oyster.v9_M.fa.s23.2.7.7.80.10.50.500.1.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: scaffold471
Parameters: 2 7 7 80 10 50 500
Length:  1282308

Tables:   1   2   3   4   

This is table  1  of  4  ( 419 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)
347--1143	172	4.6	172	96	0	1382	34	15	19	30	1.93
1152--1251	8	12.5	8	84	0	83	32	40	28	0	1.57
1157--1250	16	5.9	16	88	0	125	32	41	25	0	1.56
1152--1251	24	4.2	24	80	5	103	32	40	28	0	1.57
7490--7514	1	25.0	1	100	0	50	0	0	0	100	0.00
24292--24324	16	2.1	16	94	0	57	33	24	42	0	1.55
27387--27413	14	1.9	14	100	0	54	55	14	7	22	1.64
35855--36681	41	20.0	40	81	8	801	34	18	21	25	1.96
46922--47121	23	8.7	23	74	12	171	20	24	13	42	1.88
46922--47121	47	4.4	47	73	12	173	20	24	13	42	1.88
52760--52816	19	3.0	19	94	5	98	31	15	19	33	1.93
53651--54007	180	2.0	182	97	2	666	35	15	18	29	1.92
54382--54436	2	27.5	2	100	0	110	0	50	0	49	1.00
58425--58465	2	20.5	2	100	0	82	0	51	0	48	1.00
63223--63490	133	2.0	134	98	0	520	30	19	20	29	1.97
63776--63842	32	2.1	32	97	0	125	32	23	17	25	1.97
71303--71327	12	2.1	12	100	0	50	16	0	16	68	1.22
73043--73087	8	5.6	8	89	0	72	0	35	22	42	1.54
73043--73090	4	12.0	4	78	8	53	0	33	22	43	1.54
74363--74409	24	2.0	24	87	8	69	53	4	2	40	1.32
75433--75562	51	2.5	51	94	0	224	37	15	18	28	1.91
76383--76452	24	3.0	23	78	10	81	30	21	24	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
76437--76693	59	4.4	59	94	0	442	27	19	23	29	1.98
79232--79268	16	2.3	15	86	13	56	27	16	32	24	1.96
80487--80521	17	2.1	17	94	0	61	28	20	25	25	1.99
84460--84599	70	2.0	70	88	0	208	28	17	20	34	1.95
84974--85216	117	2.1	118	92	1	407	50	12	12	24	1.74
88289--88327	16	2.3	18	86	8	55	82	0	15	2	0.79
89223--89247	12	2.1	12	100	0	50	28	8	24	40	1.83
91185--91681	35	14.1	35	95	1	852	49	2	35	11	1.54
91548--91608	18	3.6	15	71	25	50	52	3	34	9	1.51
103856--104239	192	2.0	191	99	0	759	28	18	16	36	1.92
105393--105774	191	2.0	190	99	0	755	34	17	14	33	1.90
107217--107248	11	2.9	11	100	0	64	15	18	37	28	1.92
118156--118191	2	18.0	2	100	0	72	50	0	50	0	1.00
119125--119219	32	3.0	32	93	0	154	33	17	12	35	1.88
134385--134436	2	26.0	2	100	0	104	50	0	50	0	1.00
134677--134719	4	10.8	4	100	0	86	76	23	0	0	0.78
134906--135405	251	2.0	251	100	0	1000	33	19	15	31	1.93
153842--154014	38	4.6	35	72	8	103	31	17	12	38	1.87
155058--155156	32	3.1	32	97	0	189	28	16	17	38	1.91
155229--155273	21	2.1	21	100	0	90	40	26	17	15	1.90
157277--157320	23	1.9	23	90	0	70	29	11	25	34	1.91
158163--158208	2	23.0	2	100	0	92	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
158328--158354	2	13.5	2	100	0	54	51	0	48	0	1.00
158422--158460	2	19.5	2	100	0	78	48	0	51	0	1.00
160238--160264	2	13.5	2	100	0	54	0	48	0	51	1.00
161537--161574	16	2.5	15	86	4	58	15	39	7	36	1.77
161579--161672	2	47.5	2	89	6	147	1	47	1	50	1.15
161763--161793	16	1.9	16	100	0	62	41	38	6	12	1.69
166150--166208	25	2.3	25	80	14	66	28	18	1	50	1.56
177771--177818	2	24.0	2	100	0	96	0	50	0	50	1.00
178022--178149	2	63.0	2	76	7	89	8	43	4	42	1.56
178739--179111	184	2.0	187	89	5	576	36	13	17	31	1.89
184155--184195	2	20.5	2	90	9	66	0	48	2	48	1.14
184155--184205	16	3.3	16	89	5	70	0	45	7	47	1.32
184736--184783	2	24.0	2	100	0	96	50	0	50	0	1.00
185416--185495	35	2.3	35	77	0	88	36	31	12	20	1.89
185675--185754	31	2.6	31	79	0	97	33	32	12	21	1.91
186407--186465	26	2.3	26	96	0	109	38	0	11	49	1.40
187754--187800	2	23.5	2	100	0	94	0	48	0	51	1.00
190824--190849	2	13.0	2	100	0	52	0	50	0	50	1.00
193689--193719	2	15.5	2	100	0	62	51	0	48	0	1.00
194779--194848	2	35.0	2	100	0	140	50	0	50	0	1.00
197136--197242	21	5.0	21	76	10	108	29	26	23	20	1.99
199820--199972	75	2.0	75	93	0	261	28	16	13	41	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
200677--200722	2	23.5	2	95	4	85	50	0	50	0	1.00
200339--200708	198	1.9	198	96	0	686	30	17	29	22	1.96
205685--205825	8	17.6	8	81	5	160	51	26	1	20	1.55
205685--205825	12	11.8	12	88	3	160	51	26	1	20	1.55
205685--205825	20	7.0	20	85	5	160	51	26	1	20	1.55
208346--208398	2	26.5	2	100	0	106	49	0	50	0	1.00
210016--210645	50	12.6	50	91	2	946	41	6	23	29	1.78
214278--214334	2	28.5	2	100	0	114	50	0	49	0	1.00
226582--226626	2	22.5	2	100	0	90	48	0	51	0	1.00
226800--226870	4	17.8	4	100	0	142	25	25	0	49	1.51
227523--228320	267	3.0	267	99	0	1560	33	11	19	35	1.88
228818--228863	4	11.0	4	86	9	65	71	0	2	26	0.97
230956--230989	2	17.0	2	100	0	68	50	0	50	0	1.00
234039--234347	62	5.0	62	95	2	545	44	14	10	31	1.79
239783--239809	10	2.7	10	100	0	54	92	0	0	7	0.38
250999--251110	53	2.1	55	93	6	194	38	14	9	37	1.79
251396--251430	3	11.7	3	100	0	70	65	0	34	0	0.93
261854--261892	16	2.5	15	87	4	51	76	0	5	17	0.96
265902--266248	175	2.0	174	98	0	658	22	16	23	37	1.93
267263--268388	166	6.8	167	90	1	1755	39	14	16	29	1.89
268412--268469	4	14.5	4	92	0	71	34	25	39	0	1.56
268412--268477	16	4.1	16	88	0	105	36	25	37	0	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
268412--268461	20	2.5	20	93	0	91	36	26	38	0	1.57
268415--268478	8	8.0	8	83	0	74	37	25	37	0	1.56
268419--268478	4	15.0	4	92	0	57	38	25	36	0	1.56
270048--270121	20	3.7	20	68	13	71	27	9	16	47	1.77
270048--270117	10	7.0	10	74	11	54	27	10	17	45	1.80
270050--270145	40	2.4	40	80	5	113	26	10	17	45	1.80
270865--270900	2	18.0	2	100	0	72	0	50	0	50	1.00
271289--271318	2	15.0	2	100	0	60	0	50	0	50	1.00
271434--271464	2	15.5	2	100	0	62	0	51	0	48	1.00
271606--271857	134	1.9	134	89	1	398	32	20	23	23	1.98
272519--272696	10	17.7	10	68	13	80	46	18	11	23	1.82
282347--282371	13	1.9	13	100	0	50	40	36	16	8	1.77
283072--284692	303	5.1	311	86	7	2143	27	20	23	29	1.99
283619--284692	325	3.4	326	86	7	1689	28	20	23	28	1.99
286357--286435	4	19.8	4	85	0	68	0	7	55	36	1.28
286357--286435	6	13.2	6	82	0	68	0	7	55	36	1.28
287247--287282	2	18.0	2	94	0	63	50	2	47	0	1.15
290587--290676	21	4.3	21	88	0	135	34	16	15	33	1.91
290948--290998	21	2.4	21	86	0	66	39	21	9	29	1.85
291291--291347	21	2.7	21	94	0	96	36	14	14	35	1.86
303826--305144	433	3.0	433	91	1	2026	34	16	19	29	1.94
307276--308186	434	2.1	432	86	3	1253	35	16	18	29	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
308313--308365	3	17.7	3	100	0	106	67	0	0	32	0.91
308733--309726	433	2.3	430	83	3	1230	32	16	19	32	1.93
309867--310358	50	9.0	57	82	11	556	49	15	16	19	1.80
309871--310250	107	3.6	103	87	9	502	50	15	16	18	1.78
310031--310358	58	5.9	58	80	13	375	48	15	16	19	1.81
309981--310358	108	3.5	108	89	4	530	48	15	16	19	1.81
310737--310774	4	9.8	4	88	5	60	50	21	28	0	1.49
314450--314502	22	2.4	22	80	0	61	39	13	28	18	1.88
314567--314620	11	4.9	11	90	0	81	29	29	9	31	1.88
317198--317299	50	2.0	50	96	0	186	41	18	19	20	1.91

Tables:   1   2   3   4