genome.fa.s139.2.7.7.80.10.50.1000.4.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: Scaffold139
Parameters: 2 7 7 80 10 50 1000
Length:  1720190

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  4  of  11  ( 1306 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)
504945--504998	20	2.6	21	85	2	74	31	14	11	42	1.81
505484--506163	61	11.0	61	77	9	528	31	18	23	26	1.97
505530--506163	181	3.4	181	80	7	679	31	18	23	26	1.97
505484--506162	120	5.5	121	77	9	558	31	18	23	26	1.97
518399--518522	51	2.4	49	79	7	149	38	8	24	28	1.85
518508--518576	28	2.4	29	76	7	79	36	14	20	28	1.92
518550--518748	79	2.5	79	81	5	222	37	12	22	27	1.90
523564--523798	97	2.4	98	87	2	323	28	28	11	31	1.92
527274--527299	13	2.0	13	100	0	52	38	15	15	30	1.88
529517--529561	21	2.1	21	84	8	56	53	4	20	22	1.63
531364--531394	15	2.1	15	93	0	53	48	16	22	12	1.80
533452--533518	20	3.7	20	74	25	85	23	14	11	49	1.77
533471--533542	13	6.0	13	78	18	93	27	15	13	43	1.85
533452--533531	33	2.4	33	100	0	160	25	15	12	47	1.80
536098--536123	13	2.0	13	100	0	52	38	15	15	30	1.88
538890--538927	18	2.0	20	85	10	53	47	13	0	39	1.42
542713--542751	20	1.9	21	89	5	62	51	10	5	33	1.58
546699--546922	103	2.2	104	81	7	262	28	24	13	33	1.93
552420--552475	19	2.9	19	83	2	67	37	19	14	28	1.91
554824--554873	21	2.4	21	83	9	59	48	0	20	32	1.50
554831--554873	21	2.0	22	86	4	61	51	0	20	27	1.48
559431--559458	13	2.2	13	100	0	56	39	17	14	28	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
562108--562132	13	1.9	13	100	0	50	32	16	16	36	1.90
562184--562208	13	1.9	13	100	0	50	32	16	16	36	1.90
567386--567413	3	9.3	3	100	0	56	35	0	32	32	1.58
571765--571804	20	2.0	21	95	5	73	40	12	15	32	1.84
578358--578689	79	4.2	78	76	9	271	31	23	10	34	1.89
578404--578699	158	1.9	159	84	4	400	32	22	8	36	1.85
586540--586564	13	1.9	13	100	0	50	36	16	16	32	1.90
586521--586591	32	2.2	32	94	0	124	30	12	19	36	1.89
586519--586583	19	3.7	19	73	23	70	30	12	18	38	1.88
592356--592389	17	1.9	17	88	5	50	55	0	23	20	1.43
593775--594113	79	4.3	78	76	9	298	30	24	9	35	1.88
593822--594112	158	1.8	157	82	7	367	30	23	9	37	1.86
600020--600117	48	2.0	48	100	0	196	27	6	16	50	1.69
601438--601464	13	2.1	13	100	0	54	22	18	14	44	1.86
603903--603958	19	2.9	19	81	2	58	33	19	10	35	1.87
604007--604031	13	1.9	13	100	0	50	36	16	16	32	1.90
606009--606033	13	1.9	13	100	0	50	36	16	16	32	1.90
606120--606149	13	2.3	13	94	0	51	33	13	13	40	1.83
608184--608219	15	2.4	15	85	0	54	52	2	11	33	1.51
612548--612748	52	3.9	52	92	1	323	29	16	18	34	1.94
612737--612761	13	1.9	13	100	0	50	36	16	16	32	1.90
612824--612848	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)
612906--612947	21	2.0	21	90	0	66	35	14	14	35	1.86
613666--613992	171	1.9	171	94	0	573	36	14	25	23	1.93
613737--613895	49	3.1	49	76	6	147	35	15	23	24	1.94
613975--614103	66	2.0	66	96	0	240	31	20	23	25	1.98
614041--614310	49	5.6	49	92	2	381	31	17	25	25	1.97
614310--614379	33	2.1	35	91	5	117	20	17	35	27	1.94
614364--614516	34	4.4	34	83	9	168	32	11	35	20	1.89
614415--614540	33	4.0	29	78	17	119	30	14	32	23	1.94
615983--616100	1	118.0	1	73	0	56	3	3	10	83	0.89
615983--616100	18	6.3	19	75	10	93	3	3	10	83	0.89
615986--616100	8	12.7	9	71	14	69	3	3	10	82	0.91
616019--616099	32	2.5	32	87	4	117	2	4	8	83	0.86
615983--616100	12	10.2	11	73	16	62	3	3	10	83	0.89
615983--616100	21	5.0	23	74	16	82	3	3	10	83	0.89
625789--625815	10	2.7	10	100	0	54	77	22	0	0	0.76
629953--630101	52	2.9	51	89	4	235	30	17	18	32	1.94
630090--630114	13	1.9	13	100	0	50	36	16	16	32	1.90
630554--630579	13	2.0	13	100	0	52	38	15	15	30	1.88
633705--633821	19	5.7	19	74	16	92	1	3	10	84	0.81
633705--633795	6	15.7	6	78	8	66	1	2	10	85	0.73
633704--633760	1	57.0	1	85	0	78	0	0	7	92	0.37
633717--633818	12	8.8	12	76	13	72	1	3	9	84	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
633704--633823	32	3.8	31	79	8	118	1	3	11	83	0.84
643504--643530	10	2.7	10	100	0	54	77	22	0	0	0.76
647667--647867	52	3.9	52	92	1	323	29	16	18	34	1.94
647856--647880	13	1.9	13	100	0	50	36	16	16	32	1.90
647943--647967	13	1.9	13	100	0	50	32	16	16	36	1.90
648025--648066	21	2.0	21	90	0	66	35	14	14	35	1.86
648349--648404	20	2.8	19	89	5	76	39	14	16	30	1.88
648474--648499	13	2.0	13	100	0	52	38	15	15	30	1.88
652568--652598	15	2.1	15	93	0	53	48	16	22	12	1.80
654682--654719	13	2.9	13	96	0	67	34	18	15	31	1.92
654831--654876	21	2.2	20	81	11	58	32	19	4	43	1.71
656989--657014	13	2.0	13	100	0	52	38	15	15	30	1.88
656971--657034	32	2.0	33	87	3	94	40	17	14	28	1.88
660573--660624	26	2.0	26	81	7	61	15	0	17	67	1.24
662726--662796	22	3.2	22	86	6	99	43	0	26	29	1.55
664122--664321	78	2.5	79	86	7	257	31	21	8	39	1.82
666488--666520	13	2.5	13	100	0	66	36	6	9	48	1.60
666488--666528	13	3.2	13	92	0	55	36	9	9	43	1.71
670601--670643	2	21.5	2	100	0	86	48	0	0	51	1.00
670691--670750	22	2.6	24	75	20	65	61	0	0	38	0.96
670713--670780	31	2.2	30	84	5	91	66	0	1	32	1.01
670803--670857	28	2.0	28	85	7	76	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
670810--670848	20	2.0	20	95	5	71	51	0	0	48	1.00
670801--670857	22	2.6	21	81	13	71	54	0	0	45	0.99
672251--672278	2	14.0	2	100	0	56	50	0	0	50	1.00
673010--673034	8	3.1	8	100	0	50	76	0	24	0	0.80
683719--683774	26	2.1	28	83	6	71	64	1	3	30	1.21
686216--686336	30	4.2	28	77	10	111	37	4	1	56	1.31
686361--686421	30	2.0	30	81	6	70	54	8	6	31	1.56
686666--686741	31	2.5	31	97	2	145	50	0	7	42	1.31
687971--688047	36	2.1	36	85	0	109	31	12	22	33	1.92
690125--690153	3	9.7	3	100	0	58	34	0	65	0	0.93
690491--690551	27	2.2	29	82	11	74	40	1	3	54	1.27
691332--691373	17	2.5	17	88	0	57	42	2	0	54	1.13
691346--691388	18	2.4	19	80	11	54	37	0	0	62	0.95
691663--691705	2	21.5	2	100	0	86	48	0	0	51	1.00
692053--692108	21	2.7	21	80	0	58	35	14	8	41	1.77
692907--692962	19	2.9	19	83	2	67	35	16	12	35	1.86
692880--692942	32	1.9	33	87	9	94	28	15	12	42	1.84
694657--694687	3	10.3	3	92	0	53	35	0	32	32	1.58
696585--696636	21	2.5	21	100	0	104	19	19	17	44	1.87
705204--705256	20	2.7	20	96	0	97	28	13	15	43	1.84
705244--705295	19	2.7	19	81	3	59	34	13	15	36	1.87
705346--705370	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
705326--705390	33	2.0	33	87	6	96	35	15	16	32	1.91
714922--714972	22	2.3	22	93	0	84	31	11	13	43	1.80
715200--715481	134	2.1	136	81	8	335	28	9	10	51	1.68
715986--716023	20	1.9	20	94	0	67	31	15	18	34	1.92
718258--718300	21	2.1	20	83	12	52	53	6	13	25	1.65
718258--718300	20	2.1	21	83	12	54	53	6	13	25	1.65
722398--722422	13	1.9	13	100	0	50	32	16	16	36	1.90
722410--722461	20	2.6	20	87	0	77	40	13	15	30	1.86
722398--722547	53	2.8	52	71	17	137	38	14	16	32	1.88
722483--722550	33	2.1	32	88	2	100	36	14	13	35	1.85

Tables:   1   2   3   4   5   6   7   8   9   10   11