oyster.v9_M.fa.s16.2.7.7.80.10.50.500.1.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: scaffold501
Parameters: 2 7 7 80 10 50 500
Length:  1397941

Tables:   1   2   3   4   5   

This is table  1  of  5  ( 512 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)
4739--4800	2	31.0	2	100	0	124	50	0	50	0	1.00
12213--12251	20	1.9	20	84	5	51	5	2	12	79	1.00
13254--13302	22	2.3	22	89	3	73	48	2	4	44	1.33
18945--19407	42	10.8	42	81	8	398	32	18	12	35	1.89
19336--19399	20	3.1	20	90	4	92	34	18	10	35	1.86
18949--19399	21	21.1	21	77	8	347	32	19	12	35	1.89
25526--25550	13	1.9	13	100	0	50	44	8	16	32	1.76
26164--26523	180	2.0	180	95	0	639	30	15	17	36	1.91
35987--36021	16	2.2	16	94	0	61	28	25	20	25	1.99
36535--36569	14	2.5	13	86	13	52	11	40	14	34	1.82
37602--37663	32	1.9	32	86	0	88	27	16	25	30	1.96
37773--37797	11	2.3	11	100	0	50	40	16	20	24	1.91
39103--39136	12	2.8	12	95	0	59	44	17	38	0	1.49
43193--43228	16	2.2	17	90	5	56	41	19	36	2	1.66
51191--51236	2	23.0	2	90	0	74	50	4	0	45	1.21
54753--54802	2	25.0	2	100	0	100	50	0	50	0	1.00
62522--62568	20	2.4	20	85	0	58	38	12	8	40	1.74
64475--64512	3	12.7	3	100	0	76	0	34	0	65	0.93
65931--65990	23	2.8	23	85	9	74	45	6	1	46	1.39
65960--66012	20	2.6	20	80	8	63	37	3	5	52	1.43
66853--66893	4	10.2	4	89	0	64	2	46	24	26	1.65
76934--76967	12	2.8	13	91	8	54	47	14	38	0	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
92760--92879	35	3.4	35	86	4	154	25	29	20	25	1.99
95197--95232	2	19.0	2	88	11	58	52	0	0	47	1.00
95305--95346	22	1.9	22	90	0	66	40	7	11	40	1.69
114006--114031	13	2.0	13	100	0	52	61	15	0	23	1.33
114027--114060	3	11.3	3	100	0	68	67	32	0	0	0.91
114431--114501	36	2.0	36	97	0	133	28	22	12	36	1.91
116900--116924	1	25.0	1	100	0	50	0	0	100	0	0.00
118424--118466	20	2.2	19	87	4	59	62	9	2	25	1.37
143123--143250	41	3.1	41	65	9	107	49	11	14	24	1.77
143121--143402	84	3.4	84	84	7	337	43	10	15	30	1.80
143237--143369	42	3.2	42	69	8	135	36	6	18	39	1.75
147800--147852	2	26.5	2	100	0	106	49	0	50	0	1.00
151286--151338	2	26.5	2	100	0	106	50	0	49	0	1.00
163702--163726	13	1.9	13	100	0	50	32	16	36	16	1.90
169235--169291	22	2.5	23	72	11	55	40	10	14	35	1.80
174421--174647	69	3.3	69	88	4	341	20	33	11	33	1.89
208105--208135	16	1.9	16	93	0	53	45	12	22	19	1.84
226104--226159	2	28.0	2	100	0	112	50	0	50	0	1.00
231019--231057	2	19.5	2	94	0	69	0	2	48	48	1.15
234035--234083	2	24.5	2	100	0	98	48	0	51	0	1.00
249688--250058	196	1.9	188	90	4	580	31	16	21	29	1.96
256582--256662	39	2.1	39	88	0	117	27	27	20	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
258200--258250	12	4.3	11	81	16	57	84	15	0	0	0.63
258197--258246	15	3.3	15	80	0	64	86	14	0	0	0.58
258196--258251	14	3.8	14	81	11	58	82	17	0	0	0.68
263764--263797	17	1.9	18	94	5	61	38	11	2	47	1.55
264069--264156	44	2.0	44	97	0	167	36	14	4	44	1.66
265017--265041	2	12.5	2	100	0	50	48	0	0	52	1.00
268640--268682	20	2.1	20	95	0	77	30	11	16	41	1.83
276560--276589	1	30.0	1	100	0	60	0	0	0	100	0.00
277839--278059	119	1.9	119	100	0	442	26	15	14	43	1.85
287972--288040	35	2.0	35	94	0	120	28	11	15	43	1.82
290823--290857	18	1.9	18	88	0	52	34	20	8	37	1.83
304000--304031	15	2.1	15	100	0	64	43	0	12	43	1.42
308897--308939	15	2.9	15	85	0	59	6	34	13	44	1.72
320838--320918	33	2.5	33	97	0	153	29	23	18	28	1.98
334168--334269	33	3.0	33	78	4	114	22	12	53	10	1.69
353831--354020	95	2.0	95	100	0	380	35	14	15	33	1.89
364889--364938	2	25.0	2	100	0	100	50	0	50	0	1.00
366435--366474	2	20.0	2	100	0	80	0	50	0	50	1.00
366604--366629	2	13.0	2	100	0	52	0	50	0	50	1.00
372800--372834	2	17.5	2	100	0	70	48	0	51	0	1.00
381630--381668	2	19.5	2	100	0	78	48	0	51	0	1.00
382563--382614	26	2.0	26	96	0	95	59	11	9	19	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
385517--385763	129	1.9	128	100	0	485	30	11	23	34	1.90
397377--397408	17	1.9	17	93	6	57	50	12	3	34	1.56
406121--406166	22	2.1	22	100	0	92	34	21	4	39	1.73
411725--411790	2	33.5	2	96	3	125	0	50	0	50	1.00
415259--415317	2	29.5	2	100	0	118	49	0	50	0	1.00
421548--421578	13	2.4	13	100	0	62	80	0	12	6	0.89
421747--421782	18	2.0	18	89	10	56	25	16	19	38	1.92
425841--425866	12	2.2	12	100	0	52	15	15	26	42	1.87
427830--427858	4	7.5	4	92	7	51	20	0	24	55	1.44
431211--431283	29	2.7	26	77	20	78	35	17	24	21	1.95
431216--431273	29	2.0	30	89	3	91	37	17	24	20	1.93
431211--431290	26	3.0	26	81	15	99	37	17	25	20	1.94
446896--446956	29	2.1	29	90	6	97	40	13	9	36	1.77
458145--458203	5	12.4	5	85	7	79	79	0	1	18	0.81
458146--458199	23	2.3	23	90	0	90	79	0	1	18	0.82
458143--458211	9	7.6	9	74	9	59	81	0	2	15	0.81
458143--458198	8	6.8	8	73	15	51	80	0	1	17	0.80
458143--458211	13	5.1	13	74	8	57	81	0	2	15	0.81
466724--466758	12	2.9	12	82	0	52	17	17	17	48	1.81
469697--469725	2	14.5	2	100	0	58	48	0	0	51	1.00
471909--472091	99	1.8	99	83	2	242	33	18	21	26	1.96
472543--472734	99	1.9	99	80	4	217	28	19	19	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
475373--475397	11	2.3	11	100	0	50	12	16	8	64	1.49
479870--479919	14	3.6	14	81	8	57	6	52	0	42	1.26
480428--480518	13	7.0	13	74	7	69	14	52	1	31	1.49
480427--480503	19	4.1	18	69	22	59	14	51	1	32	1.50
480350--480456	32	3.4	31	73	14	101	13	57	0	29	1.37
480348--480700	26	13.8	26	65	18	143	12	54	1	31	1.47
480587--480700	13	9.2	13	70	14	55	10	57	0	31	1.39
480575--480710	33	4.3	33	75	12	117	8	57	1	32	1.39
480650--480709	11	5.5	11	75	15	52	6	60	0	33	1.23
480647--480710	20	3.5	20	72	24	70	6	60	0	32	1.21
480585--480789	46	4.5	45	74	15	165	10	56	0	33	1.37
483990--484017	12	2.3	12	100	0	56	46	10	7	35	1.66
489554--489583	3	10.0	3	100	0	60	33	0	33	33	1.58
490733--490778	21	2.2	21	88	0	65	30	8	19	41	1.82
491029--491054	2	13.0	2	100	0	52	0	50	0	50	1.00
497280--498074	398	2.0	397	98	0	1536	30	18	24	26	1.98
497971--498952	492	2.0	490	97	0	1865	35	15	21	26	1.94
501878--502128	126	2.0	125	100	0	493	39	14	11	33	1.83
502534--502568	19	1.9	18	88	11	54	22	11	5	60	1.52
506550--506656	54	2.0	54	98	0	205	52	14	8	24	1.70
506633--506660	4	7.0	4	100	0	56	50	25	0	25	1.50
506892--506925	17	2.0	17	94	0	59	44	11	11	32	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
508318--508348	15	2.1	15	100	0	62	80	0	0	19	0.71
518452--518476	7	3.6	7	100	0	50	16	32	28	24	1.96
518477--518586	58	1.9	57	96	3	204	32	16	19	31	1.94
518533--518881	86	4.0	86	97	0	653	29	18	19	32	1.96
528784--528819	14	2.7	13	87	8	54	22	0	11	66	1.22
545561--545610	20	2.4	22	83	12	70	38	8	12	42	1.71
548943--548967	12	2.1	12	100	0	50	52	0	0	48	1.00
555106--555144	12	3.2	12	82	7	51	30	10	5	53	1.56
565125--565518	165	2.4	165	80	4	436	30	18	14	36	1.91
566070--566985	332	2.8	332	92	1	1489	25	17	19	38	1.93

Tables:   1   2   3   4   5