genome.fa.s289.2.7.7.80.10.50.1000.4.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

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: Scaffold289
Parameters: 2 7 7 80 10 50 1000
Length:  700734

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 503 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)
479253--479308	19	2.8	19	83	5	67	42	10	16	30	1.82
483458--483556	24	3.9	24	65	17	65	58	4	8	29	1.45
483493--483531	20	2.0	20	89	0	60	61	2	10	25	1.41
483460--483569	53	2.1	53	87	0	157	60	4	8	27	1.45
486226--486353	41	3.3	41	63	30	102	55	8	0	35	1.31
486158--486354	73	2.7	73	84	10	246	56	7	1	34	1.37
487706--487740	10	3.2	11	88	12	54	48	0	0	51	1.00
487708--487739	16	2.1	15	94	5	55	43	0	0	56	0.99
487743--487823	15	5.3	15	73	15	58	61	4	3	29	1.34
487746--487807	31	2.0	32	87	9	92	61	6	0	32	1.21
487743--487808	16	4.2	16	80	14	68	63	6	0	30	1.18
487751--487823	31	2.4	31	84	9	87	60	5	4	30	1.38
500140--500226	21	4.1	21	82	5	70	12	21	10	55	1.67
500162--500226	21	3.2	21	84	4	80	12	23	9	55	1.65
502293--502348	20	2.8	20	80	0	67	30	16	16	37	1.90
506767--506796	12	2.5	12	100	0	60	36	23	10	30	1.87
512165--512216	22	2.4	22	93	0	86	26	36	1	34	1.68
512186--512332	73	2.0	74	97	1	278	33	22	2	41	1.68
514573--514598	13	2.0	13	100	0	52	30	15	15	38	1.88
514698--514722	13	1.9	13	100	0	50	36	16	16	32	1.90
519288--519329	21	2.1	19	86	8	57	26	9	7	57	1.56
521299--521339	12	3.4	12	79	0	55	85	2	4	7	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
521299--521348	24	2.0	24	88	3	73	80	2	10	8	0.99
522438--523338	28	31.4	28	85	4	1041	29	30	16	22	1.96
522438--523434	57	17.2	57	82	6	1066	29	30	16	23	1.96
522438--523449	85	11.6	85	83	6	1138	29	30	16	23	1.96
523521--523631	49	2.4	47	83	6	127	21	26	19	32	1.97
524596--524663	20	3.4	20	83	0	91	32	14	11	41	1.82
525616--525662	22	2.1	23	84	4	60	27	17	10	44	1.81
535030--535077	24	2.0	24	87	0	69	52	4	8	35	1.51
537603--538128	64	8.3	64	73	7	308	36	11	16	35	1.85
537602--537900	32	9.4	32	69	4	147	34	13	16	36	1.87
537942--538189	126	1.9	131	83	7	321	37	10	14	36	1.82
537944--538189	67	3.8	63	73	8	194	37	10	15	36	1.81
542957--543013	20	2.8	20	83	2	69	26	14	28	31	1.94
545544--545711	80	2.1	80	85	4	223	29	28	8	33	1.86
548541--548673	68	2.0	68	96	0	248	30	10	33	25	1.90
551389--551425	11	3.3	11	88	3	56	32	2	5	59	1.34
551389--551425	12	3.2	12	88	7	58	32	2	5	59	1.34
552802--552840	18	2.2	19	86	9	55	76	0	10	12	1.01
557299--557420	52	2.3	52	97	0	226	27	17	19	35	1.94
560487--560611	52	2.4	52	95	0	223	28	17	18	36	1.94
560487--560631	52	2.8	51	89	4	211	29	17	18	34	1.94
560708--560732	13	1.9	13	100	0	50	32	16	16	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
560686--560752	33	2.0	33	88	0	98	40	13	11	34	1.81
561077--561101	13	1.9	13	100	0	50	36	16	16	32	1.90
561175--561199	13	1.9	13	100	0	50	32	16	16	36	1.90
561901--562317	155	2.7	156	81	3	480	24	18	18	38	1.92
563847--563879	2	16.5	2	100	0	66	48	0	0	51	1.00
564333--564611	140	2.0	141	94	2	488	26	18	28	26	1.98
564915--564959	18	2.5	18	82	7	56	35	0	0	64	0.94
565520--565549	16	1.9	15	93	6	51	53	3	0	43	1.17
567294--567347	25	2.2	24	81	12	65	48	0	5	46	1.25
567314--567350	19	1.9	19	88	0	56	48	0	0	51	1.00
567562--567625	32	2.1	32	82	8	80	35	3	3	57	1.30
567608--567639	15	2.1	15	94	0	55	53	3	0	43	1.16
568472--568519	15	3.2	15	78	0	51	33	0	2	64	1.05
569221--569271	13	3.7	13	76	21	50	64	0	0	35	0.94
569302--569340	14	2.8	14	84	11	53	66	0	0	33	0.92
569237--569358	63	1.9	66	86	8	180	58	0	0	40	1.10
569244--569385	63	2.3	62	78	10	153	59	0	0	38	1.07
570757--570796	15	2.5	16	88	8	55	57	0	0	42	0.98
570757--570799	16	2.6	17	85	10	63	55	0	0	44	0.99
571719--571754	19	2.0	19	89	10	58	72	5	2	19	1.17
571727--571779	22	2.4	22	81	6	63	69	1	3	24	1.15
572141--572196	15	3.6	15	81	9	67	1	16	0	82	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
572139--572192	25	2.2	24	86	3	72	1	14	0	83	0.73
572143--572227	4	22.8	4	75	11	74	2	17	1	78	0.91
574279--574322	22	2.0	22	86	0	61	36	2	2	59	1.23
574971--575024	12	4.8	11	82	10	65	38	1	0	59	1.08
574974--575018	23	2.0	22	86	8	63	37	2	0	60	1.09
575512--575578	26	2.5	26	85	4	80	47	0	1	50	1.10
576916--576953	19	2.0	20	84	5	51	5	15	0	78	0.91
576916--576954	20	2.0	20	85	10	53	5	15	0	79	0.90
577051--577162	49	2.3	49	89	6	172	50	5	6	38	1.51
582414--582439	2	13.0	2	100	0	52	0	50	0	50	1.00
586573--586634	11	5.7	10	73	14	52	64	1	1	32	1.13
586956--586989	2	17.0	2	100	0	68	50	0	0	50	1.00
598440--598503	33	2.0	33	87	3	94	34	12	17	35	1.87
598589--598639	20	2.5	20	87	0	66	33	15	15	35	1.90
600574--600626	20	2.5	21	84	12	72	3	24	49	22	1.66
601059--601096	13	2.9	13	92	0	58	34	13	18	34	1.89
604490--604515	13	2.0	13	100	0	52	38	15	15	30	1.88
604472--604536	32	2.0	32	87	6	94	40	18	12	29	1.87
608576--608614	15	2.6	15	88	8	53	53	15	17	12	1.72
610555--610601	21	2.3	20	82	10	60	31	19	4	44	1.70
612895--612949	21	2.6	22	83	11	71	34	12	20	32	1.90
612997--613022	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
614751--614777	13	2.1	13	100	0	54	40	14	14	29	1.86
614809--614861	20	2.6	21	84	3	72	28	16	15	39	1.89
614849--614877	13	2.2	13	100	0	58	37	13	17	31	1.89
614863--614913	20	2.5	20	87	0	66	33	15	15	35	1.90
623600--623652	20	2.6	21	84	3	72	28	16	15	39	1.89
623640--623668	13	2.2	13	100	0	58	37	13	17	31	1.89
623654--623704	20	2.5	20	87	0	66	33	15	15	35	1.90
625305--625334	12	2.5	12	94	0	51	30	26	0	43	1.55
632589--632709	52	2.3	52	97	0	224	28	18	18	34	1.94
632589--632729	52	2.7	51	90	4	212	30	17	18	33	1.94
632718--632742	13	1.9	13	100	0	50	36	16	16	32	1.90
632806--632830	13	1.9	13	100	0	50	32	16	16	36	1.90
632785--632850	32	2.0	33	88	2	98	39	13	12	34	1.82
638857--638916	19	3.2	19	78	4	77	33	1	35	30	1.68
639479--639533	19	2.8	19	86	5	74	32	16	16	34	1.91
639581--639611	13	2.4	13	94	0	53	35	16	12	35	1.87
639565--639631	33	2.0	32	86	11	91	34	13	17	34	1.89
644062--644113	20	2.6	20	84	0	68	36	21	5	36	1.77
655109--655155	25	1.9	25	91	4	78	61	0	2	36	1.08
655396--655447	25	2.1	25	85	7	70	23	17	9	50	1.75
655408--655563	29	5.6	29	72	15	123	25	20	8	44	1.80
655396--655508	14	8.1	14	71	19	76	25	18	7	47	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
655408--655555	52	2.8	52	88	5	197	26	20	8	44	1.80
655580--655613	14	2.5	13	86	13	50	20	20	14	44	1.87
656413--656448	15	2.4	15	90	0	54	72	2	22	2	1.11
656747--656803	22	2.6	22	84	13	66	56	19	21	3	1.57
668677--668745	35	1.9	36	88	2	104	73	0	11	14	1.09
670098--670885	42	18.8	42	70	9	347	19	28	17	34	1.94
670140--670886	85	8.9	86	78	6	640	18	28	17	35	1.94
670185--670903	170	4.3	170	83	6	738	18	28	17	35	1.94
670111--670884	127	6.1	128	71	7	458	19	28	17	34	1.94
670708--670860	78	2.0	78	86	0	216	18	28	18	33	1.95

Tables:   1   2   3   4   5