oyster.v9_M.fa.s47.2.7.7.80.10.50.500.1.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: scaffold168
Parameters: 2 7 7 80 10 50 500
Length:  1096678

Tables:   1   2   3   

This is table  1  of  3  ( 245 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)
5104--5209	2	56.0	2	73	14	91	47	5	0	46	1.32
8576--8620	19	2.4	19	88	0	63	60	0	35	4	1.17
21185--21262	2	39.0	2	94	0	138	50	0	50	0	1.00
22290--22355	29	2.3	29	97	0	123	31	25	16	25	1.96
26080--26134	28	2.0	28	86	13	78	61	10	10	16	1.55
32557--32588	16	2.0	16	93	0	55	15	15	18	50	1.79
36509--36576	21	3.2	21	83	4	66	33	30	19	16	1.93
38002--38027	12	2.2	12	100	0	52	42	26	30	0	1.56
42792--42978	4	46.8	4	94	2	286	49	4	25	20	1.67
50301--50357	2	28.5	2	100	0	114	50	0	49	0	1.00
51493--51542	22	2.3	22	82	6	66	10	36	16	38	1.82
52966--53000	16	2.2	16	94	0	61	28	22	20	28	1.98
54155--54186	14	2.3	14	94	0	55	9	50	9	31	1.66
55138--55230	32	2.9	32	88	0	141	25	17	25	31	1.97
56338--56371	16	2.1	16	100	0	68	35	5	20	38	1.77
62657--62822	89	1.9	89	93	2	289	31	28	15	24	1.96
74512--74542	16	1.9	16	93	0	53	35	25	38	0	1.56
78614--78677	31	2.1	31	93	0	110	34	20	6	39	1.78
84269--84622	177	2.0	176	99	0	699	32	14	17	35	1.90
103403--103449	23	2.0	24	87	4	69	40	17	14	27	1.89
128521--128553	11	3.0	11	95	0	57	33	21	18	27	1.96
136123--136166	19	2.3	19	80	0	52	79	13	4	2	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
138021--138422	200	2.0	200	100	0	804	20	27	13	38	1.90
138406--138455	2	25.5	2	95	4	93	0	50	0	50	1.00
145938--145987	25	2.0	25	92	0	82	38	10	14	38	1.79
148762--148802	20	2.0	20	100	0	82	34	9	9	46	1.70
153659--153698	20	2.0	21	90	5	64	30	7	22	40	1.81
156587--157257	338	2.0	333	97	1	1270	30	17	18	34	1.94
160513--160549	18	2.1	18	89	0	56	29	13	10	45	1.77
170114--170146	16	2.1	16	94	0	57	18	3	18	60	1.49
177401--177437	16	2.3	16	90	0	56	35	29	16	18	1.93
177427--177540	40	2.9	40	85	0	156	49	22	7	21	1.73
177544--177654	41	2.7	40	82	6	116	40	20	17	21	1.91
180258--180293	17	2.1	17	94	0	63	25	5	16	52	1.65
180683--180858	75	2.3	76	91	3	277	14	24	27	32	1.95
183707--183750	21	2.1	22	91	8	74	18	13	18	50	1.79
183755--183798	16	2.8	16	82	0	61	18	20	29	31	1.96
205925--206451	167	3.1	169	80	8	550	33	16	17	33	1.92
210199--210224	13	2.0	13	100	0	52	30	15	23	30	1.95
213061--214502	436	3.3	439	84	5	1729	28	16	16	37	1.91
218105--218146	8	5.4	8	88	5	68	0	33	26	40	1.56
234303--234726	38	11.2	38	94	1	742	45	15	8	30	1.75
239120--239435	146	2.2	146	84	1	409	33	16	17	32	1.92
241564--241642	37	2.1	37	97	0	149	31	18	26	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
242192--242272	43	1.9	42	94	5	137	28	9	6	55	1.56
247191--247258	2	34.0	2	100	0	136	0	50	0	50	1.00
252707--252744	16	2.4	16	86	4	51	31	31	23	13	1.93
262438--262463	1	26.0	1	100	0	52	100	0	0	0	0.00
263813--263870	28	2.1	28	93	0	98	27	8	10	53	1.64
265477--265539	21	3.0	21	84	9	92	25	23	36	14	1.93
269458--269651	68	2.9	68	76	5	178	30	12	14	41	1.83
269458--269665	34	6.1	34	74	2	150	30	13	14	41	1.84
270601--270639	15	2.5	15	91	8	60	69	28	0	2	1.02
278526--279866	53	25.3	53	94	0	2187	22	24	22	30	1.99
280179--280356	95	1.9	95	86	0	257	35	23	11	29	1.90
280733--280871	69	2.0	67	84	2	179	37	21	9	31	1.85
282315--282349	18	1.9	18	94	0	61	25	22	8	42	1.82
282493--282543	16	3.2	16	97	0	93	25	25	21	27	1.99
283428--283544	30	3.9	30	83	4	155	26	26	22	24	2.00
286129--286161	13	2.6	13	90	4	50	0	0	15	84	0.61
287599--287699	53	1.9	53	83	0	130	37	11	7	42	1.71
288623--288673	20	2.5	20	81	6	68	39	15	11	33	1.84
311713--311744	16	2.0	16	100	0	64	37	6	43	12	1.68
314918--314947	15	2.0	15	93	0	51	26	6	10	56	1.57
315361--315385	13	1.9	13	100	0	50	8	0	0	92	0.40
320650--320706	18	3.0	18	76	14	69	50	24	7	17	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
320650--320715	21	3.3	20	79	10	82	51	22	7	18	1.71
320733--320831	21	4.8	21	75	6	85	50	24	4	21	1.65
321488--321554	7	9.6	7	80	0	80	35	14	23	25	1.94
323206--323248	2	21.5	2	100	0	86	48	0	51	0	1.00
323356--323540	93	2.0	92	98	0	352	32	17	28	21	1.95
323546--323579	2	16.5	2	93	6	59	0	50	0	47	1.01
327735--327801	7	9.6	7	83	0	89	26	22	14	35	1.93
327735--327801	21	3.2	21	86	0	98	26	22	14	35	1.93
328636--328681	22	2.1	22	83	0	56	52	10	6	30	1.62
330328--330362	18	1.9	18	88	0	52	77	22	0	0	0.78
330834--330865	1	32.0	1	93	0	55	96	3	0	0	0.20
337342--337385	2	22.0	2	100	0	88	0	50	0	50	1.00
341344--342516	438	2.7	432	88	3	1717	31	18	15	34	1.92
358684--358880	63	3.1	63	96	1	351	48	13	19	17	1.80
361091--361414	179	1.8	179	82	6	424	29	19	22	29	1.98
371878--371939	25	2.5	25	86	5	81	35	8	8	48	1.62
379551--379585	18	1.9	18	94	0	61	42	0	45	11	1.40
398593--398617	2	12.5	2	100	0	50	52	0	48	0	1.00
405753--405865	20	5.7	20	93	0	199	37	16	5	40	1.72
410675--410708	8	4.2	8	96	0	59	35	26	38	0	1.57
410675--410713	12	3.2	12	85	0	51	35	25	38	0	1.56
412838--412863	2	13.0	2	100	0	52	0	50	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
414431--414469	16	2.4	16	86	0	51	2	0	20	76	0.90
416732--416799	33	2.1	33	100	0	136	42	17	16	23	1.88
418703--418818	38	3.1	38	100	0	232	32	12	23	31	1.92
424267--424299	9	3.7	9	91	0	57	0	0	15	84	0.61
426223--426262	15	2.7	15	92	0	62	2	0	15	82	0.77
427795--428195	200	2.0	200	100	0	802	38	14	17	28	1.89
434597--434638	4	10.8	4	89	5	50	0	40	26	33	1.56
434803--435613	166	4.9	166	97	1	1500	37	19	17	25	1.93
436333--436740	165	2.5	165	82	3	482	36	15	17	30	1.91
457557--457606	24	2.1	24	85	7	66	38	12	24	26	1.90
467377--467410	15	2.2	16	90	10	54	5	38	14	41	1.70
472245--472277	14	2.4	14	89	0	57	9	0	0	90	0.44
472782--472812	16	2.0	15	93	6	53	70	0	6	22	1.09
473937--473968	11	2.8	12	90	9	57	0	0	21	78	0.76
473937--473976	20	2.0	20	85	9	55	0	0	22	77	0.77
473941--473991	11	4.5	11	76	13	50	0	0	19	80	0.71
473937--473980	23	1.9	23	86	9	63	0	0	22	77	0.77
491664--491793	4	32.5	4	93	0	206	50	3	45	0	1.19
515376--515434	29	2.0	29	96	0	109	28	22	16	32	1.96
520536--520604	21	3.3	21	87	0	102	34	17	7	40	1.77
527744--527855	27	4.1	27	95	0	197	26	13	25	34	1.93
534238--534288	26	1.9	27	84	4	68	33	13	1	50	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
535528--535574	19	2.5	19	89	0	67	12	14	21	51	1.76
540137--540202	31	2.2	30	83	8	80	43	19	18	18	1.88
546360--546387	2	14.0	2	100	0	56	50	0	0	50	1.00
549715--549749	2	17.5	2	100	0	70	48	0	0	51	1.00
558121--558146	12	2.2	12	100	0	52	92	0	0	7	0.39
564814--564986	42	4.1	42	93	0	274	24	27	19	28	1.98
565332--565721	42	9.3	42	85	2	480	26	28	19	25	1.99
565498--565692	21	9.3	21	65	10	94	27	29	20	22	1.98
567194--567294	8	13.7	7	72	22	66	31	14	42	10	1.81
567201--567293	22	4.2	21	77	14	73	31	15	43	10	1.80

Tables:   1   2   3