oyster.v9_M.fa.s53.2.7.7.80.10.50.500.1.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: scaffold82
Parameters: 2 7 7 80 10 50 500
Length:  1057086

Tables:   1   2   3   

This is table  1  of  3  ( 323 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)
185--260	22	3.5	21	78	1	80	13	38	14	34	1.85
12374--12587	31	6.9	31	89	0	320	35	7	21	36	1.81
12374--12587	93	2.3	93	93	0	356	35	7	21	36	1.81
13842--13998	32	4.9	31	96	1	233	42	22	15	19	1.89
17170--17590	165	2.5	165	80	4	458	30	18	14	36	1.91
33807--34123	32	9.9	32	86	8	430	40	22	16	20	1.91
37964--38096	32	4.0	33	91	5	207	24	15	9	51	1.72
37963--38096	68	2.0	64	91	5	214	24	15	8	50	1.73
39237--39290	26	2.1	26	92	0	90	46	7	12	33	1.70
51191--51461	24	11.3	24	77	11	227	32	12	13	41	1.83
51253--51365	35	3.1	35	83	12	154	30	14	13	41	1.84
51253--51361	40	2.9	40	89	6	165	31	14	13	40	1.85
51328--51448	47	2.6	47	95	1	215	31	10	14	43	1.79
51191--51461	71	3.8	71	72	15	216	32	12	13	41	1.83
52500--52573	2	37.0	2	100	0	148	0	50	0	50	1.00
76949--77291	31	11.1	31	88	1	465	44	8	14	32	1.75
81927--81970	2	22.0	2	100	0	88	0	50	0	50	1.00
83321--83378	2	29.0	2	100	0	116	0	50	0	50	1.00
84030--84072	9	4.9	9	85	5	61	6	0	13	79	0.93
84033--84071	8	4.8	8	90	6	60	7	0	12	79	0.93
84032--84074	17	2.5	17	92	0	77	6	0	16	76	0.99
100606--100645	22	1.9	22	90	10	66	27	10	15	47	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
104542--104590	25	2.0	25	83	0	62	59	4	12	24	1.50
113547--113583	2	18.5	2	100	0	74	48	0	51	0	1.00
119526--119586	2	30.5	2	100	0	122	0	50	0	49	1.00
121733--121774	2	21.0	2	100	0	84	0	0	50	50	1.00
125103--125147	16	2.8	16	82	0	63	31	26	40	2	1.68
128637--129112	32	14.9	31	73	6	243	38	13	14	33	1.86
128652--129172	64	8.2	64	90	0	726	37	13	14	34	1.85
128672--129172	192	2.6	192	92	1	803	38	13	14	34	1.85
129137--129199	32	2.1	29	82	11	74	33	12	15	38	1.86
129146--129226	32	2.5	32	86	4	110	37	12	11	39	1.78
128876--129249	96	4.0	92	71	13	233	37	12	14	36	1.84
141888--141912	12	2.1	12	100	0	50	8	0	8	84	0.79
149080--149120	1	41.0	1	95	0	73	2	0	0	97	0.17
153559--153605	2	23.5	2	100	0	94	48	0	51	0	1.00
166607--166684	38	2.1	38	87	0	111	43	15	33	7	1.75
172114--172151	21	1.9	19	85	15	51	44	10	13	31	1.77
175480--175509	15	2.0	15	93	0	51	16	13	30	40	1.87
175660--175734	2	38.0	2	89	2	116	48	4	48	0	1.20
175948--176024	2	39.0	2	70	7	50	50	6	40	2	1.42
176087--176137	2	25.5	2	100	0	102	49	0	50	0	1.00
183327--183379	2	26.5	2	100	0	106	0	49	0	50	1.00
183283--183364	24	3.4	24	76	21	75	8	41	0	50	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
204156--204242	29	3.0	29	89	1	140	39	6	21	32	1.80
207273--207302	7	4.4	7	95	4	53	0	0	13	86	0.57
213739--213768	9	3.3	9	100	0	60	56	10	0	33	1.32
220284--220347	2	32.5	2	96	3	121	0	50	0	50	1.00
227546--227619	22	3.4	22	98	0	139	44	9	10	35	1.72
227714--227792	38	2.1	38	92	4	133	35	17	10	36	1.84
234112--234153	2	21.0	2	100	0	84	0	50	0	50	1.00
236919--236963	14	3.2	14	96	0	81	35	13	20	31	1.91
248794--248820	2	13.5	2	100	0	54	0	51	0	48	1.00
250069--250114	2	23.0	2	100	0	92	0	50	0	50	1.00
270230--270300	36	2.0	36	94	0	124	2	33	14	49	1.58
272283--272417	2	67.5	2	84	0	135	2	40	2	55	1.24
272291--272417	24	5.5	24	85	7	154	2	40	2	55	1.26
273924--273954	1	31.0	1	100	0	62	0	100	0	0	0.00
274392--274479	4	22.0	4	95	0	131	0	44	5	50	1.26
274392--274479	6	14.7	6	90	0	131	0	44	5	50	1.26
277999--278120	63	1.9	63	94	0	217	31	27	19	21	1.97
286448--286497	4	12.5	4	95	0	73	0	32	24	44	1.54
303088--303250	57	2.9	57	89	0	263	36	28	12	22	1.90
303479--303661	71	2.8	65	85	6	226	37	25	12	25	1.91
303769--303813	19	2.4	20	85	7	58	4	17	20	57	1.56
303778--303815	19	2.0	19	90	10	60	0	18	21	60	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
305711--306106	57	7.0	57	81	7	441	36	26	12	24	1.92
305719--306106	114	3.4	114	84	7	515	36	26	12	24	1.92
305933--306027	49	1.9	49	91	0	154	36	27	9	26	1.87
305876--306082	106	1.9	108	93	3	355	36	26	11	25	1.90
305983--306102	61	2.0	61	89	0	186	36	25	13	24	1.92
312290--312343	2	27.5	2	96	3	101	0	50	0	50	1.00
315765--315793	14	2.1	14	100	0	58	34	0	6	58	1.25
324249--324412	28	5.8	26	72	17	114	34	10	20	34	1.87
324254--324414	60	2.8	58	85	11	222	35	10	20	33	1.87
324303--324412	28	4.0	27	80	7	123	31	10	22	35	1.87
337945--338155	81	2.6	81	96	0	386	40	12	17	28	1.87
345918--345955	19	1.9	20	84	5	51	36	10	7	44	1.68
350488--350562	2	37.5	2	100	0	150	49	0	50	0	1.00
351755--351874	23	5.2	22	74	7	96	24	3	0	71	1.06
351776--351821	19	2.4	19	89	7	67	21	6	0	71	1.08
351788--351843	27	2.1	27	86	6	78	19	5	0	75	1.00
351796--351892	18	5.3	18	79	8	90	18	2	2	77	0.97
351794--351892	27	3.8	26	76	18	91	19	2	2	76	0.98
351767--351875	4	27.2	4	78	12	93	22	3	0	73	0.99
351767--351901	49	2.9	47	81	8	132	19	2	2	75	1.04
351815--351901	18	4.9	17	76	10	77	16	1	3	79	0.93
352616--352652	2	18.5	2	100	0	74	0	51	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
365391--365429	2	19.5	2	100	0	78	0	51	0	48	1.00
393702--393760	5	11.8	5	78	10	50	74	22	1	1	1.00
400654--400707	19	2.8	19	82	0	81	37	16	22	24	1.94
400727--400755	15	1.9	15	100	0	58	34	0	6	58	1.25
406404--406429	8	3.2	8	100	0	52	76	11	0	11	1.01
417667--417781	4	28.8	4	94	0	131	0	40	9	49	1.35
417976--418043	4	17.0	4	93	0	118	50	0	25	25	1.50
420135--420169	18	1.9	18	94	0	61	11	22	20	45	1.82
423339--423368	1	30.0	1	100	0	60	100	0	0	0	0.00
423466--423513	1	48.0	1	93	0	78	95	2	0	2	0.29
427690--427734	7	6.4	7	89	0	72	0	28	42	28	1.56
427939--429020	168	6.5	168	89	3	1562	30	18	18	32	1.95
449486--450837	134	10.1	134	81	2	1410	35	11	11	40	1.79
450919--451110	66	3.0	62	84	7	210	19	18	14	47	1.82
450990--451120	66	2.0	66	93	0	226	17	20	13	48	1.81
452399--452458	2	30.0	2	100	0	120	0	50	0	50	1.00
460071--461121	437	2.4	435	87	2	1437	35	16	17	30	1.92
462485--462522	16	2.4	16	95	0	67	0	42	21	36	1.53
465690--465763	37	2.0	37	89	0	112	29	16	12	41	1.84
465689--465879	21	9.0	21	67	19	94	31	17	13	37	1.88
465781--465835	28	2.0	28	96	0	101	29	20	14	36	1.92
465809--465892	42	2.0	42	97	0	159	35	13	16	34	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
465823--465891	21	3.3	21	77	0	84	36	11	15	36	1.84
465924--465977	21	2.6	21	90	0	90	37	16	22	24	1.94
466047--466104	21	2.8	21	75	0	71	31	18	13	36	1.90
466047--466120	21	3.5	21	72	7	69	28	20	13	37	1.90
471983--472034	24	2.2	24	82	6	61	15	15	7	61	1.55
477821--478585	381	2.0	382	99	0	1505	31	17	18	31	1.95
479681--481105	442	3.3	437	84	3	1787	35	15	16	32	1.91
481417--481685	66	4.0	66	93	2	421	15	20	14	49	1.80
481417--481685	138	2.0	132	90	4	421	15	20	14	49	1.80
481856--482403	166	3.3	165	87	1	738	35	18	21	23	1.96

Tables:   1   2   3