oyster.v9_M.fa.s20.2.7.7.80.10.50.500.1.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: scaffold481
Parameters: 2 7 7 80 10 50 500
Length:  1334154

Tables:   1   2   3   4   

This is table  1  of  4  ( 385 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)
5732--5980	25	9.8	25	75	8	198	24	21	10	42	1.85
29970--30416	224	2.0	223	100	0	885	29	15	20	33	1.94
31628--31656	14	2.1	14	100	0	58	27	41	0	31	1.56
31904--32000	20	4.7	20	79	6	97	49	7	7	36	1.58
32048--32172	21	5.7	21	67	17	67	43	6	10	40	1.65
33536--33585	23	2.3	22	82	6	57	44	18	10	28	1.81
33482--33630	22	6.7	22	72	15	101	42	13	9	34	1.76
33727--33777	22	2.3	22	93	0	84	29	13	15	41	1.86
65080--65140	2	30.5	2	100	0	122	0	50	0	49	1.00
69930--70860	466	2.0	465	100	0	1853	34	16	16	31	1.92
75879--75977	21	4.8	21	97	1	182	29	23	5	42	1.75
75954--76048	42	2.2	42	85	5	120	36	13	11	37	1.81
75882--76024	64	2.3	63	84	4	173	32	20	6	40	1.77
76019--76119	21	4.6	21	83	11	103	44	5	20	28	1.75
77582--77650	21	3.3	21	87	0	102	34	17	7	40	1.77
77603--77741	63	2.2	63	85	2	190	35	13	10	40	1.80
77662--77848	21	9.0	21	83	2	153	32	16	8	42	1.78
77584--77853	42	6.5	42	71	7	167	34	16	8	40	1.79
77632--77762	63	2.1	63	84	2	165	35	13	12	38	1.82
77849--77921	20	3.6	20	90	1	110	43	5	19	31	1.73
78934--78963	15	2.0	15	93	0	51	6	30	6	56	1.51
94730--94759	15	2.0	15	100	0	60	20	33	13	33	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
95289--95319	2	15.5	2	100	0	62	0	48	0	51	1.00
96197--96274	8	9.8	8	81	0	93	33	38	25	2	1.70
96197--96274	16	4.9	16	91	0	111	33	38	25	2	1.70
100385--100475	46	2.0	46	91	0	146	41	15	24	18	1.89
100743--100779	12	3.2	11	88	11	56	59	0	0	40	0.97
100744--100782	15	2.4	17	87	12	55	61	0	0	38	0.96
111771--111803	11	3.1	11	86	4	50	90	0	9	0	0.44
115908--115994	21	4.2	21	83	1	104	43	11	16	28	1.82
115911--115995	42	2.0	42	88	0	125	41	11	16	30	1.84
116081--116291	21	10.0	21	73	2	145	33	14	15	36	1.88
116083--116221	42	3.3	42	82	4	163	32	16	14	36	1.89
116299--116460	63	2.6	63	85	3	209	35	14	16	33	1.89
116290--116449	21	7.6	21	82	0	176	35	13	16	34	1.89
116566--116619	21	2.6	21	75	0	63	29	20	12	37	1.90
116539--116619	42	1.9	42	84	0	108	28	17	14	39	1.89
120320--120725	203	2.0	203	99	0	787	37	17	15	29	1.90
124164--124203	2	20.0	2	100	0	80	50	0	50	0	1.00
125671--125761	44	2.1	44	100	0	182	38	13	8	39	1.75
126767--126907	21	6.7	21	76	0	138	40	16	25	17	1.90
126783--126887	42	2.5	42	95	0	192	40	19	23	17	1.91
159796--159841	24	1.9	24	100	0	92	43	8	8	39	1.66
165637--165710	7	10.0	7	82	10	76	17	0	0	82	0.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
165637--165697	8	8.0	8	82	10	83	14	0	0	85	0.60
165634--165707	39	1.9	38	83	5	96	16	1	1	81	0.84
165638--165704	30	2.2	30	89	5	100	16	0	0	83	0.64
165657--165710	26	2.0	28	89	7	85	16	0	0	83	0.65
165638--165707	4	18.5	4	78	8	67	17	0	0	82	0.66
166436--166473	15	2.4	17	82	13	53	84	0	2	13	0.73
166438--166473	16	2.3	16	90	4	56	86	0	2	11	0.68
170052--170112	4	15.2	4	82	0	77	0	42	24	32	1.55
170046--170112	12	5.7	12	98	1	127	0	40	25	34	1.56
170275--170985	166	4.2	167	92	4	1087	32	15	26	26	1.95
170275--170985	333	2.1	332	89	5	1083	32	15	26	26	1.95
172732--172780	24	2.0	24	96	0	89	32	12	22	32	1.91
176887--176949	2	31.5	2	100	0	126	49	0	50	0	1.00
177016--177056	2	20.5	2	94	0	73	53	0	46	0	1.00
184079--184126	23	2.1	23	88	7	71	27	10	27	35	1.89
188776--190101	167	7.9	167	76	13	943	27	22	14	35	1.93
188772--190101	329	4.0	330	76	12	1144	27	22	14	35	1.93
194946--194990	14	3.5	14	71	22	53	17	17	0	64	1.29
194942--194991	24	2.1	24	100	0	100	20	16	0	64	1.30
195978--196316	146	2.3	146	88	2	484	30	21	18	28	1.97
197820--197855	16	2.2	16	95	0	63	38	25	36	0	1.56
197829--197864	12	3.0	12	87	0	54	33	25	38	2	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
197820--197863	8	5.5	8	80	0	52	36	25	36	2	1.69
200655--201003	166	2.2	158	82	7	389	28	20	21	28	1.98
201506--201854	166	2.2	158	82	7	389	28	20	21	28	1.98
213839--213874	13	2.8	13	86	0	54	44	0	27	27	1.55
216364--216390	4	6.8	4	100	0	54	0	25	48	25	1.52
216394--216583	95	2.0	95	97	0	362	32	15	17	34	1.92
219714--220003	160	1.8	160	82	0	373	26	28	22	22	1.99
221041--221619	161	3.6	152	75	12	461	31	18	17	31	1.94
221041--221520	161	3.1	157	82	7	554	31	18	18	31	1.95
224364--224416	26	2.1	26	89	3	81	20	20	15	43	1.88
230595--230632	20	1.9	20	88	0	58	39	15	2	42	1.61
234648--234683	2	18.0	2	100	0	72	0	50	0	50	1.00
238420--238458	15	2.6	15	87	0	51	28	15	46	10	1.78
249926--250190	27	9.9	27	89	2	354	32	16	16	35	1.91
269287--269313	1	27.0	1	100	0	54	0	0	100	0	0.00
271692--271810	22	5.4	22	97	0	193	52	12	17	17	1.75
275625--275697	37	2.0	37	100	0	146	19	26	32	21	1.97
277413--277457	20	2.2	21	80	11	58	33	6	13	46	1.69
277838--277902	3	21.7	3	90	0	76	7	32	24	35	1.84
277856--277911	15	3.7	15	87	0	67	12	33	19	33	1.89
279924--279963	6	7.0	6	88	11	66	85	15	0	0	0.61
279894--279970	23	3.4	23	75	12	79	74	24	1	0	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
279909--279966	12	4.8	12	78	8	64	82	17	0	0	0.66
289007--289031	1	25.0	1	100	0	50	0	100	0	0	0.00
289855--289896	2	21.0	2	100	0	84	50	0	50	0	1.00
292189--292669	29	16.6	29	86	1	660	21	18	19	39	1.92
292684--292838	29	5.1	29	73	9	121	22	18	21	38	1.94
292208--292838	87	7.0	93	75	9	252	22	17	20	39	1.93
299190--299219	15	1.9	16	93	6	53	0	26	0	73	0.84
305413--305482	2	35.0	2	94	0	122	1	47	0	51	1.09
305910--305940	12	2.6	12	89	0	53	19	35	0	45	1.51
305944--305980	2	18.5	2	100	0	74	0	51	0	48	1.00
312916--312947	1	32.0	1	100	0	64	0	0	0	100	0.00
312902--312948	8	5.2	9	85	12	53	2	0	8	89	0.57
313271--313346	2	38.5	2	94	2	136	52	0	47	0	1.00
317114--317155	18	2.3	18	91	0	66	35	9	0	54	1.33
317114--317173	6	10.0	6	79	0	57	35	10	0	55	1.34
320893--320927	17	2.0	17	94	5	61	80	5	5	8	1.03
324220--324263	23	1.9	23	95	0	79	47	4	13	34	1.63
324563--324958	132	3.0	132	100	0	792	33	22	19	24	1.97
327470--327518	3	15.3	3	79	12	53	34	2	26	36	1.68
327470--327527	12	4.8	12	78	16	57	36	1	24	37	1.66
327458--327527	24	2.9	25	77	12	76	35	2	25	35	1.71
327751--327835	26	3.3	26	84	0	116	18	5	31	43	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
327751--327850	26	3.8	26	76	5	94	19	5	32	44	1.72
327998--328196	26	7.4	26	63	22	90	14	12	29	43	1.82
327979--328264	54	5.2	53	86	5	369	14	11	30	43	1.80
327979--328257	108	2.6	107	90	6	418	14	11	30	43	1.81
334446--334529	2	42.0	2	100	0	168	0	50	0	50	1.00
334977--335017	12	3.4	12	82	0	55	14	24	12	48	1.78
336242--336296	2	27.5	2	100	0	110	0	50	0	49	1.00
344188--344238	2	25.5	2	100	0	102	0	50	0	49	1.00
355308--355362	21	2.4	21	79	11	56	30	38	9	21	1.85
355578--355834	21	11.7	21	66	14	90	27	35	12	24	1.92

Tables:   1   2   3   4