genome.fa.s456.2.7.7.80.10.50.1000.1.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: Scaffold456
Parameters: 2 7 7 80 10 50 1000
Length:  970336

Tables:   1   2   3   4   5   

This is table  1  of  5  ( 568 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)
1--69	13	5.2	13	84	5	59	30	57	2	8	1.43
1--37	19	1.9	19	89	10	58	29	67	0	2	1.04
38--92	15	3.9	14	88	9	76	29	45	9	16	1.78
31--108	30	2.7	30	80	9	83	30	44	7	16	1.76
82--136	22	2.5	22	90	0	83	34	43	7	14	1.73
264--319	16	3.6	16	80	4	60	44	48	0	7	1.30
31--324	7	41.4	7	78	9	172	40	44	3	11	1.57
282--338	21	2.6	23	83	10	75	49	36	1	12	1.51
976--1023	21	2.3	22	82	7	55	41	4	2	52	1.32
4898--4965	35	1.9	35	87	0	100	45	2	17	33	1.64
6186--6226	21	2.0	21	85	0	55	4	26	19	48	1.69
7873--7978	52	2.0	52	96	0	194	37	19	16	26	1.92
11334--11365	3	10.7	3	100	0	64	31	0	0	68	0.90
11686--11783	48	2.0	48	94	0	169	15	22	21	40	1.90
24147--24226	39	2.1	39	100	0	160	42	15	17	25	1.88
24326--24418	47	2.0	47	97	0	177	30	5	7	56	1.49
30427--30556	65	2.0	65	100	0	260	47	3	27	21	1.65
36094--36126	17	1.9	17	88	11	50	36	6	3	54	1.41
37989--38040	11	4.6	11	77	17	54	65	0	0	34	0.93
38017--38043	13	2.1	13	100	0	54	66	0	0	33	0.92
38034--38121	39	2.2	40	88	4	117	57	0	0	42	0.98
38010--38100	17	5.3	18	70	15	59	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38027--38108	18	4.4	18	70	15	69	58	0	0	41	0.98
38052--38136	39	2.2	40	85	6	111	57	2	1	38	1.19
42892--42918	13	2.1	13	100	0	54	22	0	0	77	0.76
43132--43183	24	2.2	24	86	10	72	38	0	0	61	0.96
43103--43168	34	1.9	35	84	3	89	39	3	0	57	1.14
43118--43187	14	4.5	17	70	24	57	40	0	0	60	0.97
43126--43189	21	3.0	21	77	18	62	37	0	0	62	0.95
43212--43304	37	2.5	38	83	1	116	40	4	0	54	1.20
43280--43326	21	2.2	21	84	0	58	46	4	0	48	1.21
44032--44165	74	1.9	74	81	12	172	40	0	1	58	1.07
44065--44128	32	1.9	34	84	6	87	39	0	1	59	1.07
44378--44412	3	11.7	3	100	0	70	65	0	34	0	0.93
47726--47963	116	2.0	117	95	4	433	28	12	16	42	1.85
53326--53362	2	18.5	2	94	0	65	48	2	0	48	1.15
53569--53611	7	6.0	7	81	13	52	72	2	0	25	0.97
54125--54168	2	22.0	2	100	0	88	0	50	0	50	1.00
57222--57251	15	2.0	15	100	0	60	6	33	6	53	1.53
57345--57382	19	2.0	19	89	0	58	39	5	15	39	1.70
58331--58437	54	2.0	54	100	0	214	21	33	7	37	1.82
59769--59829	22	2.7	23	75	10	54	37	0	1	60	1.07
59794--59835	22	2.0	21	85	4	57	28	0	0	71	0.86
60685--60742	26	2.2	27	84	9	75	44	8	10	36	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
65558--65613	19	2.8	19	83	5	67	33	14	16	35	1.88
65642--65708	33	2.0	33	85	0	89	38	14	13	32	1.86
71802--71829	13	2.2	13	100	0	56	28	14	14	42	1.84
73633--73683	18	2.7	19	84	3	68	29	1	37	31	1.69
74205--74269	32	2.0	33	87	3	96	27	13	15	43	1.85
75975--75999	2	12.5	2	100	0	50	52	0	0	48	1.00
76966--76994	3	9.7	3	100	0	58	31	0	0	68	0.89
77171--77198	2	14.0	2	100	0	56	50	0	0	50	1.00
77939--77963	2	12.5	2	100	0	50	52	0	0	48	1.00
78542--78579	2	19.0	2	100	0	76	0	50	0	50	1.00
79624--79668	2	22.5	2	100	0	90	51	0	0	48	1.00
80680--80709	2	15.0	2	100	0	60	50	0	0	50	1.00
81237--81285	24	2.0	25	92	4	82	59	6	14	20	1.56
86149--86199	25	2.0	25	81	7	59	47	15	7	29	1.74
87747--87801	21	2.6	21	91	2	92	20	23	12	43	1.86
91422--91475	3	18.0	3	100	0	108	0	33	0	66	0.92
91653--91693	21	2.0	21	85	9	57	46	9	31	12	1.74
99363--99411	3	16.3	3	91	0	80	67	0	2	30	1.02
99658--99699	5	8.8	5	82	10	52	2	2	33	61	1.21
99658--99699	19	2.2	19	86	0	57	2	2	33	61	1.21
100774--100830	29	2.0	29	86	10	82	29	12	3	54	1.54
104110--104134	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
104775--104812	2	19.0	2	94	0	67	47	0	52	0	1.00
110789--110846	7	8.6	7	88	1	66	27	1	31	39	1.67
110790--110846	21	2.8	21	86	5	73	26	1	31	40	1.66
111314--111350	2	18.5	2	94	0	65	48	2	0	48	1.15
114797--114832	19	1.9	18	88	5	54	66	0	22	11	1.22
116178--116247	30	2.3	31	83	11	90	61	0	0	38	0.96
116182--116268	45	1.9	45	81	9	106	63	0	0	36	0.95
118552--118597	20	2.3	20	85	7	58	26	2	2	69	1.11
126720--126751	16	1.9	17	93	6	57	68	0	0	31	0.90
127694--127721	2	14.0	2	100	0	56	50	0	50	0	1.00
127967--127991	5	5.0	5	100	0	50	20	60	20	0	1.37
128049--128081	6	5.5	6	96	0	57	27	33	3	36	1.72
131995--132020	2	13.0	2	100	0	52	50	0	50	0	1.00
137191--137219	6	4.8	6	100	0	58	48	17	0	34	1.47
144075--144122	24	2.0	24	100	0	96	25	12	12	50	1.75
153076--153114	20	1.9	21	89	5	62	38	2	5	53	1.37
153685--153718	3	11.3	3	100	0	68	67	0	0	32	0.91
153730--153771	2	20.5	2	86	13	59	47	0	4	47	1.23
154828--154853	6	4.3	6	100	0	52	19	30	15	34	1.93
170175--170236	33	2.0	33	87	9	94	50	0	3	46	1.17
170178--170233	16	3.5	17	69	26	50	51	0	1	46	1.11
173501--173600	26	4.1	25	72	20	86	63	0	1	36	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
173676--173711	2	18.0	2	100	0	72	50	0	0	50	1.00
175388--175451	23	3.0	21	78	10	67	75	0	14	10	1.06
175699--175723	2	12.5	2	100	0	50	52	0	48	0	1.00
178346--178374	2	14.5	2	100	0	58	48	0	0	51	1.00
180373--180405	3	11.0	3	93	0	57	63	0	36	0	0.95
198779--198809	15	2.1	15	93	0	53	77	3	0	19	0.90
199206--199240	2	17.5	2	87	0	52	51	5	0	42	1.25
199206--199240	16	2.2	16	100	0	70	51	5	0	42	1.25
204171--204196	13	2.0	13	100	0	52	38	0	0	61	0.96
205740--205823	42	2.0	43	88	2	125	48	5	8	36	1.58
206482--206521	2	20.5	2	92	5	64	52	2	0	45	1.14
207237--207285	24	2.0	25	88	4	73	42	14	2	40	1.57
207688--207724	6	6.2	6	90	0	56	32	18	13	35	1.90
207888--207912	2	12.5	2	100	0	50	52	0	0	48	1.00
207912--207941	2	15.0	2	100	0	60	50	0	50	0	1.00
209218--209246	2	15.0	2	92	7	51	51	0	0	48	1.00
211152--211182	2	15.5	2	100	0	62	48	0	0	51	1.00
211665--211696	2	16.0	2	100	0	64	0	50	0	50	1.00
222832--222875	16	2.9	15	78	18	54	70	0	2	27	0.99
228180--228212	12	2.8	12	95	0	57	6	15	45	33	1.70
228462--228510	2	24.5	2	100	0	98	48	0	0	51	1.00
232718--232814	47	2.1	47	96	0	176	19	20	16	43	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
234011--234096	43	2.0	43	97	2	165	18	13	13	53	1.73
236814--236895	42	2.0	42	95	0	146	31	10	30	26	1.91
237470--237651	91	2.0	92	94	1	321	35	13	19	31	1.90
239086--239373	145	2.0	143	91	1	468	33	5	20	40	1.75
240977--241104	63	2.0	64	96	1	240	28	11	18	40	1.86
242925--242960	2	18.0	2	100	0	72	50	0	0	50	1.00
243469--243493	3	8.3	3	100	0	50	68	0	0	32	0.90
243649--243677	2	14.5	2	100	0	58	51	0	0	48	1.00
246851--246903	26	2.0	26	100	0	106	50	15	11	22	1.75
252891--252928	2	19.0	2	88	0	58	44	0	55	0	0.99

Tables:   1   2   3   4   5