	54	0.99
46870--46924	26	2.1	26	86	6	76	43	0	0	56	0.99
47648--47687	16	2.5	16	100	0	80	67	0	10	22	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47928--47974	11	4.4	11	76	15	53	25	0	0	74	0.82
48067--48137	32	2.3	31	81	18	85	59	1	0	39	1.06
52077--52131	25	2.2	24	83	3	65	41	3	1	52	1.29
52752--52804	20	2.6	21	84	3	72	35	0	0	64	0.94
52840--52882	19	2.2	20	84	12	63	30	0	2	67	1.03
54872--54912	2	21.0	2	95	5	75	48	0	0	51	1.00
58870--58972	21	5.4	19	73	17	81	33	0	0	66	0.92
58883--58982	11	9.1	11	70	15	64	34	1	0	65	1.00
58886--58992	7	15.1	7	73	19	80	35	1	0	62	1.06
58872--58952	36	2.3	35	86	12	114	34	0	0	65	0.93
58872--58952	35	2.3	36	86	12	116	34	0	0	65	0.93
58874--58972	13	7.8	13	69	19	66	32	0	0	67	0.91
58870--58992	63	2.0	63	81	15	148	34	1	0	64	1.04
64069--64161	16	5.9	17	68	30	55	39	0	0	60	0.97
64625--64659	16	2.3	15	90	9	61	51	0	0	48	1.00
64628--64658	16	1.9	16	100	0	62	45	0	0	54	0.99
69677--69734	30	1.9	31	85	3	82	53	0	0	46	1.00
70753--70830	28	2.8	29	77	16	92	47	0	0	52	1.00
71711--71761	21	2.3	22	83	10	59	56	1	0	41	1.10
72684--72717	16	2.1	16	89	10	52	50	11	2	35	1.54
72716--72842	30	4.3	30	78	6	125	47	2	5	44	1.39
74492--74521	8	3.6	8	95	4	51	0	0	13	86	0.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
76769--76817	2	24.5	2	100	0	98	0	48	0	51	1.00
82358--82388	2	15.5	2	100	0	62	48	0	0	51	1.00
83602--83645	22	2.0	22	86	8	63	54	2	0	43	1.12
84429--84500	27	2.7	26	69	14	65	37	6	2	52	1.43
85250--85280	2	15.5	2	100	0	62	48	0	0	51	1.00
85793--85872	30	2.7	30	76	19	87	60	3	0	36	1.15
85931--85993	24	2.6	25	78	14	60	46	1	1	50	1.20
85993--86018	13	2.0	13	100	0	52	30	0	0	69	0.89
85989--86032	18	2.5	18	86	13	65	29	0	0	70	0.88
87741--87790	21	2.3	21	83	10	57	38	0	0	62	0.96
87749--87799	22	2.3	23	90	10	79	31	1	0	66	1.03
87749--87795	21	2.2	22	85	11	62	29	2	0	68	1.02
87760--87808	24	2.2	21	82	10	53	36	2	2	59	1.21
90128--90154	3	9.0	3	100	0	54	0	33	33	33	1.58
90459--90506	15	3.1	15	88	11	62	39	2	0	58	1.10
90907--90960	16	3.0	20	70	25	57	16	3	11	68	1.33
92774--92813	21	1.9	21	84	0	53	35	7	10	47	1.65
93392--93443	4	13.2	4	88	8	63	80	0	19	0	0.71
93394--93447	20	2.8	20	86	5	76	83	0	16	0	0.65
93392--93443	24	2.2	23	93	3	86	80	0	19	0	0.71
93952--93991	21	1.9	21	90	10	64	22	0	5	72	1.04
94296--94344	12	3.9	12	86	7	62	32	6	0	61	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
94579--94646	15	4.3	16	75	18	63	33	1	1	63	1.13
95243--95267	4	6.2	4	100	0	50	76	0	24	0	0.80
96289--96332	7	6.3	7	82	10	54	47	0	0	52	1.00
96833--96884	17	2.8	20	69	30	53	55	0	0	44	0.99
96843--96911	19	3.6	19	68	22	54	59	0	0	40	0.97
96828--96925	40	2.4	41	79	6	110	57	0	0	42	0.99
96831--96912	20	4.2	20	75	12	71	57	0	0	42	0.98
96912--96952	19	2.0	19	86	13	55	53	7	0	39	1.29
101579--101669	33	2.8	33	74	0	83	21	26	26	25	2.00
101775--101854	33	2.4	33	78	0	97	27	28	21	22	1.99
101775--101863	33	2.7	33	70	19	78	26	26	24	21	1.99
102039--102185	66	2.2	63	79	13	154	31	28	17	23	1.96
102079--102227	33	4.5	33	74	9	117	32	29	17	20	1.96
102079--102227	66	2.3	66	80	6	151	32	29	17	20	1.96
102169--102329	33	4.9	33	80	6	139	31	32	14	22	1.93
102200--102330	66	2.0	66	83	3	165	31	32	12	22	1.92
102535--102603	33	2.1	33	86	0	93	28	34	14	21	1.93
102771--102843	33	2.2	33	85	4	94	27	31	13	27	1.94
102393--102873	243	2.0	240	84	3	617	28	29	18	23	1.98
111527--111569	3	14.3	3	95	0	77	67	2	0	30	1.03
114957--115006	24	2.0	24	84	7	64	28	2	12	58	1.45
115798--115852	24	2.2	24	80	6	65	43	0	1	54	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
117714--117755	15	2.7	16	88	3	59	33	4	4	57	1.41
117886--117955	24	2.9	24	85	8	88	41	5	2	50	1.41
119668--119718	21	2.4	21	78	15	59	33	3	5	56	1.42
122079--122103	10	2.5	10	100	0	50	12	0	0	88	0.53
126584--126630	23	2.0	23	95	0	85	46	17	6	29	1.72
132006--132053	16	3.0	16	80	17	55	45	0	4	50	1.21
132638--132679	22	2.1	19	86	13	57	69	0	0	30	0.89
133102--133145	23	2.0	23	86	4	63	59	2	4	34	1.30
133574--133601	3	9.3	3	100	0	56	32	0	0	67	0.91
134308--134337	15	1.9	16	93	6	53	56	0	0	43	0.99

Tables:   1   2   3   4   5   6