genome.fa.s231.2.7.7.80.10.50.1000.1.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: Scaffold231
Parameters: 2 7 7 80 10 50 1000
Length:  1009718

Tables:   1   2   3   4   5   6   7   

This is table  1  of  7  ( 735 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)
407--466	18	3.3	19	76	21	65	40	0	0	60	0.97
3751--3786	17	2.1	17	89	0	54	38	0	5	55	1.23
4760--4802	12	3.2	15	81	18	51	6	6	9	76	1.15
4821--4855	6	5.7	6	89	3	52	0	2	11	85	0.69
7730--7763	15	2.3	15	89	0	50	67	0	0	32	0.91
11488--11534	19	2.7	18	77	16	53	40	0	2	57	1.11
13229--13258	2	15.0	2	100	0	60	50	0	50	0	1.00
18092--18127	18	2.0	18	94	0	63	30	13	22	33	1.93
20821--20846	2	13.0	2	100	0	52	50	0	0	50	1.00
22192--22249	29	2.0	29	100	0	116	24	10	24	41	1.86
28174--28231	28	2.1	28	100	0	116	25	6	6	60	1.48
29737--29784	21	2.3	21	96	3	89	41	6	20	31	1.77
30842--30884	19	2.3	19	87	0	59	53	2	0	44	1.13
32853--32969	51	2.3	51	83	1	135	39	5	23	31	1.79
32903--33171	80	3.4	76	76	12	231	33	9	28	28	1.88
32903--33171	78	3.4	77	77	8	238	33	9	28	28	1.88
32903--33245	78	4.4	77	75	8	237	33	9	28	28	1.89
35667--35709	4	10.5	4	90	5	68	0	27	0	72	0.85
37736--37781	19	2.4	19	81	0	56	43	4	6	45	1.49
38165--38216	19	2.7	19	88	5	70	34	1	7	55	1.39
38760--38820	32	1.9	32	83	6	79	59	4	3	32	1.35
40013--40061	21	2.2	21	82	13	55	30	0	8	61	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40005--40062	25	2.4	24	72	21	66	34	0	6	58	1.25
41014--41062	20	2.5	20	96	0	89	53	0	0	46	1.00
42703--42737	17	2.1	17	100	0	70	34	22	0	42	1.54
42932--42976	22	2.0	22	87	8	65	28	0	0	71	0.87
43798--43869	34	2.1	34	87	5	101	47	6	4	41	1.50
44456--44503	22	2.2	23	88	7	73	50	0	0	50	1.00
44788--44844	30	2.0	27	86	10	78	47	0	1	50	1.11
44803--44843	21	2.0	21	85	0	55	46	0	2	51	1.14
45867--45947	37	2.1	39	84	8	105	41	3	3	50	1.38
46628--46686	5	11.6	5	80	8	66	74	0	23	1	0.91
46628--46686	16	3.9	15	80	10	66	74	0	23	1	0.91
46626--46697	32	2.3	31	80	4	81	75	1	20	2	1.01
46788--46824	17	2.2	17	95	0	65	29	0	0	70	0.88
47268--47316	24	2.0	24	88	8	71	48	2	0	48	1.12
47422--47510	17	5.2	17	77	17	69	38	0	0	61	0.96
47423--47526	36	2.8	39	75	18	112	38	0	0	61	0.96
47463--47521	20	3.1	19	78	14	68	35	0	0	64	0.94
47476--47524	10	5.2	10	80	11	59	34	0	0	65	0.93
47731--47760	13	2.2	14	94	5	53	70	3	13	13	1.30
49744--49777	17	1.9	18	88	5	52	38	0	0	61	0.96
49872--49916	21	2.3	19	82	14	56	40	0	0	60	0.97
54961--55003	16	2.7	16	88	0	59	48	18	6	25	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60257--60292	18	2.0	18	100	0	72	55	0	16	27	1.42
66001--66055	25	2.1	27	86	6	78	50	0	1	47	1.11
66019--66107	36	2.4	35	80	15	92	52	0	3	43	1.17
66255--66300	15	2.8	18	75	21	55	47	0	0	52	1.00
67466--67525	19	3.5	17	74	25	56	31	15	18	35	1.91
67483--67507	13	1.9	13	100	0	50	36	16	16	32	1.90
67466--67533	32	2.1	32	94	0	118	32	14	17	35	1.91
70240--70288	16	2.7	19	73	26	52	48	12	12	26	1.75
75350--75395	23	2.0	23	83	4	58	52	2	2	43	1.25
75475--75519	21	2.2	21	88	11	67	44	0	11	44	1.39
75667--75719	21	2.5	21	78	6	63	54	0	0	45	0.99
75716--75747	16	2.1	16	94	5	57	46	0	0	53	1.00
75715--75749	15	2.4	14	86	13	52	42	0	0	57	0.99
75737--75837	35	2.9	35	75	17	104	46	0	0	53	1.00
75815--75868	15	3.8	13	76	13	54	37	0	0	62	0.95
75890--75947	21	2.8	21	89	2	82	43	0	0	56	0.99
75796--75946	78	1.9	84	81	10	190	41	1	0	55	1.16
76748--76791	3	14.7	3	95	0	79	0	31	0	68	0.90
97340--97374	2	17.5	2	100	0	70	51	0	0	48	1.00
100188--100374	83	2.3	83	88	0	275	31	26	17	25	1.97
106375--106447	32	2.2	34	80	7	87	67	6	8	17	1.39
106974--107049	40	1.9	40	88	0	116	38	9	11	40	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
107842--107906	24	2.8	23	79	4	76	20	4	10	64	1.42
108539--108581	19	2.3	19	81	18	54	30	4	13	51	1.62
112751--112898	73	2.0	73	82	2	181	19	20	9	50	1.75
113257--113298	21	2.0	22	86	9	61	33	7	2	57	1.39
114477--114519	19	2.3	19	92	8	70	81	2	16	0	0.79
114479--114512	16	2.1	17	88	5	52	82	0	17	0	0.67
114478--114519	18	2.3	17	91	4	57	80	2	16	0	0.81
114684--114755	31	2.3	31	80	4	81	30	2	8	58	1.42
115381--115472	27	3.6	25	76	18	82	22	5	7	64	1.41
115385--115448	22	2.8	23	80	13	71	23	4	7	64	1.40
115559--115599	20	2.0	22	90	9	68	39	0	4	56	1.21
115562--115603	22	2.0	20	82	13	50	42	0	4	52	1.22
115732--115765	16	2.1	16	88	0	50	20	0	5	73	1.04
117599--117645	20	2.3	20	82	7	60	27	17	10	44	1.81
120626--120667	22	1.9	22	90	0	66	40	14	9	35	1.78
121401--121470	15	4.3	17	68	15	58	74	0	1	24	0.90
121552--121679	38	3.3	38	85	12	179	24	19	10	46	1.81
121625--121701	22	3.5	22	70	22	81	25	20	9	44	1.81
121604--121677	21	3.5	21	68	23	64	24	21	9	44	1.82
121561--121705	43	3.5	43	92	4	219	24	19	8	46	1.78
121728--121808	5	16.2	5	90	0	108	20	19	6	53	1.67
121730--121820	15	6.2	15	88	2	123	20	20	7	50	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
130069--130157	1	89.0	1	77	0	70	0	7	5	86	0.70
130069--130156	32	2.7	33	92	7	153	0	7	5	86	0.71
142397--143147	42	17.8	42	83	3	911	12	30	20	36	1.90
142400--143147	85	8.8	84	83	5	882	12	30	20	36	1.90
142397--143147	127	5.9	125	82	6	888	12	30	20	36	1.90
143566--143693	38	3.3	38	85	12	179	24	19	10	46	1.81
143575--143712	43	3.3	43	93	5	223	24	18	9	47	1.78
143639--143715	22	3.5	22	70	22	81	25	20	9	44	1.81
143618--143691	21	3.5	21	68	23	64	24	21	9	44	1.82
143730--143814	5	17.0	5	86	4	82	21	21	9	48	1.78
143734--143812	10	7.9	10	88	0	95	21	21	7	49	1.74
143724--143824	15	6.9	15	85	2	116	20	20	8	49	1.76
146174--146224	21	2.4	21	77	6	59	35	5	11	47	1.65
146647--146681	18	1.9	18	88	0	52	34	2	17	45	1.63
147504--147544	20	2.0	20	95	4	73	31	19	14	34	1.92
147566--147618	22	2.4	22	96	0	97	58	3	7	30	1.43
148034--148186	64	2.4	62	81	10	177	23	11	13	51	1.73
148036--148186	63	2.4	62	79	16	168	23	11	13	50	1.74
150081--150130	14	3.5	14	74	15	57	66	4	2	28	1.21
151372--151420	22	2.2	22	81	0	62	53	4	16	26	1.61
152056--152099	17	2.4	18	81	11	54	34	6	0	59	1.24
152510--152545	14	2.4	16	90	9	58	19	0	0	80	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
153155--153201	18	2.6	18	77	16	51	36	4	0	59	1.17
153228--153287	15	4.3	13	71	20	50	40	0	0	60	0.97
155726--155753	2	14.0	2	100	0	56	50	0	0	50	1.00
162141--162202	32	2.0	32	90	3	99	54	1	0	43	1.09
162875--162955	11	7.9	11	74	19	52	40	0	0	59	0.98
162875--162948	25	3.0	24	76	11	78	37	0	0	62	0.96
162884--162981	39	2.5	38	78	15	94	41	0	0	58	0.98
162946--162977	16	1.9	17	93	6	57	46	0	0	53	1.00
163458--163720	139	1.9	139	92	3	440	47	8	7	35	1.63
163573--164014	157	2.8	158	93	1	737	46	8	8	35	1.66

Tables:   1   2   3   4   5   6   7