oyster.v9_M.fa.s48.2.7.7.80.10.50.500.1.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: scaffold370
Parameters: 2 7 7 80 10 50 500
Length:  1088289

Tables:   1   2   3   

This is table  1  of  3  ( 316 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)
26919--27010	26	3.5	26	98	0	175	42	16	3	38	1.64
29857--30017	80	2.0	80	89	2	243	31	16	14	38	1.88
30237--30264	2	14.0	2	100	0	56	50	0	50	0	1.00
42876--42921	16	2.8	16	80	3	56	28	15	4	52	1.61
55308--55338	11	2.7	12	95	5	55	87	12	0	0	0.55
56867--57195	64	5.1	64	80	7	378	34	24	9	32	1.87
56867--57195	128	2.5	131	85	3	434	34	24	9	32	1.87
65786--65823	17	2.1	19	85	9	53	44	15	7	31	1.75
68941--68971	12	2.6	12	94	0	53	51	9	38	0	1.35
74716--74776	22	2.8	21	80	9	68	31	14	44	9	1.78
74715--74790	30	2.5	30	85	12	86	30	15	44	9	1.78
74716--74831	8	16.3	7	71	20	64	31	16	43	8	1.78
74851--74902	6	7.7	6	80	19	50	7	46	13	32	1.72
74852--74902	14	3.7	13	79	20	59	7	45	13	33	1.73
75341--75401	22	2.8	21	80	9	68	31	14	44	9	1.78
75340--75415	30	2.5	30	85	12	86	30	15	44	9	1.78
75396--75456	21	3.0	21	83	9	72	31	18	44	6	1.75
75341--75456	8	16.3	7	72	20	73	31	16	43	8	1.78
75344--75462	14	8.3	14	72	20	70	31	16	44	7	1.76
75352--75462	22	5.2	20	77	10	62	31	17	45	6	1.73
76022--76055	14	2.4	14	90	9	52	32	14	47	5	1.69
76085--76198	22	5.2	22	74	10	90	9	43	15	30	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
76157--76190	14	2.5	13	86	13	50	8	44	20	26	1.81
84151--84254	40	2.5	40	82	3	118	18	12	25	43	1.85
98413--98523	40	2.7	40	88	2	159	18	12	24	45	1.84
98413--98559	40	3.8	40	82	6	151	17	12	25	45	1.82
114321--114488	82	2.0	82	89	3	257	44	16	8	30	1.77
124779--124808	15	2.0	15	93	0	51	26	10	6	56	1.57
125216--125263	21	2.3	21	88	0	69	6	27	16	50	1.69
125280--125348	21	3.2	21	93	2	111	13	36	5	44	1.67
130716--130891	90	2.0	90	80	6	205	27	17	28	26	1.97
147416--147899	161	3.0	161	87	2	641	28	14	19	37	1.90
148707--148753	2	23.5	2	100	0	94	51	0	48	0	1.00
150172--150266	15	6.4	15	87	2	138	32	7	15	44	1.75
150295--150351	15	3.6	15	73	13	51	33	5	7	54	1.50
159918--159979	32	1.9	32	96	0	115	30	12	16	40	1.86
161454--161498	2	23.5	2	86	8	67	0	48	0	51	1.00
161437--161495	13	4.7	13	80	14	70	1	50	1	45	1.21
161454--161497	15	2.9	15	87	9	63	0	50	0	50	1.00
166576--166850	21	13.2	21	80	8	285	32	18	10	37	1.85
166572--166855	42	6.8	42	83	7	330	32	18	10	38	1.85
167345--167543	21	9.5	21	78	2	211	36	14	19	30	1.91
167345--167549	42	4.9	42	92	4	351	36	15	18	29	1.91
169453--169482	15	2.0	15	93	0	51	16	46	6	30	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
175024--175048	12	2.1	12	100	0	50	36	16	0	48	1.46
175840--175879	2	20.0	2	100	0	80	50	0	50	0	1.00
178409--178464	4	14.0	4	84	0	58	41	23	32	3	1.71
178405--178464	12	5.0	12	81	0	75	40	23	33	3	1.71
182775--182973	70	2.9	68	76	13	199	37	19	11	32	1.87
184025--184116	21	4.4	21	84	0	130	26	17	20	35	1.95
184194--184353	21	7.7	21	83	1	169	36	18	15	28	1.92
184519--184612	21	4.5	21	85	5	127	40	19	14	25	1.90
185287--185337	20	2.5	20	83	0	66	47	9	3	39	1.55
185421--185462	15	2.8	15	81	0	57	38	4	11	45	1.62
186521--187263	177	4.2	177	88	4	950	33	26	16	23	1.96
187008--187049	19	2.2	19	86	0	57	40	33	4	21	1.74
187016--187055	19	2.1	19	90	0	62	37	37	2	22	1.68
186521--187346	354	2.3	351	81	6	882	33	25	17	24	1.96
214054--214099	16	2.9	16	96	0	83	6	28	17	47	1.72
219943--220331	30	13.4	30	68	13	231	10	22	31	35	1.89
220009--220359	57	6.1	57	92	1	531	9	21	31	37	1.86
227967--228046	2	40.5	2	94	2	144	51	0	48	0	1.00
234377--234576	26	7.5	26	76	8	161	44	22	11	22	1.84
234377--234544	52	3.2	51	86	1	210	42	21	12	23	1.86
234524--234608	31	2.8	30	84	12	118	48	23	7	21	1.74
236143--236170	4	7.0	4	100	0	56	25	25	0	50	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
239063--239097	4	8.8	4	100	0	70	74	0	0	25	0.82
241281--241332	24	2.2	24	86	6	70	17	34	5	42	1.73
246368--246458	30	3.0	30	95	0	164	24	26	25	24	2.00
278108--278132	11	2.3	11	100	0	50	36	8	24	32	1.84
281011--281049	16	2.4	17	87	8	55	23	12	5	58	1.54
289176--289208	1	33.0	1	100	0	66	0	0	100	0	0.00
306724--306792	9	6.9	9	73	20	57	49	28	1	20	1.58
306718--306772	20	2.7	20	94	2	92	49	25	0	25	1.51
354285--354323	13	3.0	13	81	11	53	33	41	0	25	1.56
357815--357884	10	6.8	10	95	4	122	41	40	17	1	1.58
357815--357884	21	3.4	20	94	5	122	41	40	17	1	1.58
357815--357884	31	2.3	31	97	0	131	41	40	17	1	1.58
358085--358724	331	1.9	336	88	6	972	36	27	14	21	1.93
358085--358724	173	3.8	166	89	5	832	36	27	14	21	1.93
358636--358774	73	1.9	72	80	4	163	42	23	12	21	1.87
361503--361856	184	1.9	184	81	2	433	20	16	25	36	1.94
361840--361919	10	7.8	10	91	5	133	2	17	38	41	1.63
361840--361919	21	3.9	20	91	4	133	2	17	38	41	1.63
361840--361919	31	2.6	31	94	4	135	2	17	38	41	1.63
369938--369991	3	18.0	3	82	0	54	25	33	1	38	1.67
390909--390941	2	16.5	2	100	0	66	0	51	0	48	1.00
401597--401626	2	15.0	2	100	0	60	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
404402--404457	21	2.7	21	80	0	67	39	10	19	30	1.86
407074--407113	2	20.0	2	100	0	80	0	0	50	50	1.00
410535--410560	2	13.0	2	100	0	52	50	0	50	0	1.00
412802--413067	80	3.3	80	90	2	383	21	24	17	36	1.95
426707--426747	2	20.5	2	100	0	82	0	51	0	48	1.00
437219--437826	166	3.6	166	84	3	758	33	16	22	27	1.96
437280--438276	166	6.1	165	78	11	873	35	15	21	27	1.94
437521--438119	305	2.0	304	88	1	903	36	16	19	27	1.93
447613--448955	166	8.0	166	86	6	1872	34	14	22	28	1.94
447956--447998	20	2.1	21	95	4	79	55	4	9	30	1.52
447613--448955	333	4.0	333	86	5	1892	34	14	22	28	1.94
448576--448955	156	2.4	155	91	5	580	32	16	24	26	1.96
460558--460606	20	2.4	21	86	3	64	46	30	10	12	1.74
463888--463951	31	2.1	31	96	0	119	60	6	9	23	1.50
466266--466464	101	2.0	102	91	4	330	41	18	11	29	1.85
468690--468748	2	29.5	2	100	0	118	50	0	49	0	1.00
474129--474456	143	2.3	143	84	4	394	23	23	25	27	2.00
480809--480841	16	2.1	15	94	5	57	84	0	0	15	0.61
487985--488015	2	15.5	2	100	0	62	51	0	48	0	1.00
492818--492861	4	11.0	4	82	0	52	2	40	25	31	1.68
492819--492870	12	4.3	12	87	0	68	1	36	25	36	1.67
498245--498319	2	37.5	2	100	0	150	50	0	49	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
498809--498871	2	31.5	2	100	0	126	0	50	0	49	1.00
501831--501877	3	15.7	3	100	0	94	31	34	0	34	1.58
503090--503130	2	20.5	2	100	0	82	48	0	51	0	1.00
505446--505546	21	4.9	21	83	1	114	27	14	14	42	1.85
505446--505546	42	2.4	42	86	1	132	27	14	14	42	1.85
505625--505718	21	4.5	21	81	5	100	42	18	13	25	1.87
505625--505718	42	2.2	42	84	0	116	42	18	13	25	1.87
505875--505923	16	3.3	16	67	21	52	36	18	4	40	1.70
505947--506042	2	48.5	2	96	2	176	0	52	0	47	1.00
509584--509623	16	2.5	16	95	0	71	32	20	25	22	1.98

Tables:   1   2   3