genome.fa.s341.2.7.7.80.10.50.1000.5.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: Scaffold341
Parameters: 2 7 7 80 10 50 1000
Length:  1349338

Tables:   1   2   3   4   5   6   7   8   9   

This is table  5  of  9  ( 1050 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)
605362--605505	24	5.8	24	72	9	94	57	4	8	29	1.49
611365--611419	2	28.0	2	76	10	51	47	3	0	49	1.19
611348--611405	27	2.0	28	87	9	82	46	6	0	46	1.29
611348--611409	31	2.0	30	96	3	115	46	6	0	46	1.28
611828--611860	16	2.1	16	88	11	50	33	0	6	60	1.21
615936--616003	30	2.3	30	100	0	136	29	10	42	17	1.82
616350--616375	13	2.0	13	100	0	52	30	15	15	38	1.88
618676--618712	16	2.3	16	100	0	74	35	0	5	59	1.20
619630--619682	20	2.7	20	93	0	88	28	11	20	39	1.87
627693--627761	20	3.5	19	82	9	77	40	13	14	31	1.84
628703--628732	14	2.1	15	93	6	53	83	0	16	0	0.65
629966--629994	15	1.9	15	100	0	58	55	0	0	44	0.99
630602--630686	27	2.9	30	67	13	79	43	2	0	54	1.13
630617--630688	35	2.0	36	83	8	92	45	2	0	51	1.15
630628--630697	35	2.0	34	83	8	88	41	2	0	55	1.14
634263--634445	66	2.7	68	84	6	246	53	14	15	17	1.74
637875--637923	3	16.3	3	100	0	98	0	32	0	67	0.91
638866--638926	21	3.0	20	76	13	61	42	0	1	55	1.09
639118--639151	11	2.8	12	86	13	52	64	0	0	35	0.94
640218--640265	20	2.3	21	89	7	71	43	0	0	56	0.99
640211--640261	20	2.9	16	76	23	57	45	0	0	54	0.99
640237--640283	16	2.9	16	81	9	51	40	0	0	59	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
640211--640286	22	3.4	22	75	12	66	44	0	0	55	0.99
640229--640316	25	3.7	26	71	17	66	44	0	0	55	0.99
640707--640762	6	9.3	6	75	7	51	41	8	0	50	1.34
640707--640762	24	2.3	24	87	0	85	41	8	0	50	1.34
640708--640754	8	5.9	8	97	0	85	40	10	0	48	1.38
641398--641426	2	14.5	2	100	0	58	51	0	0	48	1.00
644340--644430	16	5.4	17	78	18	91	0	27	0	72	0.85
644340--644396	17	3.4	17	83	11	73	0	24	0	75	0.80
644333--644427	4	23.8	4	70	16	54	0	27	0	72	0.85
644374--644426	23	2.5	21	82	11	56	0	32	0	67	0.91
644383--644422	15	2.7	15	88	0	53	0	35	0	65	0.93
644471--644521	21	2.3	23	74	19	54	58	7	0	33	1.27
644574--644681	33	3.2	33	67	10	81	53	8	1	36	1.42
644701--644763	23	2.7	23	78	9	65	63	7	0	28	1.22
644636--644768	22	5.7	23	70	19	89	57	8	0	33	1.28
644999--645147	66	2.3	65	79	9	160	38	3	2	55	1.31
645130--645165	18	2.0	18	94	0	63	30	0	0	69	0.89
646341--646383	11	3.8	11	78	6	50	30	0	4	65	1.13
646328--646407	17	4.6	17	72	18	67	32	0	2	65	1.06
646330--646407	6	13.5	6	68	20	51	33	0	2	64	1.08
646326--646407	23	3.6	24	79	11	84	31	0	3	64	1.11
646374--646422	20	2.5	20	83	6	55	40	2	0	57	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
646873--646971	49	2.0	51	94	6	175	37	6	18	38	1.75
648295--648320	2	13.0	2	100	0	52	50	0	0	50	1.00
648565--648604	20	2.0	20	85	9	55	45	2	2	50	1.28
648698--648737	18	2.1	20	90	9	66	42	0	0	57	0.98
649980--650039	18	3.4	19	80	13	65	61	0	0	38	0.96
649987--650112	22	5.7	23	69	18	74	59	0	0	40	0.97
650081--650120	21	1.9	21	94	0	71	62	0	0	37	0.95
650082--650128	21	2.2	21	88	0	67	61	4	0	34	1.15
651530--651556	4	6.8	4	100	0	54	74	0	0	25	0.83
652481--652533	24	2.2	25	82	3	63	60	1	20	16	1.45
652778--652828	21	2.4	21	75	18	52	62	0	0	37	0.95
652830--652895	25	2.7	24	69	4	60	56	0	3	40	1.15
652744--652890	31	4.4	34	74	17	139	57	0	2	40	1.10
652867--652952	21	4.0	21	66	18	52	66	1	2	30	1.12
653469--653530	17	3.8	17	74	17	51	24	0	3	72	0.99
653625--653662	18	2.0	20	90	10	62	50	0	0	50	1.00
653622--653668	10	4.6	11	77	22	50	46	0	0	53	1.00
654297--654334	15	2.5	15	87	8	51	28	2	0	68	1.03
654404--654433	14	2.1	15	93	6	53	43	0	0	56	0.99
657390--657476	29	3.0	29	77	3	86	42	2	0	55	1.12
657702--657731	15	1.9	16	93	6	53	46	0	0	53	1.00
657756--657819	16	3.8	17	76	13	69	34	3	1	60	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
657823--657861	17	2.4	17	86	4	53	38	10	0	51	1.36
662497--662571	30	2.5	30	91	0	114	45	13	17	24	1.84
666936--666977	14	2.9	14	85	3	57	45	23	7	23	1.78
667406--667443	19	2.0	19	89	0	58	52	10	5	31	1.58
668817--668852	18	2.0	18	100	0	72	44	11	5	38	1.63
675086--675137	18	2.9	19	72	13	56	48	3	0	48	1.20
675393--675438	17	2.8	17	78	15	51	69	0	0	30	0.89
676293--676318	4	6.5	4	100	0	52	0	26	0	73	0.84
685551--685611	2	31.5	2	85	6	81	45	1	3	49	1.28
694150--694204	23	2.4	23	78	0	65	49	1	3	45	1.30
694170--694294	30	4.2	30	73	17	107	54	0	3	41	1.22
694645--694680	19	2.0	17	89	10	54	19	0	11	69	1.18
695315--695374	31	2.0	30	84	15	79	45	1	0	53	1.10
695310--695372	15	4.1	15	72	23	60	47	1	0	50	1.10
695587--695645	19	2.9	18	79	18	55	47	1	0	50	1.11
700056--700614	79	7.1	79	80	5	520	27	24	12	35	1.92
703539--703781	97	2.5	95	84	7	287	34	12	22	30	1.91
706134--706273	52	2.7	52	86	0	172	45	11	12	30	1.78
716669--716743	20	3.8	20	80	3	80	40	12	13	34	1.81
716666--716743	40	2.0	39	87	2	111	39	12	12	34	1.82
720305--720384	40	2.0	40	90	0	124	47	18	5	28	1.70
724326--724384	24	2.5	23	84	10	75	66	3	0	30	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
724750--724790	21	2.0	21	85	9	57	39	0	0	60	0.96
726653--726724	34	2.1	34	92	0	117	25	15	6	52	1.67
727177--727208	15	2.1	15	94	0	55	46	12	3	37	1.57
728026--728065	3	13.3	3	100	0	80	67	0	0	32	0.91
729507--729539	17	1.9	17	93	0	57	39	0	0	60	0.97
730991--731037	23	2.0	23	100	0	94	25	23	4	46	1.70
731899--731933	3	11.7	3	100	0	70	68	0	0	31	0.90
732110--732144	18	1.9	18	94	0	61	51	0	5	42	1.25
734709--734737	2	14.5	2	100	0	58	0	48	0	51	1.00
734737--734761	2	12.5	2	100	0	50	48	0	0	52	1.00
736139--736194	22	2.6	22	71	15	55	58	0	5	35	1.21
738118--738173	19	2.9	19	73	24	55	48	0	0	51	1.00
738112--738158	19	2.6	17	76	20	51	44	0	0	55	0.99
739739--739793	18	3.2	18	75	10	53	47	5	0	47	1.25
739736--739828	29	3.2	29	80	11	102	43	5	0	51	1.24
739736--739813	39	2.1	37	82	4	93	43	5	0	51	1.24
744004--744053	25	2.0	25	100	0	100	44	8	24	24	1.80
750762--751090	28	12.3	28	71	10	170	29	27	18	23	1.98
750785--750888	50	2.1	50	90	0	163	26	25	20	26	1.99
750813--750860	22	2.2	22	92	0	78	25	29	22	22	1.99
750785--750989	78	2.6	78	87	0	284	26	27	19	26	1.99
750733--751114	28	14.2	28	70	14	128	30	27	18	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
751020--751129	28	4.0	28	74	9	100	34	25	18	21	1.96
751434--751534	43	2.4	42	81	5	112	43	14	29	11	1.82
752139--752191	4	14.5	4	86	11	62	75	0	24	0	0.80
752143--752190	7	7.3	7	77	17	50	75	0	25	0	0.81
752137--752186	18	3.1	17	81	18	70	74	0	26	0	0.83
752137--752195	25	2.4	24	88	5	82	76	0	23	0	0.79
752605--752629	3	8.3	3	100	0	50	32	0	0	68	0.90
752909--753425	109	4.7	109	81	2	484	34	16	16	32	1.92
752957--753447	219	2.2	218	79	4	517	34	17	16	31	1.92
755503--755559	21	2.6	21	72	5	51	52	0	0	47	1.00

Tables:   1   2   3   4   5   6   7   8   9