oyster.v9_M.fa.s59.2.7.7.80.10.50.500.1.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: scaffold448
Parameters: 2 7 7 80 10 50 500
Length:  1018568

Tables:   1   2   3   

This is table  1  of  3  ( 276 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)
3242--3267	13	2.0	13	100	0	52	38	0	23	38	1.55
16107--16243	67	2.0	67	94	2	238	30	10	10	47	1.73
24542--24632	29	3.1	29	98	0	173	28	19	15	36	1.92
31973--32317	180	1.9	180	94	1	611	30	15	17	36	1.91
32805--32847	4	10.8	4	89	0	50	0	48	25	25	1.51
32808--32861	20	2.7	20	82	0	54	1	44	24	29	1.64
36086--36448	166	2.2	164	81	6	414	31	17	14	37	1.89
40665--40720	2	28.0	2	92	0	94	1	50	1	46	1.22
43549--43629	29	2.8	29	94	0	144	19	23	13	43	1.87
45029--45069	21	2.0	21	86	13	59	34	0	4	60	1.18
48073--48110	2	19.5	2	94	5	69	0	52	0	47	1.00
51650--51737	42	2.1	42	91	0	140	35	18	20	26	1.95
53445--53551	6	17.8	6	80	0	115	30	40	0	28	1.63
53442--53530	15	6.1	15	81	7	121	31	42	0	25	1.55
53448--53527	27	3.0	27	98	0	151	31	42	0	26	1.56
62047--62076	1	30.0	1	100	0	60	0	100	0	0	0.00
62175--63006	169	4.9	168	88	2	1175	33	18	18	29	1.94
62081--63009	169	5.5	167	85	5	1043	32	18	18	30	1.95
64085--64142	2	29.0	2	100	0	116	50	50	0	0	1.00
65219--65248	15	2.0	15	100	0	60	40	20	13	26	1.89
69180--69210	8	3.9	8	91	0	53	41	25	32	0	1.56
69977--70318	161	2.1	161	91	0	567	35	19	15	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
70611--70654	3	14.7	3	85	0	61	34	36	0	29	1.58
83978--84030	24	2.2	24	87	9	74	13	3	1	81	0.92
83980--84026	16	2.9	16	78	12	51	14	4	2	78	0.99
83978--84030	11	4.5	12	81	9	65	13	3	1	81	0.92
84582--84621	2	20.0	2	94	0	71	0	50	2	47	1.14
85070--85107	20	1.9	20	94	0	67	23	13	26	36	1.91
92449--92474	3	8.7	3	100	0	52	34	30	0	34	1.58
94315--94403	44	2.0	44	100	0	178	31	22	6	39	1.80
96909--96934	11	2.4	11	100	0	52	0	0	15	84	0.62
110738--110769	13	2.5	13	94	0	55	18	0	0	81	0.70
119572--119608	18	2.1	18	100	0	74	43	10	18	27	1.83
120435--121145	166	4.3	166	93	1	1176	34	15	21	29	1.94
120430--121145	331	2.2	333	92	2	1197	33	15	21	29	1.94
130165--130214	21	2.4	21	83	6	57	2	6	12	80	0.98
141943--141996	2	27.0	2	100	0	108	50	50	0	0	1.00
145745--145774	4	7.5	4	100	0	60	0	50	23	26	1.50
146304--146698	165	2.4	164	88	3	564	36	12	17	32	1.88
146335--146698	164	2.2	163	88	5	536	38	12	17	31	1.86
146746--147044	134	2.2	135	83	7	367	27	21	26	25	1.99
157145--157193	2	24.5	2	100	0	98	51	0	0	48	1.00
159356--159400	21	2.1	21	91	0	72	26	24	31	17	1.97
179650--179783	67	2.0	67	94	2	234	49	11	14	24	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
181270--181332	31	2.1	31	90	3	101	23	23	31	20	1.98
182683--182775	48	1.9	48	82	4	116	53	13	10	21	1.70
183868--183953	38	2.3	38	87	4	120	30	16	25	27	1.97
185505--185791	108	2.7	108	79	3	283	27	17	17	37	1.92
186455--186555	33	3.1	33	88	0	157	13	11	12	61	1.57
186473--186526	15	3.1	18	68	26	53	12	9	11	66	1.44
186918--186995	24	3.2	24	83	0	84	10	21	15	52	1.72
201780--201815	16	2.2	16	90	0	54	33	30	36	0	1.58
206895--207185	161	1.8	161	82	5	374	38	17	12	30	1.88
208836--208865	14	2.1	14	93	0	51	40	30	13	16	1.87
210446--210550	21	5.0	21	77	0	102	34	24	20	20	1.96
210743--210888	21	7.0	21	73	9	118	39	15	25	19	1.91
210762--210877	42	2.8	42	88	2	162	38	18	25	18	1.92
210743--210888	63	2.3	63	80	4	152	39	15	25	19	1.91
211842--211925	21	4.0	21	83	6	107	41	16	23	17	1.89
211852--211969	42	2.7	45	86	3	161	42	17	21	18	1.89
212216--212589	124	3.0	124	96	2	662	28	11	15	44	1.80
223768--223814	24	2.0	24	86	0	67	31	12	17	38	1.87
224431--224474	16	2.8	16	80	10	54	36	36	27	0	1.57
226078--226102	13	1.9	13	100	0	50	40	4	8	48	1.51
241844--241877	2	17.0	2	93	0	59	47	0	2	50	1.16
253719--253761	2	21.5	2	100	0	86	0	48	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
253983--254205	112	2.0	112	94	0	392	34	17	18	30	1.94
255078--255118	17	2.6	16	88	7	57	0	9	2	87	0.62
255216--255256	11	3.7	11	93	0	73	31	9	31	26	1.89
255397--255435	11	3.6	11	82	6	53	30	23	7	38	1.83
269284--269308	11	2.3	11	100	0	50	44	16	0	40	1.47
287199--287240	12	3.4	12	93	6	75	90	9	0	0	0.45
287199--287240	13	3.3	13	90	3	68	90	9	0	0	0.45
293714--294114	201	2.0	200	99	0	784	33	13	14	38	1.86
297016--297056	17	2.4	17	87	0	55	43	2	4	48	1.37
303455--303592	66	2.1	66	97	0	258	16	21	13	48	1.80
304290--304502	69	3.1	69	93	2	374	15	21	13	48	1.80
320262--320394	51	2.6	52	95	1	232	46	16	20	16	1.84
322154--322217	31	2.1	30	83	11	78	45	15	12	26	1.82
322953--323016	31	2.1	30	83	11	78	43	14	14	28	1.83
323613--323653	21	2.0	21	90	0	64	75	2	7	14	1.12
326444--326483	15	2.7	15	88	3	64	35	10	7	47	1.65
326531--326562	14	2.3	14	100	0	64	46	6	6	40	1.54
328735--328869	65	2.0	66	92	4	227	25	20	28	24	1.99
329024--329220	59	3.3	59	90	2	306	32	20	19	26	1.97
334492--334639	40	3.9	40	75	16	161	27	10	14	47	1.77
334517--334583	32	2.1	31	86	8	91	28	8	17	44	1.79
334548--334663	40	2.9	41	79	7	130	28	10	15	45	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
335375--335498	62	2.0	62	93	0	212	49	17	6	26	1.71
335467--335513	24	2.0	24	82	0	58	46	21	6	25	1.74
335535--335601	24	2.8	24	86	0	89	44	19	14	20	1.86
335986--336017	16	2.0	16	93	0	55	15	12	21	50	1.77
346397--346644	104	2.4	103	89	2	372	40	11	14	32	1.83
346521--347136	176	3.5	176	89	5	905	42	14	13	30	1.83
354094--354126	2	16.5	2	100	0	66	51	0	48	0	1.00
367624--367655	2	16.0	2	100	0	64	0	50	0	50	1.00
370616--370657	16	2.6	16	85	7	59	50	38	2	9	1.48
377598--377651	27	2.0	27	92	0	90	44	33	7	14	1.73
389604--389641	14	2.7	15	88	11	55	44	5	13	36	1.66
402127--402183	4	14.2	4	100	0	114	50	0	24	24	1.49
404208--404261	2	27.0	2	100	0	108	50	0	50	0	1.00
409461--409494	2	17.0	2	100	0	68	0	50	0	50	1.00
410560--410592	17	1.9	17	100	0	66	24	21	24	30	1.99
416649--416689	16	2.4	18	88	12	68	4	39	0	56	1.21
420091--420125	2	17.5	2	100	0	70	0	51	0	48	1.00
422986--423122	22	6.2	22	84	3	177	16	31	11	40	1.85
427230--427265	2	18.0	2	100	0	72	0	50	0	50	1.00
433405--433449	21	2.1	21	87	0	63	40	26	11	22	1.87
434535--434581	15	3.1	15	90	0	76	38	8	6	46	1.60
435110--435134	13	1.9	13	100	0	50	40	8	0	52	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
439484--439526	22	2.0	22	90	0	68	20	37	9	32	1.85
439509--439561	12	4.6	12	76	9	65	20	32	7	39	1.81
439487--439561	34	2.2	34	97	0	141	21	34	8	36	1.83
439748--440005	36	7.2	36	64	23	141	31	21	8	39	1.83
439681--440194	72	7.1	72	96	0	913	29	22	9	38	1.86
440081--440111	16	1.9	16	93	0	53	25	29	3	41	1.71
447666--447708	8	5.4	8	85	0	59	2	34	25	37	1.69
447661--447711	12	4.2	12	82	0	57	1	33	25	39	1.67
447719--447986	146	1.8	146	88	3	414	29	17	23	29	1.97
477716--477745	15	2.0	15	93	0	51	36	6	13	43	1.70

Tables:   1   2   3