oyster.v9_M.fa.s42.2.7.7.80.10.50.500.1.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: scaffold733
Parameters: 2 7 7 80 10 50 500
Length:  1111331

Tables:   1   2   3   

This is table  1  of  3  ( 320 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)
10585--10622	2	19.0	2	100	0	76	0	0	50	50	1.00
10622--10676	2	27.5	2	100	0	110	49	0	50	0	1.00
10776--10806	11	2.8	11	95	0	53	61	0	3	35	1.12
13989--14020	11	3.0	11	95	4	57	93	0	0	6	0.34
13988--14019	16	2.0	16	93	0	55	90	0	0	9	0.45
27706--27736	9	3.4	9	90	0	53	0	6	35	58	1.24
30903--30996	33	2.8	33	98	1	179	27	19	15	37	1.92
32321--32483	78	2.1	78	82	8	199	25	15	18	39	1.90
36887--37520	166	3.8	166	93	2	1046	38	15	16	29	1.90
37544--37585	20	2.1	20	90	0	66	38	23	35	2	1.68
44370--44457	40	2.2	39	83	4	104	45	13	17	23	1.84
44375--44457	41	2.1	40	84	4	105	45	14	14	25	1.82
45213--45954	164	4.6	164	81	8	796	29	18	14	36	1.91
49360--49393	1	34.0	1	93	0	59	0	2	0	97	0.19
53106--53137	6	5.7	6	89	10	50	46	0	18	34	1.49
53105--53137	11	3.0	11	87	12	50	45	0	18	36	1.49
54007--54073	32	2.1	32	100	0	134	37	23	8	29	1.86
54468--54494	2	13.5	2	100	0	54	48	0	51	0	1.00
54911--54950	19	2.1	19	100	0	80	55	10	25	10	1.64
56005--56059	4	13.8	4	92	0	92	0	25	27	47	1.52
56064--56626	146	3.9	146	92	1	916	29	19	22	28	1.98
57679--57718	11	3.7	11	86	3	55	35	10	30	25	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59470--59501	11	2.9	11	95	0	55	34	9	28	28	1.88
59507--59545	11	3.6	11	82	6	53	30	23	7	38	1.83
59576--59619	18	2.5	18	92	3	72	43	0	0	56	0.99
64534--64577	2	22.0	2	100	0	88	0	50	0	50	1.00
64847--65290	165	2.7	165	87	1	620	29	16	15	38	1.89
71700--71752	2	26.5	2	100	0	106	50	0	49	0	1.00
72831--72860	15	2.0	15	93	0	51	6	23	13	56	1.60
80231--80550	64	5.0	64	94	0	525	46	16	14	22	1.83
82579--82603	2	12.5	2	100	0	50	48	0	0	52	1.00
87193--87222	15	2.0	15	93	0	51	10	26	33	30	1.89
93077--93140	32	2.0	32	96	0	119	29	15	28	26	1.96
95979--96019	19	2.2	19	95	0	73	65	14	9	9	1.46
116346--116392	21	2.2	21	92	0	76	31	17	17	34	1.92
119152--119203	2	26.0	2	90	0	77	48	0	50	1	1.12
124397--124564	57	3.1	57	83	15	262	19	16	14	50	1.79
124455--124556	50	2.0	50	94	3	179	17	17	15	49	1.81
124699--125686	433	2.3	431	88	2	1429	30	19	15	33	1.94
124699--125852	426	2.7	429	84	4	1416	31	19	15	32	1.94
126165--126992	430	1.9	431	89	2	1270	31	18	15	34	1.93
126189--127316	430	2.6	428	81	6	1026	31	19	15	33	1.93
127683--128701	432	2.4	432	88	4	1475	30	19	15	33	1.94
129653--129706	4	13.5	4	88	0	81	1	46	22	29	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
130280--130599	165	2.0	163	89	2	489	39	12	17	30	1.86
132732--132757	3	8.7	3	100	0	52	69	0	30	0	0.89
134463--135505	433	2.4	431	83	4	1232	33	16	19	31	1.94
135664--135736	36	2.0	36	97	0	137	36	19	23	20	1.95
138953--138987	16	2.2	16	100	0	70	37	5	20	37	1.76
142709--142775	7	9.6	7	83	0	89	35	14	22	26	1.93
143270--143317	2	24.0	2	100	0	96	50	0	50	0	1.00
143493--143545	2	26.5	2	100	0	106	0	50	0	49	1.00
145712--145778	7	9.6	7	83	0	89	26	22	14	35	1.93
145712--145778	21	3.2	21	86	0	98	26	22	14	35	1.93
152766--152830	2	32.5	2	100	0	130	49	0	50	0	1.00
162213--162247	18	2.0	18	88	5	54	80	0	5	14	0.89
162510--162546	18	2.1	18	89	0	56	18	27	10	43	1.83
163702--163738	15	2.5	15	95	4	67	56	8	0	35	1.29
163839--163875	15	2.5	15	95	0	65	54	8	0	37	1.30
163703--163984	137	2.1	137	97	1	530	31	9	13	44	1.77
164561--164691	64	2.0	64	91	0	208	29	21	23	25	1.99
165256--165331	2	38.0	2	91	0	125	48	1	48	1	1.18
166205--166951	25	29.6	25	88	3	1104	42	18	22	16	1.89
178788--178973	92	2.0	91	97	2	363	45	12	6	34	1.70
180609--180738	64	2.0	64	87	0	188	30	20	22	26	1.98
181753--181818	2	33.0	2	87	0	96	48	1	46	3	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
182692--184057	25	53.9	25	87	3	1908	41	20	22	15	1.90
182843--182909	33	2.0	34	94	2	118	41	22	22	13	1.88
182977--183043	33	2.0	34	91	2	109	43	22	22	11	1.86
187096--187128	2	16.5	2	100	0	66	48	0	0	51	1.00
187499--187547	24	2.0	24	96	0	89	28	26	24	20	1.99
188654--188706	4	13.2	4	91	0	88	1	24	26	47	1.62
214220--214489	104	2.6	104	97	1	506	42	11	11	33	1.78
218779--218826	21	2.3	21	85	0	60	16	16	29	37	1.91
219264--219488	104	2.2	104	96	1	416	43	11	11	33	1.77
227627--228132	81	6.2	81	97	0	940	37	23	17	20	1.94
230902--230982	27	3.0	27	98	0	153	41	7	17	33	1.77
231294--231668	189	2.0	188	100	0	741	34	12	16	36	1.86
231842--232047	87	2.4	84	91	4	333	36	21	16	25	1.93
235679--235734	18	3.1	18	89	0	85	16	12	26	44	1.83
238020--238091	2	36.0	2	88	0	108	47	2	47	2	1.31
238021--238088	18	3.9	18	96	3	122	47	2	47	2	1.32
240970--241165	63	3.1	63	94	5	349	17	21	14	46	1.84
240970--241168	66	3.1	66	96	3	361	18	21	14	46	1.83
252410--252516	34	3.0	34	81	10	133	36	20	19	23	1.95
254177--254496	43	7.5	43	70	6	256	17	17	19	45	1.86
254139--254583	85	5.2	85	94	0	748	19	17	19	43	1.88
258391--258590	49	4.1	49	93	2	348	41	12	28	18	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
266355--266397	13	3.2	13	78	15	52	79	18	2	0	0.85
271726--271759	16	2.2	16	89	5	52	5	20	8	64	1.43
272882--272906	13	1.9	13	100	0	50	40	0	16	44	1.47
272875--272942	20	3.5	19	73	16	68	32	1	13	52	1.49
279533--279615	41	2.0	42	90	2	132	54	4	8	32	1.52
293844--293871	10	2.8	10	100	0	56	50	0	7	42	1.30
294700--294741	2	21.0	2	100	0	84	0	50	0	50	1.00
298769--299120	42	8.2	42	76	10	325	27	16	17	37	1.92
301908--301957	2	25.5	2	95	4	93	0	52	0	48	1.00
303637--303722	45	1.9	45	87	0	127	38	6	31	23	1.81
303750--303998	49	5.3	45	76	10	214	36	14	29	20	1.92
304121--304218	30	3.3	30	89	0	133	38	34	4	22	1.73
315238--315275	8	4.9	8	80	6	51	0	34	23	42	1.55
327950--328480	168	3.2	167	86	4	691	29	17	18	33	1.94
328193--328710	287	1.8	288	86	1	761	32	18	15	33	1.93
336997--337046	22	2.3	22	89	0	73	26	14	18	42	1.87
342303--342533	54	4.3	54	75	16	235	30	39	15	14	1.87
342347--342394	23	2.1	23	100	0	96	31	43	16	8	1.78
342401--342471	23	3.1	23	85	0	97	36	39	12	11	1.79
342347--342502	77	2.0	77	91	0	249	33	39	14	12	1.85
342450--342572	31	4.0	31	93	0	210	29	38	16	16	1.90
353941--353997	30	1.9	30	88	0	87	31	33	5	29	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
360386--360675	49	5.9	49	80	1	303	37	12	31	18	1.88
360386--360675	147	2.0	147	81	4	343	37	12	31	18	1.88
360413--360705	147	2.0	146	79	5	315	38	11	30	19	1.87
360805--360845	2	20.5	2	94	0	73	0	46	0	53	1.00
361174--361235	30	2.1	30	87	0	88	33	33	6	25	1.82
377674--377703	15	2.0	15	100	0	60	20	13	13	53	1.72
378913--378938	6	4.3	6	100	0	52	15	50	0	34	1.45
385361--385418	4	14.8	4	85	3	73	0	41	25	32	1.56
385367--385418	12	4.3	12	95	0	86	0	42	25	32	1.55
387247--387743	165	3.0	165	85	5	646	33	15	24	25	1.95

Tables:   1   2   3