oyster.v9_M.fa.s33.2.7.7.80.10.50.500.3.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: scaffold100
Parameters: 2 7 7 80 10 50 500
Length:  1174989

Tables:   1   2   3   4   

This is table  3  of  4  ( 392 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)
649156--649226	20	3.4	20	76	14	79	32	16	18	32	1.94
654533--654569	18	1.9	20	89	10	60	32	0	8	59	1.27
669670--669706	2	18.5	2	100	0	74	51	0	48	0	1.00
677882--678762	41	21.5	41	97	0	1611	14	16	33	35	1.89
679994--680059	2	32.5	2	86	3	78	53	0	42	4	1.21
692394--692452	24	2.5	24	85	0	82	27	23	3	45	1.68
695941--695965	11	2.3	11	100	0	50	48	0	20	32	1.50
718141--718178	20	1.9	20	94	0	67	23	13	23	39	1.90
718167--718697	89	5.9	90	90	1	712	21	21	29	27	1.99
718167--718693	179	2.9	179	87	2	695	21	21	29	27	1.99
724347--724376	1	30.0	1	100	0	60	0	100	0	0	0.00
735356--735462	42	2.5	42	89	3	153	29	32	20	16	1.95
735356--735464	21	5.2	21	88	2	139	30	32	20	17	1.95
735374--735462	21	4.2	21	92	0	151	32	32	19	15	1.93
760549--760575	12	2.2	12	100	0	54	92	7	0	0	0.38
777519--777583	28	2.5	27	88	11	93	32	21	10	35	1.88
777519--777668	21	6.7	21	84	8	156	32	23	10	34	1.88
782088--782143	21	2.7	21	85	0	76	39	14	19	26	1.90
782096--782151	21	2.7	21	85	0	76	41	14	21	23	1.89
782183--782715	43	12.5	43	79	3	443	33	16	13	36	1.87
782183--782563	171	2.2	171	96	0	699	33	16	13	37	1.87
782206--782715	150	3.4	150	87	2	641	33	16	13	36	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
782183--782623	171	2.6	170	91	2	695	33	16	13	36	1.87
790057--790102	20	2.3	20	85	7	58	41	6	6	45	1.56
798599--798651	2	26.5	2	100	0	106	50	0	49	0	1.00
800999--801108	21	5.2	21	71	6	71	31	15	16	36	1.90
804252--804324	30	2.4	30	88	4	103	17	27	20	34	1.95
809750--809865	57	2.0	57	100	0	232	31	15	15	37	1.89
812522--812571	20	2.5	20	80	0	55	44	6	14	36	1.69
813721--813755	18	1.9	18	88	0	52	42	14	8	34	1.76
815920--815954	2	17.5	2	93	0	61	0	45	0	54	0.99
820391--820415	4	6.2	4	100	0	50	24	24	0	52	1.48
822411--822448	16	2.4	16	90	0	58	0	28	23	47	1.52
828187--828226	19	2.0	20	85	9	55	42	20	0	37	1.52
833657--833729	35	2.1	35	89	0	110	43	20	5	30	1.74
835530--835568	18	2.2	18	90	0	60	25	5	20	48	1.70
838825--838857	17	1.9	17	93	0	57	24	21	30	24	1.99
839717--839746	15	2.0	15	93	0	51	10	26	33	30	1.89
840889--841009	63	1.9	63	100	0	242	17	19	14	48	1.81
840889--841036	63	2.6	57	87	10	196	18	20	16	43	1.87
842320--843346	436	2.4	436	89	1	1553	35	14	19	31	1.91
848783--848813	10	2.9	11	90	9	55	19	9	19	51	1.74
856185--856221	9	4.0	9	92	3	56	54	2	18	24	1.57
868492--868557	33	2.0	33	100	0	132	27	21	18	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
868687--868716	11	2.7	11	100	0	60	30	10	33	26	1.89
868726--868755	11	2.7	11	89	0	51	26	30	10	33	1.89
868794--868835	21	2.0	22	95	4	77	28	28	9	33	1.88
868797--868835	11	3.6	11	89	3	62	28	25	10	35	1.89
879191--879218	14	2.0	14	100	0	56	42	35	21	0	1.53
879563--879605	22	1.9	23	90	4	70	62	13	4	18	1.48
880792--880834	22	1.9	23	90	4	70	62	13	4	18	1.48
890112--890155	6	7.5	6	79	5	54	36	43	2	18	1.63
894625--894774	31	4.9	31	78	5	153	30	16	31	22	1.96
895978--896021	8	5.5	8	88	0	70	36	25	38	0	1.56
899215--899248	15	2.3	15	94	0	59	58	11	8	20	1.59
909912--909944	7	4.7	7	89	10	50	15	30	18	36	1.91
913074--913237	67	2.4	68	80	6	181	27	20	15	35	1.93
914786--914845	7	8.6	7	81	0	75	36	15	21	26	1.93
914786--914845	14	4.3	14	93	0	93	36	15	21	26	1.93
917020--917195	21	8.4	21	89	2	273	32	19	10	37	1.86
917020--917195	63	2.8	63	95	0	316	32	19	10	37	1.86
918467--918518	18	2.7	18	85	8	59	38	11	19	30	1.87
918487--918773	21	13.7	21	85	0	349	36	13	18	32	1.89
918496--918767	42	6.5	42	90	0	393	36	13	18	31	1.89
919162--919195	2	17.0	2	100	0	68	50	0	50	0	1.00
919383--919411	4	7.2	4	100	0	58	0	24	24	51	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
919916--919982	7	9.6	7	80	0	80	26	20	14	37	1.92
919916--919982	21	3.2	21	85	4	91	26	20	14	37	1.92
924428--924646	110	2.0	109	98	0	411	26	23	16	32	1.96
925004--925057	8	7.4	8	76	19	64	40	25	33	0	1.56
925004--925050	12	3.9	12	91	0	67	40	25	34	0	1.56
925004--925045	4	10.5	4	84	0	57	42	26	30	0	1.55
934467--934560	32	2.9	32	90	0	143	30	26	17	25	1.97
936133--936177	16	2.8	16	96	0	81	26	26	20	26	1.99
936133--936183	16	3.2	16	88	5	77	29	23	21	25	1.99
936552--936606	25	2.2	25	90	0	83	38	5	9	47	1.58
936596--936651	27	2.0	28	86	6	78	35	7	10	46	1.66
937567--937608	19	2.2	19	87	8	59	38	30	4	26	1.77
937868--937928	21	2.9	21	82	4	77	9	39	14	36	1.80
941935--942000	19	3.5	19	97	0	123	54	9	19	16	1.68
941945--941997	10	5.5	10	73	8	56	54	7	22	15	1.65
949009--949462	172	2.7	172	87	2	655	29	18	15	37	1.91
952835--952872	18	2.1	18	100	0	76	5	15	26	52	1.64
959468--959513	24	2.0	24	87	8	69	39	23	28	8	1.84
959658--959695	11	3.5	11	85	0	58	39	31	18	10	1.85
959660--959704	22	2.0	22	91	0	72	42	31	17	8	1.80
966732--966774	15	2.7	16	78	10	52	0	20	32	46	1.51
966737--966785	15	3.2	15	79	2	62	0	22	34	42	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
967067--968652	166	9.6	165	83	6	1884	35	14	21	27	1.93
967014--968610	331	4.9	327	85	6	1959	35	14	21	27	1.93
968431--968841	222	1.9	221	84	6	553	36	15	19	28	1.93
974588--974615	2	14.0	2	100	0	56	0	0	50	50	1.00
974617--974663	2	23.5	2	95	0	85	0	48	0	51	1.00
983515--983575	22	2.8	22	78	9	70	18	24	14	42	1.88
983899--983940	2	21.0	2	100	0	84	0	50	0	50	1.00
985277--985319	11	3.9	11	87	0	68	32	9	30	27	1.88
985351--985379	11	2.6	11	100	0	58	31	10	31	27	1.90
986988--987046	2	30.0	2	93	3	102	0	49	0	50	1.00
990761--990921	63	2.8	57	78	15	170	18	18	16	46	1.84
990819--990946	63	2.0	63	96	0	238	16	20	15	47	1.82
1005756--1005790	17	2.1	16	89	5	52	54	0	0	45	0.99
1007424--1007461	4	9.8	4	88	5	51	0	42	26	31	1.56
1007424--1007464	16	2.6	16	92	3	66	0	39	26	34	1.57
1007635--1007962	165	2.0	164	86	1	460	37	20	15	26	1.93
1012505--1012536	16	2.0	16	93	0	55	15	12	21	50	1.77
1015434--1015487	21	2.5	22	79	8	76	33	24	5	37	1.79
1018344--1018760	167	2.5	165	81	6	481	33	17	19	28	1.95
1019188--1019220	16	2.1	16	100	0	66	6	6	18	69	1.30
1022716--1022745	12	2.5	12	100	0	60	33	33	10	23	1.88
1026270--1026745	238	2.0	237	99	0	934	32	14	22	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1056388--1056494	31	3.7	31	78	19	149	27	40	18	14	1.89
1056377--1056494	54	2.2	54	98	0	227	27	39	18	14	1.89
1057687--1057721	2	17.5	2	100	0	70	48	0	51	0	1.00
1059075--1059107	16	2.1	16	94	0	57	15	36	12	36	1.84
1061075--1061121	2	23.5	2	100	0	94	48	0	51	0	1.00
1066760--1067402	155	4.1	156	77	8	598	33	16	22	27	1.95
1080654--1080698	23	2.0	23	95	0	81	8	15	44	31	1.77
1080660--1080704	23	2.0	23	82	4	56	13	15	42	28	1.85
1080677--1080791	31	3.7	31	96	0	212	15	18	39	26	1.91
1080643--1080802	62	2.8	54	84	14	230	15	18	38	27	1.91

Tables:   1   2   3   4