oyster.v9_M.fa.s24.2.7.7.80.10.50.500.3.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: scaffold211
Parameters: 2 7 7 80 10 50 500
Length:  1275876

Tables:   1   2   3   4   

This is table  3  of  4  ( 441 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)
887559--887602	22	2.0	22	100	0	88	0	0	9	90	0.44
887565--887614	22	2.3	22	86	6	66	0	2	10	88	0.61
887560--887629	24	2.9	24	82	4	77	2	2	7	87	0.74
887560--887605	1	46.0	1	86	0	65	0	0	6	93	0.35
896439--896483	2	22.5	2	81	0	54	0	40	6	53	1.27
897418--897445	2	14.0	2	100	0	56	50	0	0	50	1.00
899390--899430	12	3.3	12	89	3	55	43	9	21	24	1.83
899524--899550	12	2.2	12	100	0	54	0	40	25	33	1.56
900115--900434	164	2.0	164	89	1	491	36	14	16	32	1.89
900115--900467	162	2.2	162	84	3	480	36	13	16	33	1.88
905399--905441	21	2.0	21	90	0	68	25	16	13	44	1.85
905422--905467	14	3.3	14	90	0	74	23	19	15	41	1.89
907458--907503	23	2.0	23	95	0	83	47	8	19	23	1.77
907753--907895	42	3.1	42	77	19	169	34	10	11	43	1.75
907760--907868	53	2.1	53	94	0	191	36	10	12	40	1.77
914191--914274	21	4.0	21	72	6	71	39	13	17	29	1.88
914194--914274	42	1.9	42	87	5	119	38	13	18	29	1.89
914358--914429	21	3.5	21	88	1	92	29	22	11	37	1.88
914457--914538	21	4.0	20	72	17	71	34	15	14	35	1.89
914524--914599	21	3.6	21	70	19	68	34	22	10	32	1.88
914517--914613	42	2.3	42	87	3	142	36	18	12	32	1.88
914595--914729	42	3.2	42	80	4	155	38	11	16	33	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
914595--914670	21	3.6	21	94	0	134	42	10	17	30	1.82
914595--914727	21	6.3	21	77	3	133	37	12	16	33	1.86
914788--914866	21	3.8	21	89	0	122	29	16	11	43	1.83
915866--915894	13	2.2	13	100	0	58	31	27	6	34	1.83
919904--919994	45	2.0	44	91	4	155	26	18	21	31	1.97
921639--921836	45	4.4	45	95	0	342	14	36	10	39	1.79
928953--931046	45	46.6	45	87	1	1989	34	19	15	29	1.93
931014--931100	36	2.4	36	84	3	113	29	17	16	36	1.91
931358--931579	40	5.5	40	93	0	381	30	24	12	32	1.92
940832--940940	56	1.9	56	90	3	175	26	19	15	38	1.91
959909--960091	31	6.0	31	80	3	106	34	15	20	29	1.94
959920--959991	29	2.4	30	88	6	110	36	11	26	26	1.90
959977--960095	31	3.8	31	83	4	150	31	15	21	31	1.95
960209--960734	39	13.2	39	87	5	626	19	22	23	34	1.96
964637--964845	17	12.7	17	85	10	267	7	42	0	50	1.31
964637--964851	83	2.6	83	86	10	298	7	41	0	50	1.34
967046--967133	24	3.7	24	98	0	158	23	22	9	44	1.81
972984--973027	5	8.8	5	97	0	70	40	13	4	40	1.65
973077--973117	18	2.3	18	86	0	55	56	21	2	19	1.54
976916--976965	2	25.0	2	100	0	100	0	50	0	50	1.00
979658--979696	2	19.5	2	94	0	69	0	46	0	53	1.00
979847--980017	86	2.0	86	94	0	297	18	23	22	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
980260--980318	29	2.0	29	96	0	109	37	18	6	37	1.78
983492--983687	52	3.8	52	89	0	302	28	22	16	32	1.95
983492--983687	104	1.9	104	95	0	356	28	22	16	32	1.95
983959--984287	51	6.7	49	93	2	493	28	25	15	30	1.96
986243--986457	52	4.1	53	82	8	215	38	17	13	30	1.88
986249--986456	104	2.0	106	82	3	258	38	16	13	30	1.88
987929--987977	2	24.5	2	100	0	98	48	0	51	0	1.00
989394--989678	22	13.0	22	86	2	403	43	6	22	28	1.77
990521--990661	34	4.1	34	97	0	264	14	20	23	41	1.89
991315--991373	10	5.8	10	96	4	109	42	40	16	0	1.49
991315--991373	21	2.9	20	95	5	109	42	40	16	0	1.49
991315--991373	31	1.9	31	100	0	118	42	40	16	0	1.49
991547--992220	173	3.9	173	89	2	1024	36	25	14	22	1.92
996618--996676	21	2.9	20	74	18	59	11	11	37	38	1.79
996643--996677	11	3.3	11	88	8	54	11	14	37	37	1.82
996577--996953	195	1.9	196	85	1	515	20	16	27	35	1.95
996937--997006	10	6.8	10	90	6	113	2	17	38	41	1.64
996937--997006	21	3.4	20	90	5	113	2	17	38	41	1.64
996937--997006	31	2.3	30	90	7	113	2	17	38	41	1.64
998585--998618	1	34.0	1	93	0	59	0	97	0	2	0.19
1000867--1000920	2	27.0	2	92	0	90	0	53	0	46	1.00
1006333--1006454	63	1.9	63	90	3	192	54	18	3	23	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1006333--1006455	32	3.9	31	88	4	183	54	18	3	23	1.58
1008126--1008293	19	8.9	19	97	1	320	36	9	21	32	1.86
1009378--1009812	14	31.1	14	86	0	519	21	13	40	24	1.89
1010808--1010889	40	2.0	40	97	0	155	34	21	18	25	1.96
1010962--1011066	34	3.1	34	95	0	192	29	28	21	20	1.98
1011164--1011221	30	2.0	29	86	3	80	24	15	17	43	1.87
1011252--1011295	20	2.2	20	92	8	72	20	18	15	45	1.85
1012838--1012898	2	30.5	2	100	0	122	0	50	0	49	1.00
1023579--1023613	16	2.2	16	94	0	61	62	0	5	31	1.18
1024924--1024997	25	3.2	25	62	31	65	39	16	14	29	1.88
1024922--1025181	43	6.1	43	94	0	450	37	16	13	32	1.88
1024922--1025181	128	2.0	129	95	0	468	37	16	13	32	1.88
1028313--1028722	228	1.8	227	100	0	784	34	13	17	34	1.88
1029296--1029550	102	2.5	102	97	1	476	40	7	11	40	1.69
1030016--1030063	20	2.3	20	85	7	60	35	10	16	37	1.83
1030025--1030063	20	1.9	21	89	5	62	35	7	15	41	1.76
1032979--1033184	85	2.4	85	83	3	261	45	16	6	31	1.74
1033077--1033149	33	2.2	32	83	7	101	43	17	4	34	1.68
1033191--1033301	54	2.1	53	86	1	150	47	11	9	31	1.71
1033240--1033505	84	3.3	79	81	10	317	44	14	8	32	1.75
1041515--1041854	3	113.3	3	79	1	232	8	61	1	28	1.34
1041515--1041853	30	11.8	30	79	8	264	8	61	1	28	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1041515--1041830	27	11.1	27	76	13	269	8	61	1	28	1.34
1041571--1041850	27	10.1	27	80	9	287	9	61	1	27	1.34
1041945--1042058	4	29.0	4	94	3	205	50	0	24	24	1.55
1043598--1043627	1	30.0	1	100	0	60	0	0	0	100	0.00
1043750--1043783	15	2.2	16	89	5	52	41	20	23	14	1.89
1045124--1045264	41	3.5	39	73	13	115	53	8	12	24	1.66
1045165--1045270	20	5.2	20	75	8	97	54	9	11	24	1.65
1045123--1045279	82	1.9	81	87	7	228	54	8	11	25	1.65
1045165--1045287	41	3.0	40	72	25	114	56	8	9	25	1.61
1045288--1045340	21	2.5	20	82	14	63	60	5	9	24	1.49
1047662--1047690	2	14.5	2	100	0	58	51	0	0	48	1.00
1048332--1048374	17	2.5	17	96	0	77	32	18	16	32	1.93
1048572--1048650	38	2.1	37	86	9	108	37	25	3	32	1.74
1048586--1048667	38	2.2	38	84	4	103	39	26	4	29	1.77
1048875--1048945	15	4.7	15	91	6	117	42	0	19	38	1.52
1051626--1051654	15	2.0	15	93	6	51	62	6	6	24	1.45
1051855--1052291	54	8.1	54	91	5	704	26	23	16	33	1.96
1051855--1052291	161	2.7	162	92	4	713	26	23	16	33	1.96
1058369--1058400	2	16.0	2	100	0	64	0	50	0	50	1.00
1059918--1060134	21	10.6	21	82	5	194	17	7	49	24	1.74
1059915--1060132	60	3.6	60	87	1	229	17	7	50	24	1.72
1061604--1061635	2	16.0	2	100	0	64	0	50	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1062787--1062821	4	9.0	4	87	6	54	45	25	28	0	1.54
1069866--1070299	34	12.8	34	90	3	696	29	14	16	39	1.88
1069866--1070299	67	6.4	67	96	2	735	29	14	16	39	1.88
1070568--1070606	17	2.4	16	82	4	51	69	20	0	10	1.17
1074588--1074642	4	14.0	4	84	3	67	69	3	3	23	1.21
1074995--1075057	2	31.5	2	100	0	126	49	0	50	0	1.00
1076616--1076669	15	3.6	15	73	9	56	46	22	5	25	1.73
1076651--1076690	20	2.0	20	90	0	62	42	17	7	32	1.77
1079340--1079402	33	1.9	33	96	0	117	46	11	22	20	1.82
1079375--1079443	23	3.0	23	86	0	93	43	14	18	23	1.87

Tables:   1   2   3   4