oyster.v9_M.fa.s27.2.7.7.80.10.50.500.1.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.04

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: scaffold142
Parameters: 2 7 7 80 10 50 500
Length:  1252394

Tables:   1   2   3   4   

This is table  1  of  4  ( 420 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)
4580--4613	8	4.2	8	84	0	50	0	35	26	38	1.57
4567--4613	16	2.9	16	81	6	51	2	36	25	36	1.68
38340--38371	15	2.2	15	94	5	57	0	9	0	90	0.45
44820--44850	12	2.7	11	90	9	53	80	19	0	0	0.71
44853--44888	18	2.0	18	89	10	56	38	5	11	44	1.63
45530--45621	21	4.4	21	78	5	96	23	16	22	36	1.94
45530--45621	42	2.2	42	88	3	141	23	16	22	36	1.94
45682--45856	21	8.4	21	78	1	165	36	19	15	28	1.92
45903--45992	41	2.2	41	84	4	119	26	12	18	42	1.86
45896--45992	21	4.7	21	83	3	117	27	12	18	41	1.86
46061--46161	21	4.8	20	78	11	96	40	15	12	30	1.85
47585--47959	21	17.9	21	87	2	448	43	6	14	36	1.71
48416--48732	22	14.5	22	72	13	181	34	17	15	32	1.91
48475--48514	21	1.9	21	100	0	80	35	17	15	32	1.91
48674--48736	20	3.0	20	77	8	63	41	14	15	28	1.87
48431--48733	42	7.0	41	68	15	128	33	17	15	33	1.91
53045--53126	34	2.4	34	81	4	85	40	18	13	28	1.88
65660--65761	20	5.4	19	74	17	81	74	19	4	0	1.06
65660--65761	4	26.8	4	73	16	67	74	19	4	0	1.06
74662--74691	15	2.0	15	93	0	51	13	23	20	43	1.86
75161--75188	2	14.0	2	100	0	56	50	0	0	50	1.00
75444--75525	2	41.0	2	100	0	164	0	0	50	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
75532--75570	2	19.5	2	100	0	78	51	0	48	0	1.00
80373--80418	2	23.0	2	100	0	92	0	50	0	50	1.00
104663--104691	11	2.6	11	100	0	58	31	10	31	27	1.90
110057--110445	161	2.4	160	83	3	487	35	21	13	29	1.92
115815--115891	2	39.0	2	87	7	113	2	50	0	46	1.15
122449--122487	15	2.5	16	87	8	62	12	10	0	76	1.01
126047--126079	17	1.9	17	100	0	66	24	21	24	30	1.99
129086--129116	2	15.5	2	100	0	62	48	0	51	0	1.00
129552--129678	62	2.1	60	82	7	148	49	9	13	27	1.72
132703--132746	23	1.9	23	95	0	79	36	13	13	36	1.85
140194--140219	4	6.5	4	100	0	52	0	50	23	26	1.50
144133--144167	12	2.9	12	86	0	52	45	17	37	0	1.48
145336--145370	12	2.9	12	91	0	61	0	40	17	42	1.49
145324--145359	17	2.1	17	89	0	54	0	38	13	47	1.44
147653--148096	184	2.4	184	80	8	490	35	15	15	34	1.89
149274--149310	2	18.5	2	100	0	74	48	0	51	0	1.00
149898--149929	16	2.0	17	88	11	50	37	12	9	40	1.75
153992--154018	5	5.4	5	100	0	54	18	40	0	40	1.51
168355--168439	4	21.2	4	95	0	116	44	23	30	1	1.61
172568--172611	17	2.5	18	85	3	54	52	4	13	29	1.60
186244--186408	48	3.4	48	74	11	158	44	11	4	39	1.60
186276--186358	33	2.5	33	83	11	93	46	10	2	39	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
186181--186425	15	15.3	15	69	16	118	44	10	4	40	1.60
186669--186711	20	2.1	20	86	0	59	41	13	6	37	1.72
186669--186721	20	2.6	20	82	5	54	39	15	5	39	1.70
187357--187899	177	3.1	176	88	2	777	34	26	16	22	1.95
187355--188003	177	3.7	175	85	3	626	34	25	16	23	1.96
188160--188194	14	2.5	14	90	0	52	25	11	28	34	1.91
189276--189301	5	5.2	5	100	0	52	19	42	0	38	1.51
191216--191424	100	2.1	101	80	9	239	45	22	10	21	1.82
195592--195669	21	3.7	21	75	13	79	41	15	25	17	1.89
195587--195691	42	2.5	42	70	11	106	42	13	25	18	1.86
196441--196476	16	2.2	16	90	0	54	50	11	13	25	1.75
196473--196561	21	4.2	21	80	5	108	41	16	23	17	1.90
197467--197527	2	30.5	2	100	0	122	0	50	0	49	1.00
202655--202750	47	2.0	47	100	0	192	39	25	10	25	1.87
202865--202903	20	1.9	20	84	0	51	25	25	28	20	1.99
202963--203095	37	3.7	36	73	4	124	39	16	6	37	1.73
203077--203129	22	2.4	23	81	12	58	41	16	1	39	1.60
203098--203292	37	5.1	38	78	8	173	40	17	2	39	1.63
203098--203262	40	4.3	39	80	7	178	41	16	2	39	1.61
206220--206274	4	13.8	4	100	0	110	49	0	25	25	1.51
206272--206314	4	10.8	4	100	0	86	25	0	48	25	1.51
209101--209136	3	12.0	3	87	0	54	36	2	30	30	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
213411--214121	167	4.2	166	88	5	955	26	25	16	32	1.96
218413--218451	20	1.9	20	84	0	51	25	25	28	20	1.99
218511--219021	36	13.6	37	76	8	336	36	16	6	40	1.74
218505--218818	145	2.2	145	93	0	529	33	15	9	41	1.79
218505--218818	72	4.3	73	92	2	499	33	15	9	41	1.79
218790--218978	40	4.7	40	82	9	199	40	17	3	39	1.66
218830--219009	80	2.3	79	84	4	240	41	15	3	40	1.63
223890--223939	16	3.1	16	91	0	82	44	22	24	10	1.83
230243--230276	17	2.0	17	88	11	52	44	5	8	41	1.60
233728--233766	18	2.2	18	90	0	60	35	12	10	41	1.77
239385--239466	21	3.9	21	80	3	101	37	10	20	30	1.87
239470--239535	21	3.1	21	84	0	78	36	10	16	36	1.84
239609--239686	21	3.7	21	78	0	84	25	16	14	43	1.85
239614--239694	42	1.9	42	92	0	135	28	17	13	40	1.87
239626--239697	21	3.4	21	80	0	90	30	15	13	40	1.86
241693--241825	40	3.2	40	86	9	169	40	9	12	38	1.74
241675--241829	46	3.5	46	86	6	232	40	9	12	37	1.76
243045--243069	6	4.2	6	100	0	50	0	36	48	16	1.46
243207--244120	177	5.2	174	82	5	943	23	16	25	34	1.95
243394--243433	19	2.1	19	90	0	62	22	2	37	37	1.68
243207--244120	344	2.6	344	82	5	1022	23	16	25	34	1.95
243684--243985	167	1.8	167	91	1	507	24	15	25	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
244841--244877	15	2.6	15	87	8	51	29	5	13	51	1.63
245023--245058	15	2.4	15	90	0	54	33	5	13	47	1.67
245357--245395	20	1.9	20	89	0	60	48	10	0	41	1.37
245744--245777	16	2.1	16	94	0	59	26	14	26	32	1.95
253249--253291	14	3.1	14	83	3	61	34	0	4	60	1.17
253592--253627	15	2.3	16	90	4	56	38	2	22	36	1.69
261879--262089	88	2.4	88	91	0	341	31	18	16	33	1.93
271284--271328	22	2.0	22	95	0	81	42	35	13	8	1.75
271286--271341	22	2.5	22	85	0	76	44	32	14	8	1.76
271286--271383	11	8.8	11	71	8	65	45	28	12	13	1.79
271447--271759	140	2.2	139	80	8	332	31	17	21	29	1.96
274024--274104	41	2.0	40	85	7	110	45	30	8	14	1.75
294705--294788	34	2.4	36	86	4	109	27	23	20	28	1.99
294705--294793	36	2.6	34	85	3	106	28	24	20	26	1.99
296689--296721	16	2.1	15	94	5	57	54	0	12	33	1.37
301589--301636	2	24.0	2	100	0	96	0	50	0	50	1.00
303869--303900	2	16.0	2	100	0	64	50	0	50	0	1.00
305138--305171	15	2.3	15	89	0	50	41	2	5	50	1.42
305364--305390	2	13.5	2	100	0	54	51	0	48	0	1.00
305388--305418	4	7.8	4	100	0	62	51	22	25	0	1.48
305797--305848	2	26.0	2	96	0	95	51	0	48	0	1.00
310392--310452	2	30.5	2	100	0	122	0	49	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
313276--313323	21	2.3	21	85	7	62	6	12	20	60	1.54
313327--313385	15	3.7	15	73	20	57	3	5	30	61	1.34
316580--316633	2	27.0	2	100	0	108	0	50	0	50	1.00
323769--323826	2	29.0	2	92	0	98	3	50	0	46	1.18
345419--345453	18	1.9	18	88	11	54	45	5	0	48	1.26
348494--348562	21	3.3	20	74	8	66	1	8	28	60	1.35
348481--348562	42	2.0	40	86	6	112	3	9	26	59	1.46
348494--348562	18	3.5	18	71	21	57	1	8	28	60	1.35
352859--353016	55	2.7	56	81	10	167	35	6	14	43	1.73
355296--355345	2	25.0	2	100	0	100	0	50	0	50	1.00

Tables:   1   2   3   4