genome.fa.s1399.2.7.7.80.10.50.1000.1.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: Scaffold1399
Parameters: 2 7 7 80 10 50 1000
Length:  214408

Tables:   1   2   

This is table  1  of  2  ( 198 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)
379--453	20	3.8	20	80	3	80	40	12	13	34	1.81
376--453	40	2.0	39	87	2	111	39	12	12	34	1.82
652--768	42	2.8	42	88	2	173	42	1	44	11	1.50
712--761	18	2.8	18	81	6	57	44	2	46	8	1.44
5977--6021	16	2.8	16	89	0	63	55	13	2	28	1.50
6650--6768	11	10.5	11	66	20	50	35	0	1	62	1.11
6679--6730	18	2.8	18	71	23	54	38	0	3	57	1.17
8269--8300	16	2.0	16	100	0	64	50	18	0	31	1.48
10146--10185	20	2.0	20	85	5	53	70	15	5	10	1.32
10551--10579	2	14.5	2	100	0	58	51	0	48	0	1.00
19693--19809	53	2.2	53	84	3	146	37	0	3	58	1.21
21750--21794	21	2.1	21	83	0	54	40	2	2	55	1.24
22227--22322	46	2.1	45	80	1	102	46	8	6	38	1.59
22336--22471	46	3.0	46	84	0	164	47	8	5	38	1.58
23396--23474	29	2.7	29	75	13	81	49	10	6	34	1.62
23470--23553	29	2.9	29	72	18	75	53	13	7	26	1.64
23470--23640	58	3.0	58	84	5	204	52	11	8	28	1.66
23549--23639	29	3.2	29	68	20	82	52	9	8	28	1.64
23616--23649	9	3.6	9	85	14	50	55	8	5	29	1.54
24310--24342	12	2.7	13	86	13	52	75	0	0	24	0.80
24524--24556	12	2.5	13	90	9	50	3	15	0	81	0.80
26565--26609	20	2.3	19	88	3	63	35	0	2	62	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
27982--28049	16	4.2	16	84	1	82	54	8	1	35	1.41
27997--28097	16	6.3	16	72	4	78	53	7	3	34	1.49
27997--28101	32	3.3	32	77	7	115	52	7	3	36	1.48
28044--28143	48	2.1	46	81	3	110	50	11	6	33	1.62
28280--28318	16	2.4	16	91	0	60	58	2	0	38	1.12
30267--30291	1	25.0	1	100	0	50	0	0	100	0	0.00
34326--34625	152	2.0	149	93	4	518	44	9	9	37	1.68
35229--35275	20	2.3	20	85	10	60	48	2	0	48	1.13
35261--35297	17	2.2	18	86	13	53	27	2	0	70	1.01
38662--38692	2	15.5	2	93	0	53	51	3	0	45	1.17
38707--38754	13	3.6	14	80	8	55	43	0	0	56	0.99
39288--39329	22	1.9	22	85	9	59	45	0	0	54	0.99
39291--39336	21	2.2	20	81	11	58	50	0	0	50	1.00
39934--39977	18	2.4	18	77	7	54	52	0	0	47	1.00
39936--39979	19	2.4	18	77	7	54	52	0	0	47	1.00
40168--40231	33	2.0	32	81	3	74	51	1	0	46	1.10
41883--41920	2	20.0	2	84	10	53	55	0	0	44	0.99
41883--41929	18	2.9	16	84	12	53	59	0	0	40	0.97
41913--41994	30	2.8	31	72	9	82	56	0	0	43	0.99
41938--42018	35	2.4	35	83	6	96	56	1	0	41	1.07
41943--42010	21	3.3	21	72	19	54	57	1	0	41	1.08
41894--41988	43	2.3	40	77	13	97	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42258--42288	16	1.9	16	93	0	53	16	0	0	83	0.64
42514--42599	14	6.4	14	67	18	58	40	2	0	56	1.12
42514--42599	24	3.8	24	70	23	78	40	2	0	56	1.12
43752--43806	27	2.1	27	83	9	71	41	0	0	58	0.98
44128--44154	14	1.9	14	100	0	54	40	0	0	59	0.98
44878--44930	20	2.5	20	74	20	54	56	3	1	37	1.28
44942--44982	14	2.6	16	77	18	50	51	4	0	43	1.23
44956--44998	15	2.8	16	78	7	52	53	6	0	39	1.28
46047--46120	32	2.3	32	76	4	78	43	1	1	54	1.17
46971--47346	209	1.8	207	83	3	495	40	16	6	37	1.74
47719--47774	22	2.6	22	77	8	62	50	0	0	50	1.00
48478--48525	13	3.6	14	80	8	55	43	0	0	56	0.99
48459--48504	18	2.5	19	74	19	53	36	2	2	58	1.22
49054--49098	21	2.0	23	87	8	67	44	0	2	53	1.13
49446--49512	16	4.2	16	76	5	64	40	17	14	26	1.89
49446--49512	32	2.1	32	82	0	80	40	17	14	26	1.89
50565--50595	16	1.9	16	93	0	53	45	25	12	16	1.83
50498--50607	53	2.1	53	82	3	132	40	25	12	21	1.89
51064--51103	16	2.5	16	79	0	53	45	0	5	50	1.23
52423--52464	22	1.9	22	85	9	59	33	0	11	54	1.37
53182--53262	32	2.6	31	80	7	85	59	0	0	40	0.98
53211--53271	32	1.9	32	83	6	79	59	1	0	39	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53849--53922	28	2.7	27	73	22	73	36	0	0	63	0.95
53906--53960	26	2.1	26	83	6	67	34	0	1	63	1.05
54507--54532	10	2.6	10	100	0	52	38	0	0	61	0.96
56738--56763	11	2.4	11	100	0	52	76	0	0	23	0.78
56731--56764	17	1.9	18	88	5	52	76	0	0	23	0.79
57121--57196	9	8.3	9	70	17	50	31	0	1	67	0.99
57153--57196	17	2.5	17	77	3	52	27	0	0	72	0.85
59917--59946	11	2.7	11	94	0	51	23	0	0	76	0.78
60145--60178	14	2.4	14	100	0	68	52	0	0	47	1.00
60139--60178	14	2.7	15	92	7	57	52	2	0	45	1.14
60145--60241	14	6.5	15	76	21	64	46	0	3	50	1.17
60513--60668	13	11.8	13	66	21	58	41	0	0	57	1.03
60514--60666	19	7.7	21	68	20	82	41	0	0	57	1.03
60515--60635	26	4.5	28	71	20	89	43	0	0	55	1.05
60521--60650	45	2.9	45	76	20	128	42	0	0	56	1.04
61753--61784	16	2.0	16	93	0	55	53	0	0	46	1.00
61757--61840	44	1.9	43	80	9	98	50	1	2	46	1.22
62502--62534	12	2.6	13	85	9	50	33	0	3	63	1.10
67236--67273	18	2.1	18	95	0	67	68	0	0	31	0.90
68806--68851	21	2.2	21	84	7	58	34	0	0	65	0.93
68929--68969	5	7.6	5	89	10	55	56	0	0	43	0.99
68930--68973	6	7.8	6	92	2	58	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
82266--82304	16	2.4	16	91	0	60	46	2	0	51	1.14
82735--82768	16	2.1	17	88	5	52	47	0	0	52	1.00
83156--83188	16	2.1	16	88	5	50	48	0	0	51	1.00
85173--85218	14	3.1	15	84	15	60	32	2	0	65	1.05
87103--87153	18	3.0	17	83	13	61	68	0	0	31	0.90
91239--91401	28	5.6	28	70	19	77	55	1	0	42	1.12
91249--91284	18	2.0	18	89	10	56	61	0	0	38	0.96
91239--91286	11	4.2	12	75	19	50	60	0	0	39	0.97
91293--91360	16	4.2	17	75	17	65	55	1	0	42	1.08
91334--91404	29	2.5	27	82	14	90	57	1	1	39	1.16
92513--92555	18	2.4	18	88	0	59	44	6	4	44	1.52
93154--93195	15	2.9	15	85	3	50	57	0	0	42	0.99
93735--93760	13	2.0	13	100	0	52	53	0	0	46	1.00
94563--94602	2	20.0	2	100	0	80	50	0	0	50	1.00
95904--95961	13	4.2	14	80	6	57	53	0	1	44	1.10
102293--102331	19	2.1	19	85	9	53	58	0	0	41	0.98
107785--107824	12	3.4	11	89	10	53	30	0	0	70	0.88
107786--107820	18	2.0	17	88	5	52	28	0	0	71	0.86
109657--109698	19	2.2	19	87	12	59	78	4	7	9	1.08
110466--110516	19	3.1	16	81	13	59	68	0	0	31	0.90
110461--110519	24	2.5	24	81	13	77	64	0	0	35	0.94
110564--110601	20	1.9	20	88	0	58	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
110581--110740	16	10.1	15	70	20	78	58	0	1	39	1.11
111413--111460	20	2.3	22	79	13	57	10	4	4	81	0.97
111500--111585	43	2.0	44	81	9	104	53	2	0	44	1.13
111886--111964	29	2.7	29	100	0	158	54	0	0	45	0.99
111902--111950	15	3.3	15	74	25	59	55	0	0	44	0.99
111886--111959	17	4.9	17	71	28	78	52	0	0	47	1.00
111888--111965	14	5.4	14	72	27	74	52	0	0	47	1.00
112851--112913	15	4.2	15	69	20	51	60	0	0	39	0.97
112851--112901	21	2.4	21	76	3	57	58	0	0	41	0.98
112862--112911	19	2.6	19	78	15	57	58	0	0	42	0.98

Tables:   1   2