genome.fa.s392.2.7.7.80.10.50.1000.1.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: Scaffold392
Parameters: 2 7 7 80 10 50 1000
Length:  803515

Tables:   1   2   3   4   5   6   

This is table  1  of  6  ( 687 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)
326--501	90	1.9	90	85	6	239	31	13	14	40	1.85
1619--1681	20	3.3	20	65	13	60	57	6	9	26	1.55
1610--1686	37	2.1	38	97	2	147	59	5	10	24	1.50
3568--3617	24	2.1	24	88	3	75	30	8	8	54	1.58
4766--5006	79	3.0	79	85	3	304	46	5	12	36	1.65
5160--5188	9	3.3	9	90	9	51	48	6	0	44	1.29
5184--5243	23	2.5	24	81	10	68	63	0	0	36	0.95
5186--5242	18	3.3	17	78	9	62	64	0	0	35	0.93
5198--5244	23	2.0	23	91	0	76	65	0	0	34	0.93
5609--5662	20	2.9	19	76	21	60	46	1	1	50	1.23
5609--5658	17	2.8	18	82	14	59	46	2	2	50	1.24
6360--6399	17	2.4	17	84	12	55	47	0	0	52	1.00
9362--9436	2	38.0	2	86	7	82	41	5	0	53	1.24
9350--9422	37	2.0	36	94	2	128	32	9	0	57	1.31
9583--9614	2	16.0	2	100	0	64	50	0	0	50	1.00
10908--10962	28	2.0	27	82	10	67	60	3	0	36	1.15
11569--11631	32	2.0	31	82	14	76	44	0	4	50	1.23
11665--11700	18	2.1	18	89	5	56	66	2	0	30	1.06
13875--13938	22	2.7	23	78	11	67	56	0	0	43	0.99
14533--14598	35	1.9	34	87	9	98	48	1	10	39	1.47
15086--15129	18	2.4	18	81	11	54	0	36	0	63	0.95
15467--15493	2	13.5	2	100	0	54	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16657--16724	11	6.2	11	73	10	50	57	4	0	38	1.19
17613--17676	21	3.0	21	80	8	60	43	0	1	54	1.09
18427--18467	18	2.3	18	87	8	57	43	0	4	51	1.23
20069--20106	20	1.9	20	88	0	58	36	2	0	60	1.11
20153--20185	12	2.8	12	90	9	50	36	0	0	63	0.95
20468--20757	89	3.3	88	84	3	357	39	10	13	37	1.78
20922--21055	2	75.0	2	76	21	138	46	0	0	52	1.05
20908--21055	21	6.8	23	78	14	109	44	0	1	54	1.08
20919--21055	48	2.6	51	85	11	172	45	0	0	53	1.05
21398--21756	182	2.0	182	86	2	506	47	8	6	37	1.61
22910--22966	30	1.9	30	86	13	82	52	0	0	47	1.00
23262--23305	16	2.6	17	89	7	63	59	0	0	40	0.98
23310--23359	21	2.4	21	83	6	57	64	0	0	36	0.94
23695--23728	17	2.0	18	88	11	54	50	0	0	50	1.00
24302--24364	21	3.0	21	75	17	58	57	0	0	42	0.99
25486--25527	16	2.5	17	81	18	52	50	0	0	50	1.00
27456--27502	20	2.3	20	88	0	67	38	0	4	57	1.18
44873--44920	22	2.1	23	88	3	71	66	0	0	33	0.92
44864--44933	22	3.3	21	78	9	70	62	0	0	37	0.95
45305--45335	16	1.9	16	93	0	53	58	0	0	41	0.98
45328--45410	21	4.8	16	68	25	53	44	3	1	50	1.27
45357--45403	9	5.0	9	76	19	51	44	4	0	51	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46660--46717	21	2.8	20	75	17	55	56	0	0	43	0.99
47138--47171	16	2.1	16	89	10	52	58	0	0	41	0.98
48646--48687	12	3.2	13	83	16	52	33	0	2	64	1.07
48654--48705	12	4.2	12	76	11	52	34	0	3	61	1.14
48646--48705	25	2.5	23	81	13	59	35	0	3	61	1.12
48715--48758	22	2.0	22	90	0	70	56	0	4	38	1.20
49076--49109	16	2.1	16	100	0	68	47	0	0	52	1.00
49964--50013	25	2.0	25	84	7	66	64	6	2	28	1.28
51981--52033	25	2.1	26	82	10	65	58	0	0	41	0.98
52368--52411	14	3.0	15	80	12	56	31	0	0	68	0.90
52360--52399	13	3.0	13	85	14	55	35	0	0	65	0.93
52380--52534	49	3.3	46	75	13	122	47	0	0	52	1.05
52773--52861	33	2.7	33	77	10	92	51	2	0	46	1.13
52809--52870	28	2.2	28	83	11	74	50	6	0	43	1.28
53134--53183	21	2.4	21	80	6	57	48	6	2	44	1.39
53958--53999	22	1.9	22	85	9	59	30	0	0	69	0.89
58561--58870	150	2.0	153	95	3	565	40	10	5	43	1.61
58846--58879	2	17.5	2	93	6	61	50	0	0	50	1.00
59908--59939	2	16.0	2	100	0	64	50	0	0	50	1.00
61619--61707	45	2.0	45	84	0	115	33	15	8	41	1.79
64280--64335	25	2.2	25	81	6	60	46	1	0	51	1.11
64982--65006	13	1.9	13	100	0	50	52	8	32	8	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
69889--69926	2	19.0	2	100	0	76	50	0	0	50	1.00
71717--71754	2	19.0	2	100	0	76	0	50	0	50	1.00
71754--71784	2	15.5	2	100	0	62	48	0	0	51	1.00
71784--71818	2	17.5	2	100	0	70	0	0	48	51	1.00
74420--74445	2	13.0	2	100	0	52	50	0	0	50	1.00
75191--75228	2	19.5	2	89	5	60	52	0	0	47	1.00
75426--75491	5	13.4	5	76	20	59	36	0	0	63	0.95
75426--75482	11	5.1	11	75	12	62	35	0	0	64	0.93
75424--75500	21	3.5	22	79	15	72	36	0	0	63	0.95
75429--75500	26	2.7	26	85	8	83	37	0	0	62	0.95
75664--75711	19	2.3	21	82	10	55	50	0	0	50	1.00
75718--75757	5	8.0	5	89	10	64	60	0	0	40	0.97
78275--78312	14	2.7	14	84	11	51	78	0	13	7	0.94
78280--78312	15	2.1	16	94	5	59	81	0	12	6	0.85
78474--78581	44	2.4	44	98	1	207	29	14	0	55	1.40
79244--79282	19	2.0	20	85	5	53	51	2	0	46	1.14
89158--89310	75	2.0	75	97	0	288	32	14	29	23	1.94
91524--91561	16	2.3	17	86	4	51	31	31	7	28	1.86
92528--92559	2	16.0	2	100	0	64	50	0	50	0	1.00
92935--92978	20	2.2	20	88	8	63	43	0	0	56	0.99
93144--93177	17	1.9	18	88	5	52	58	0	0	41	0.98
93283--93361	34	2.6	30	75	18	74	39	1	1	58	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
93305--93448	27	5.3	28	73	17	108	40	0	0	58	1.08
93345--93491	21	7.6	20	69	22	84	42	0	0	57	0.99
93389--93490	32	3.2	32	78	10	86	45	0	0	54	0.99
93589--93613	3	8.3	3	100	0	50	32	0	0	68	0.90
94906--94953	22	2.2	21	78	10	53	41	2	0	56	1.11
96000--96120	57	2.1	59	82	3	147	45	9	5	39	1.60
96004--96524	260	2.0	259	95	1	927	38	13	10	37	1.78
99781--99825	19	2.2	21	84	7	58	68	4	0	26	1.08
99784--99825	22	2.0	21	85	4	57	66	4	0	28	1.12
102509--102534	3	8.7	3	100	0	52	34	0	0	65	0.93
103838--103883	22	2.0	23	83	4	58	58	0	0	41	0.98
104641--104676	17	2.1	18	89	5	56	66	8	0	25	1.19
105646--105691	12	4.2	11	76	18	51	43	0	0	56	0.99
105636--105707	10	7.0	10	76	13	58	43	0	2	54	1.15
105658--105736	40	2.0	40	82	7	97	45	0	1	53	1.08
105658--105748	40	2.2	40	79	11	96	47	0	1	51	1.07
106377--106448	25	2.9	25	70	4	65	37	4	0	58	1.18
106392--106463	19	3.6	21	76	12	71	38	2	0	58	1.13
106403--106488	33	2.6	33	76	7	86	44	2	0	53	1.13
107797--107833	2	18.5	2	100	0	74	51	0	0	48	1.00
108052--108076	2	12.5	2	100	0	50	52	0	0	48	1.00
108263--108306	23	1.9	23	95	0	79	43	0	2	54	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
108264--108313	23	2.2	23	88	0	73	46	0	2	52	1.12
108337--108379	17	2.5	18	81	11	54	48	0	2	48	1.14
109195--109229	15	2.2	16	90	5	54	28	0	0	71	0.86
109780--109822	18	2.4	18	92	3	70	74	0	0	25	0.82
109775--109821	9	5.0	10	78	21	57	72	0	0	27	0.85
112310--112367	28	2.1	28	93	6	100	46	24	3	25	1.68
112706--112788	37	2.2	38	85	10	109	61	0	4	33	1.17
112732--112788	19	3.0	19	78	12	64	59	0	5	35	1.20
112724--112772	17	2.6	19	73	20	50	59	0	4	36	1.17
113991--114056	23	2.8	23	82	13	80	60	0	1	37	1.06

Tables:   1   2   3   4   5   6