oyster.v9_M.fa.s41.2.7.7.80.10.50.500.2.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: scaffold334
Parameters: 2 7 7 80 10 50 500
Length:  1116604

Tables:   1   2   3   4   5   6   

This is table  2  of  6  ( 617 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)
204297--204524	40	5.7	38	78	7	181	36	20	20	22	1.95
205001--205147	74	2.0	74	85	5	199	38	20	18	22	1.93
206910--207036	52	2.4	52	98	0	245	25	27	22	24	2.00
207177--207229	2	26.5	2	100	0	106	0	49	0	50	1.00
209478--209534	30	1.9	30	85	0	78	29	38	5	26	1.78
216274--217827	22	71.2	22	82	3	1697	22	12	24	40	1.89
216274--217827	454	3.4	454	89	3	2032	22	12	24	40	1.89
218067--219102	30	34.7	30	90	1	1589	33	29	12	24	1.92
218082--218135	17	3.4	17	65	19	53	33	33	12	20	1.91
218500--218550	24	2.1	24	88	0	75	33	27	13	25	1.94
219118--219175	25	2.3	26	84	3	73	43	34	6	15	1.74
221369--221511	73	1.9	74	91	1	234	33	12	16	37	1.87
226726--226904	27	6.7	25	87	3	90	27	31	25	15	1.96
226745--226904	27	5.9	27	90	0	212	28	30	25	16	1.97
226731--226904	81	2.2	81	85	1	242	27	32	24	15	1.95
227189--227283	36	2.6	36	89	0	136	21	44	21	13	1.86
228495--228528	17	2.0	17	88	11	52	29	26	14	29	1.95
228590--228866	68	4.0	69	97	0	495	22	18	18	40	1.92
230803--230841	20	1.9	20	84	0	51	53	2	2	41	1.28
233711--233796	23	3.7	23	87	0	136	38	9	8	44	1.66
237151--237400	30	8.3	30	93	0	419	34	26	17	21	1.95
241971--242017	23	2.0	23	87	0	67	38	12	10	38	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
242313--242364	2	26.0	2	100	0	104	50	0	50	0	1.00
242369--242874	31	16.3	31	91	1	764	49	19	11	20	1.79
244749--244780	16	2.0	16	93	0	55	6	28	3	62	1.34
249581--249631	16	3.3	15	78	8	57	21	15	27	35	1.94
250960--250987	13	2.2	13	100	0	56	28	0	21	50	1.49
252801--252987	39	4.9	39	95	3	330	31	21	2	44	1.66
256496--256533	2	19.0	2	88	0	58	2	50	0	47	1.15
256496--256540	10	4.5	10	88	0	54	2	53	0	44	1.13
256580--256630	2	25.5	2	100	0	102	0	49	0	50	1.00
257541--257590	22	2.3	22	85	0	64	30	28	26	16	1.96
257836--258017	47	3.8	47	94	2	312	47	18	10	23	1.79
257999--258173	55	3.2	55	90	0	269	46	18	8	26	1.78
259761--259896	70	1.9	70	83	7	177	36	18	22	23	1.95
260270--261373	44	25.6	43	81	8	1049	23	7	26	42	1.81
260270--261373	87	12.8	86	84	5	1177	23	7	26	42	1.81
260262--261337	302	3.6	301	83	6	1252	23	7	26	42	1.81
261610--261646	17	2.2	17	95	0	65	32	5	10	51	1.60
263288--263327	9	4.4	9	84	12	55	77	22	0	0	0.77
267187--270642	37	92.4	37	82	6	3687	27	12	24	35	1.92
268483--268546	19	3.2	21	62	20	55	26	14	26	32	1.94
269269--269398	65	2.0	65	86	3	181	26	13	26	33	1.94
269334--270642	113	11.6	109	75	8	735	27	12	24	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
272121--272158	17	2.4	17	82	8	53	21	10	15	52	1.72
272243--272357	57	2.0	57	100	0	230	24	26	26	23	2.00
274687--274713	14	1.9	14	100	0	54	37	3	7	51	1.48
277118--277499	55	7.0	55	82	3	423	44	20	11	23	1.83
279459--279568	27	4.1	27	95	0	193	25	24	25	24	2.00
282812--282859	2	24.0	2	100	0	96	50	0	50	0	1.00
283951--283975	12	2.1	12	100	0	50	8	0	0	92	0.40
288817--289015	28	7.1	28	61	29	77	44	23	12	19	1.84
288793--289087	56	5.3	56	98	0	572	44	23	12	20	1.84
294577--294723	75	1.9	76	90	1	233	40	13	4	41	1.66
298636--298871	45	5.2	45	87	2	141	22	14	22	40	1.90
299096--299223	66	1.9	66	85	0	175	35	14	15	34	1.89
302763--302794	16	2.0	16	100	0	64	43	18	31	6	1.75
304015--304753	48	15.4	48	93	0	1066	21	23	17	37	1.94
304766--305172	27	15.1	27	88	1	600	22	14	23	38	1.92
308936--309043	49	2.2	49	96	0	198	34	12	10	42	1.77
317419--317480	27	2.3	27	91	0	106	29	17	19	33	1.95
320835--320980	72	2.0	73	90	2	231	37	17	9	34	1.83
327101--328021	36	25.3	36	84	4	1134	45	11	15	27	1.80
327440--327524	44	1.9	44	95	0	152	49	10	15	24	1.76
327101--327975	179	4.8	179	89	2	1228	45	11	15	27	1.80
330169--330401	30	7.7	30	75	7	175	24	25	10	39	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
330169--331382	60	19.9	60	83	7	570	26	23	11	38	1.89
330181--330352	90	1.9	90	82	0	218	23	25	9	41	1.84
330385--330418	17	2.0	17	100	0	68	29	17	17	35	1.93
330359--330448	47	1.9	47	90	0	144	27	22	12	37	1.90
330402--331388	30	32.9	30	87	3	1258	27	22	11	37	1.89
336202--336244	6	7.3	6	82	12	54	0	20	30	48	1.50
336410--337729	166	8.1	166	83	6	1574	33	15	22	28	1.94
336410--337756	334	4.1	331	83	6	1576	33	15	22	28	1.94
337087--337393	153	2.0	153	89	2	465	33	14	24	28	1.94
336410--337606	500	2.5	485	86	5	1656	33	15	22	28	1.95
340469--340502	15	2.3	15	100	0	68	47	11	5	35	1.65
341964--342098	67	2.0	67	98	0	261	32	12	14	40	1.84
346212--346263	2	26.0	2	100	0	104	0	0	50	50	1.00
346264--346301	2	19.0	2	100	0	76	50	0	50	0	1.00
351239--351277	2	19.5	2	100	0	78	51	0	48	0	1.00
358012--358326	37	8.2	37	80	8	247	29	22	13	34	1.92
358023--358326	117	2.6	111	79	9	288	29	23	13	34	1.92
358145--358326	78	2.4	74	90	3	283	30	19	12	37	1.89
358145--358326	37	4.8	37	89	5	274	30	19	12	37	1.89
359971--360020	1	50.0	1	87	0	64	0	0	92	8	0.40
359973--360020	11	4.5	11	92	2	80	0	0	91	8	0.41
359970--360019	26	2.0	26	92	4	84	0	0	90	10	0.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
359971--360023	27	2.0	26	92	3	88	0	0	88	11	0.51
361236--361333	17	5.6	17	92	4	151	21	33	5	39	1.75
361236--361329	36	2.7	34	90	6	161	21	32	5	40	1.76
363320--363390	26	2.7	26	91	0	106	40	26	4	28	1.74
371931--372043	55	2.0	56	93	1	192	26	12	23	37	1.91
375713--375985	37	7.4	37	88	4	372	26	16	15	41	1.88
376813--377063	113	2.2	113	86	5	353	39	10	21	28	1.86
379866--379975	39	2.8	39	95	0	193	44	15	16	23	1.86
379941--380283	57	6.1	57	88	2	476	44	22	14	18	1.86
379941--380288	113	3.1	113	86	4	468	44	22	14	18	1.86
379941--380283	170	2.0	170	88	1	508	44	22	14	18	1.86
380411--380441	16	1.9	16	100	0	62	45	3	6	45	1.45
409240--409912	21	32.1	20	80	8	612	24	9	8	57	1.59
409241--409912	189	3.6	185	81	6	708	24	9	8	57	1.59
409947--410097	20	7.5	20	81	6	135	56	7	11	23	1.61
409957--410109	21	7.5	21	81	6	172	57	8	11	22	1.60
409957--410135	41	4.4	41	81	6	186	57	8	10	23	1.59
409947--410135	62	3.1	61	80	7	188	57	8	10	23	1.61
417274--417661	48	7.6	48	72	14	251	44	18	13	23	1.86
417405--417450	23	2.0	23	91	4	76	58	19	4	17	1.55
417357--417507	70	2.1	71	85	3	198	47	19	11	21	1.80
417430--417924	95	5.3	94	83	10	594	42	20	13	24	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
417311--417548	118	2.0	119	83	5	304	46	18	11	23	1.82
417665--417924	47	5.5	47	93	4	443	42	20	12	25	1.87
418082--418141	31	1.9	31	89	0	93	46	23	6	23	1.75
419261--419342	31	2.7	30	77	9	85	41	12	12	34	1.80
419800--419880	39	2.1	39	88	0	117	30	14	23	30	1.95
424173--424396	108	2.1	107	85	4	294	35	14	13	36	1.85
424974--425561	35	16.6	35	86	4	745	36	10	34	18	1.86
426286--426318	10	2.9	12	82	17	52	33	6	27	33	1.81
429678--429937	71	3.7	71	93	0	430	26	29	19	24	1.98
431814--432070	37	6.9	37	92	1	408	39	26	21	12	1.89

Tables:   1   2   3   4   5   6