oyster.v9_M.fa.s39.2.7.7.80.10.50.500.1.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: scaffold1174
Parameters: 2 7 7 80 10 50 500
Length:  1120009

Tables:   1   2   3   

This is table  1  of  3  ( 291 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)
4750--4776	1	27.0	1	100	0	54	0	0	100	0	0.00
10007--10036	15	2.0	15	93	0	51	36	23	20	20	1.95
10764--10940	44	4.0	44	100	0	354	48	20	13	18	1.81
15844--15924	29	2.8	29	75	17	87	44	16	19	19	1.87
17544--18015	164	2.8	165	81	8	517	40	13	15	30	1.86
19351--19604	127	2.0	127	86	4	352	34	16	14	34	1.89
33903--34005	51	2.0	51	100	0	206	45	7	13	33	1.72
38433--38506	38	1.9	37	82	15	89	39	22	12	25	1.89
39184--39221	20	1.9	20	94	0	67	34	15	0	50	1.45
42031--42082	18	2.9	18	79	0	68	25	5	36	32	1.80
45215--45258	21	2.1	21	100	0	88	20	18	11	50	1.77
56002--56028	12	2.2	12	100	0	54	37	25	14	22	1.93
65518--65597	36	2.2	36	88	4	117	32	37	11	18	1.87
65530--65598	12	5.8	12	72	6	59	31	36	13	18	1.89
66653--66936	36	7.9	36	96	0	433	24	13	22	39	1.90
67120--67416	149	2.0	148	100	0	585	28	14	12	43	1.83
85760--85801	21	2.0	22	90	4	68	38	14	16	30	1.89
86244--86315	36	2.0	36	97	0	135	36	34	11	18	1.86
86257--86316	18	3.3	18	65	9	50	38	31	11	18	1.87
86530--86583	2	27.0	2	100	0	108	50	0	50	0	1.00
86593--86621	2	14.5	2	100	0	58	48	0	51	0	1.00
93316--93363	25	2.0	25	91	4	80	0	22	8	68	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
93331--93375	21	2.2	20	88	4	63	2	20	8	68	1.27
93405--93474	11	6.5	11	69	12	56	1	24	12	61	1.40
93416--93459	20	2.2	20	83	0	52	2	25	11	61	1.41
93436--93489	22	2.5	22	93	0	90	0	22	9	68	1.17
98819--98858	1	40.0	1	89	0	53	92	0	7	0	0.38
98819--98873	14	3.9	14	87	2	56	87	1	10	0	0.63
111646--111677	14	2.3	14	94	0	55	40	18	9	31	1.83
135296--135537	117	2.1	118	96	1	443	37	13	10	38	1.79
137037--137072	18	2.0	18	100	0	72	38	16	5	38	1.72
142997--143101	21	5.0	21	96	0	192	40	14	25	19	1.89
145325--145367	18	2.4	18	81	11	52	53	4	11	30	1.57
150903--150960	28	2.1	28	100	0	116	31	10	17	41	1.83
154524--155372	437	1.9	436	83	5	1106	32	17	15	35	1.91
155987--156097	31	3.5	31	77	11	125	43	18	12	25	1.86
155989--156097	34	3.4	31	79	10	112	44	19	11	24	1.84
155987--156097	32	3.4	34	78	10	126	43	18	12	25	1.86
157526--157699	21	8.3	21	83	2	179	26	14	19	39	1.91
157526--157720	63	3.1	63	78	4	178	25	14	18	41	1.89
157526--157720	42	4.6	42	81	1	194	25	14	18	41	1.89
157832--157897	21	3.1	21	76	8	62	34	15	15	34	1.88
158303--158399	41	2.4	39	81	6	113	42	20	6	30	1.77
161106--161136	16	1.9	16	93	0	53	48	0	9	41	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
170682--170712	16	1.9	16	93	0	53	41	12	19	25	1.87
176989--177081	4	23.2	4	100	0	186	50	0	24	24	1.49
177756--177789	2	17.0	2	100	0	68	50	50	0	0	1.00
180283--180319	2	18.5	2	94	0	65	54	0	45	0	1.00
185115--185147	17	1.9	17	93	0	57	48	0	0	51	1.00
185967--186024	2	29.0	2	94	0	98	0	46	1	51	1.11
187450--187851	166	2.3	170	89	5	605	30	14	17	38	1.89
188020--188050	2	15.5	2	93	0	53	0	51	0	48	1.00
189971--190037	2	34.0	2	96	3	127	0	50	0	49	1.00
190214--190246	2	16.5	2	93	0	57	0	45	0	54	0.99
190913--190972	10	5.8	10	75	11	50	21	16	40	21	1.92
190913--191011	42	2.4	42	91	0	162	21	19	37	22	1.94
190986--191131	43	3.4	42	78	6	161	27	10	34	26	1.90
191073--191099	10	2.7	10	100	0	54	22	11	44	22	1.84
191093--191151	21	2.8	21	77	12	57	32	11	30	25	1.92
191112--191158	21	2.2	21	85	7	60	34	12	27	25	1.92
199472--199506	16	2.2	16	100	0	70	25	11	5	57	1.56
207060--207092	16	2.0	17	94	5	59	66	12	6	15	1.42
212264--212292	15	2.0	15	93	6	51	65	0	20	13	1.26
217359--217399	21	2.0	21	85	0	55	12	19	29	39	1.88
217659--217726	10	6.6	10	93	3	109	0	16	42	41	1.48
217893--217937	2	22.5	2	95	0	81	0	53	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
235362--235422	22	2.8	22	78	9	70	42	14	24	18	1.88
235415--235464	11	4.6	11	92	2	75	34	10	28	28	1.89
235535--235574	11	3.7	11	90	3	55	25	30	10	35	1.88
236272--236503	128	1.8	128	88	1	358	29	16	18	34	1.94
237776--237809	15	2.2	16	94	5	61	29	23	20	26	1.99
242890--242960	37	1.9	37	94	0	124	33	7	7	52	1.56
243840--243872	2	16.5	2	93	0	57	0	45	0	54	0.99
243872--243904	2	16.5	2	100	0	66	0	0	48	51	1.00
244678--244727	26	2.0	26	84	4	66	66	0	6	28	1.15
257383--257438	4	13.5	4	85	14	78	0	0	25	75	0.81
257379--257438	21	2.9	20	86	13	86	0	0	25	75	0.81
258174--258224	2	25.5	2	100	0	102	0	50	0	49	1.00
258743--258795	2	26.5	2	100	0	106	50	0	49	0	1.00
259350--259378	12	2.4	12	100	0	58	31	10	10	48	1.71
261557--261593	18	2.1	18	94	0	65	24	13	16	45	1.83
272952--273010	2	29.5	2	100	0	118	0	50	0	49	1.00
274088--274134	16	2.9	16	93	0	76	19	4	14	61	1.49
275963--275988	3	8.7	3	100	0	52	0	30	0	69	0.89
278509--278571	2	31.5	2	100	0	126	50	0	49	0	1.00
281620--281662	2	21.5	2	100	0	86	48	0	51	0	1.00
284271--284320	2	25.0	2	100	0	100	0	50	0	50	1.00
289156--289186	13	2.4	13	88	0	53	70	25	0	3	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
296160--296204	2	22.5	2	100	0	90	51	0	48	0	1.00
312208--312255	2	24.0	2	100	0	96	0	50	0	50	1.00
324167--324444	139	2.0	140	97	1	531	43	9	11	34	1.74
331740--331783	2	22.0	2	100	0	88	0	50	0	50	1.00
345085--345354	68	4.0	68	99	0	531	38	8	13	38	1.76
345844--345886	3	14.3	3	95	0	77	34	0	30	34	1.58
347404--347460	2	28.5	2	100	0	114	0	49	0	50	1.00
347797--347938	31	4.3	31	68	15	97	38	11	16	33	1.84
348074--348526	165	2.7	164	84	3	568	31	20	20	27	1.98
351523--351606	31	2.8	29	89	7	132	58	8	13	20	1.60
356659--356854	38	5.1	38	93	4	338	17	10	24	47	1.79
356659--356854	40	5.0	40	95	3	346	17	10	24	47	1.79
356659--356854	78	2.5	78	98	0	374	17	10	24	47	1.79
357072--357317	98	2.5	97	78	9	234	22	13	23	39	1.90
357054--357347	103	3.0	101	76	12	306	21	14	24	39	1.91
360443--360476	16	2.1	16	94	0	59	47	0	50	2	1.16
364081--364134	2	27.0	2	100	0	108	0	50	0	50	1.00
364186--364241	2	27.0	2	89	7	85	3	50	0	46	1.19
365816--365842	12	2.2	12	100	0	54	40	7	14	37	1.74
366652--366685	16	2.1	16	88	5	50	73	0	2	23	0.97
367546--367576	14	2.2	14	100	0	62	41	22	6	29	1.78
367693--367759	35	1.9	35	100	0	134	38	11	13	35	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
368497--368896	200	2.0	200	100	0	800	33	18	18	30	1.95
374628--374816	102	1.9	101	88	6	269	30	24	8	36	1.85
375122--375177	2	28.0	2	100	0	112	0	50	0	50	1.00
375886--375921	2	18.0	2	100	0	72	50	0	50	0	1.00
379889--379923	8	4.5	8	92	7	63	37	25	37	0	1.57
379878--379923	12	3.9	12	82	2	58	39	26	34	0	1.57
379878--379923	16	3.2	15	85	14	62	39	26	34	0	1.57
393062--393155	10	9.0	10	86	9	125	41	30	18	9	1.82
393062--393158	30	3.0	32	89	5	144	41	30	18	9	1.82
393894--393937	2	22.0	2	95	0	79	0	52	0	47	1.00

Tables:   1   2   3