genome.fa.s1834.2.7.7.80.10.50.1000.1.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: Scaffold1834
Parameters: 2 7 7 80 10 50 1000
Length:  246159

Tables:   1   2   

This is table  1  of  2  ( 186 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)
580--627	22	2.2	22	88	0	69	41	0	10	47	1.37
3776--3904	52	2.5	52	93	0	222	27	17	18	36	1.94
3913--3937	13	1.9	13	100	0	50	36	16	16	32	1.90
3999--4023	13	1.9	13	100	0	50	32	16	16	36	1.90
3980--4042	32	2.0	32	96	0	117	36	17	12	33	1.88
3978--4044	19	3.8	19	77	22	83	38	16	11	32	1.85
4616--4744	50	2.6	50	88	1	197	31	20	19	29	1.97
5014--5070	19	3.0	19	84	0	78	29	21	17	31	1.96
9178--9295	49	2.4	49	91	1	182	30	22	18	28	1.97
10864--10926	17	3.2	20	73	19	51	55	1	1	41	1.19
19828--19930	51	2.0	51	98	0	197	33	6	3	56	1.44
25083--25118	14	2.6	13	87	12	54	47	0	0	52	1.00
27354--27403	2	25.0	2	95	0	91	48	2	0	50	1.12
27605--27645	18	2.2	20	86	8	59	43	0	4	51	1.23
29532--29584	2	26.5	2	96	0	97	47	0	0	52	1.00
31718--31791	29	2.5	30	76	12	89	47	4	6	41	1.49
38925--39696	167	4.7	164	79	8	707	29	10	9	50	1.68
39006--39753	329	2.3	326	80	6	791	30	10	8	50	1.67
43401--43462	27	2.3	27	82	0	79	51	3	1	43	1.27
43404--43638	29	8.1	28	69	22	116	54	3	2	39	1.29
43475--43643	60	3.0	56	77	14	136	55	2	1	39	1.25
43593--43638	23	1.9	23	86	8	65	63	2	0	34	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43616--43655	19	2.2	19	90	4	64	60	2	0	37	1.11
43476--43644	31	6.0	29	67	22	99	56	2	1	39	1.25
43593--43680	44	2.0	44	85	8	119	59	1	0	39	1.05
43635--43685	25	2.0	25	96	3	93	56	0	0	43	0.99
43593--43726	44	3.2	42	79	17	118	55	0	0	43	1.04
43637--43695	12	4.4	15	71	28	53	52	0	0	47	1.00
43586--43685	25	4.3	24	77	18	88	58	1	0	41	1.05
44151--44202	15	3.6	14	78	5	59	55	0	0	44	0.99
47090--47115	1	26.0	1	100	0	52	100	0	0	0	0.00
50651--50688	17	2.3	17	86	4	51	36	2	13	47	1.56
51341--51373	17	1.9	17	93	0	57	72	6	0	21	1.05
51664--51702	20	2.0	20	94	0	69	38	17	0	43	1.50
64422--64479	21	2.8	21	76	2	55	68	10	13	6	1.37
64748--64773	13	2.0	13	100	0	52	84	15	0	0	0.62
65789--65847	31	1.9	32	86	6	86	25	25	15	33	1.95
65820--66859	27	38.0	27	87	6	1429	23	34	14	28	1.94
66842--67381	32	16.8	32	93	2	906	31	33	18	16	1.94
67402--67532	45	2.8	47	80	7	133	21	26	21	30	1.98
70554--70797	96	2.5	96	98	0	470	30	15	29	25	1.96
72056--72106	24	2.1	24	100	0	102	68	7	7	15	1.37
72056--72112	24	2.5	23	94	5	98	63	8	10	17	1.51
73020--73094	20	3.8	20	80	3	80	40	12	13	34	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
73017--73094	40	2.0	39	87	2	111	39	12	12	34	1.82
73691--74353	28	22.9	28	84	9	653	21	19	32	26	1.97
73676--74353	55	11.7	55	83	11	700	21	19	32	26	1.97
73658--74289	227	2.8	227	90	4	986	21	19	32	26	1.97
73704--74961	27	44.5	28	87	5	870	24	16	33	25	1.96
74387--74952	273	2.1	273	90	2	886	28	13	34	23	1.93
81030--81273	96	2.5	96	98	0	470	30	15	29	25	1.96
81890--81944	22	2.5	22	96	0	101	60	9	12	18	1.58
82853--82927	20	3.8	20	80	3	80	40	12	13	34	1.81
82850--82927	40	2.0	39	87	2	111	39	12	12	34	1.82
86347--86433	45	1.9	45	86	4	122	32	19	13	34	1.91
86994--87091	15	6.7	15	74	6	67	27	21	20	30	1.98
87015--87072	14	4.1	14	78	12	55	29	20	20	29	1.98
89711--89761	19	2.6	20	81	3	59	35	13	17	33	1.89
90436--90469	17	2.0	17	100	0	68	41	35	0	23	1.55
92361--92397	13	2.8	13	91	0	56	32	18	16	32	1.93
92433--92486	20	2.7	20	97	0	99	35	16	11	37	1.84
99354--99482	52	2.5	52	97	0	249	27	18	18	34	1.95
99491--99515	13	1.9	13	100	0	50	36	16	16	32	1.90
99560--99630	32	2.2	32	92	0	115	35	18	11	35	1.86
101758--101819	32	1.9	32	86	3	88	37	12	19	30	1.89
102180--102230	3	17.0	3	95	0	93	33	1	0	64	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
102980--103056	21	3.7	21	100	0	154	35	10	18	36	1.85
103170--103211	21	2.0	21	100	0	84	42	9	19	28	1.82
103198--103223	13	2.0	13	100	0	52	30	15	15	38	1.88
105580--105820	52	4.6	51	89	3	331	28	26	11	32	1.91
105800--105874	27	2.7	27	89	6	107	24	33	21	21	1.97
105827--106114	79	3.6	78	84	6	348	26	27	15	30	1.96
105825--106147	158	2.0	154	80	11	377	26	26	14	31	1.95
108559--108602	22	2.1	21	87	8	63	43	6	9	40	1.63
108696--108721	13	2.0	13	100	0	52	30	15	15	38	1.88
108798--108852	20	2.8	20	88	0	83	38	10	16	34	1.84
109282--109376	36	2.8	32	79	17	97	32	12	24	30	1.92
110657--110681	12	2.1	12	100	0	50	60	8	8	24	1.52
113589--113675	29	3.0	29	66	21	74	29	10	11	48	1.73
113596--113708	57	2.0	57	94	0	199	30	13	8	47	1.73
117305--117374	20	3.5	20	88	1	97	34	15	11	38	1.84
119051--119077	13	2.1	13	100	0	54	29	14	14	40	1.86
119032--119096	32	2.0	33	84	3	87	30	16	12	40	1.86
119058--119117	20	3.0	20	76	13	70	33	15	16	35	1.90
122389--122472	13	5.5	13	68	28	51	35	19	13	32	1.90
122397--122459	19	3.7	18	74	24	64	36	19	12	31	1.89
122389--122474	32	2.7	32	94	0	154	37	18	12	31	1.89
124980--125022	20	2.1	21	87	12	63	55	6	13	23	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
127444--128101	329	2.0	329	100	0	1316	36	12	19	31	1.89
129259--129285	13	2.1	13	100	0	54	29	14	14	40	1.86
131774--131823	19	2.5	20	83	6	66	32	16	10	42	1.81
131873--131926	20	2.7	20	82	5	65	33	11	18	37	1.86
132961--132994	3	11.3	3	93	0	59	38	0	32	29	1.58
139506--139546	20	2.0	21	90	4	66	46	0	26	26	1.53
140207--140231	13	1.9	13	100	0	50	32	16	16	36	1.90
140220--140268	19	2.6	19	93	0	80	32	12	16	38	1.86
140186--140250	32	2.0	33	90	3	105	30	15	15	38	1.88
141242--141275	13	2.7	13	90	4	52	44	0	0	55	0.99
141434--141502	21	3.2	21	64	11	59	37	4	5	52	1.46
141431--141514	43	2.0	43	100	0	168	39	3	7	50	1.47
144892--144959	24	3.0	23	76	18	63	51	0	1	47	1.09
144911--144961	26	2.0	26	84	7	68	54	0	1	43	1.11
147137--147163	14	1.9	14	100	0	54	25	44	14	14	1.84
149781--149820	2	20.0	2	94	0	71	50	2	0	47	1.14
150432--150494	28	2.4	25	76	15	65	49	1	1	47	1.20
150457--150510	24	2.2	26	80	12	60	51	0	0	48	1.00
151159--151198	16	2.5	16	87	0	62	32	0	0	67	0.91
151243--151280	20	1.9	20	88	0	58	39	0	0	60	0.97
151239--151291	17	2.9	18	78	13	63	37	0	0	62	0.96
151242--151300	17	3.3	17	72	25	50	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
151329--151367	19	2.1	19	85	9	53	33	0	0	66	0.92
154134--154165	4	8.0	4	100	0	64	50	25	0	25	1.50
156689--156722	2	17.0	2	100	0	68	50	0	0	50	1.00
160883--160946	29	2.2	29	94	0	110	37	14	3	45	1.60
164994--165030	18	2.1	18	94	0	65	32	2	10	54	1.49
165177--165243	28	2.4	28	83	16	86	43	2	4	49	1.38
173131--173197	37	1.9	35	88	11	102	29	25	11	32	1.92
176481--176645	84	2.0	84	82	7	201	24	19	3	52	1.62
178694--178719	13	2.0	13	100	0	52	30	15	15	38	1.88
178674--178737	32	2.0	33	90	3	103	28	14	15	42	1.86

Tables:   1   2