genome.fa.s322.2.7.7.80.10.50.1000.4.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: Scaffold322
Parameters: 2 7 7 80 10 50 1000
Length:  1390506

Tables:   1   2   3   4   5   6   7   8   9   

This is table  4  of  9  ( 1030 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)
474082--474276	104	1.9	104	83	2	257	26	26	16	31	1.96
477938--478004	27	2.5	27	92	0	116	28	31	13	26	1.94
489939--489975	19	1.9	19	94	0	65	43	18	5	32	1.73
493100--493147	22	2.2	22	81	7	53	68	14	4	12	1.34
495885--496019	52	2.6	51	90	2	209	46	11	11	30	1.75
496150--496201	21	2.5	21	87	0	68	36	13	25	25	1.92
501908--501989	28	2.9	28	80	7	96	26	17	31	24	1.97
501972--502142	51	3.3	51	79	4	198	32	11	26	29	1.92
502125--502200	27	2.8	28	88	6	102	21	21	34	23	1.97
504689--505427	55	13.4	55	88	4	1016	21	20	29	28	1.98
504933--505018	29	3.1	29	65	21	83	18	19	32	29	1.96
505208--505293	29	3.1	29	65	21	83	18	19	32	29	1.96
505340--505427	26	3.3	26	68	20	81	19	18	34	28	1.95
506390--506452	27	2.4	26	82	10	74	0	9	6	84	0.79
506408--506466	13	4.8	12	81	12	66	0	6	6	86	0.71
506407--506468	23	2.7	23	78	12	72	0	8	8	83	0.80
506431--506468	15	2.7	14	92	8	60	0	7	5	86	0.69
518868--518949	28	2.9	28	80	7	96	26	17	31	24	1.97
518932--519102	51	3.3	51	79	4	198	32	11	26	29	1.92
519085--519160	27	2.8	28	88	6	102	21	21	34	23	1.97
521623--521648	13	2.0	13	100	0	52	38	15	15	30	1.88
521602--521668	33	2.0	33	88	0	98	43	16	14	25	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
521688--521755	19	3.9	18	76	23	83	38	14	11	35	1.83
521710--521734	13	1.9	13	100	0	50	32	16	16	36	1.90
521691--521753	32	2.0	32	96	0	117	36	15	12	34	1.86
521811--521867	21	2.7	21	97	0	105	36	19	10	33	1.86
521880--521905	13	2.0	13	100	0	52	15	7	0	76	0.99
526084--526138	20	2.6	22	75	11	53	72	3	18	5	1.18
528041--528086	23	2.0	24	82	4	58	21	21	13	43	1.86
528999--529107	49	2.2	50	82	6	134	24	11	19	44	1.84
530112--530159	10	4.8	10	80	7	53	75	2	0	22	0.91
530110--530156	21	2.2	21	80	0	67	72	2	0	25	0.96
530099--530159	31	2.0	30	87	6	86	70	1	0	27	0.97
530285--530328	10	4.5	10	82	2	54	70	13	9	6	1.33
530259--530328	20	3.6	20	75	5	56	68	17	8	5	1.35
531491--531531	3	13.7	3	100	0	82	68	0	0	31	0.90
531705--531733	3	9.7	3	100	0	58	68	0	0	31	0.89
534082--534145	10	6.1	10	75	15	58	70	4	0	25	1.06
535831--535856	2	13.0	2	100	0	52	50	0	0	50	1.00
536111--536220	54	2.0	54	100	0	220	38	30	12	18	1.88
537026--537090	14	5.1	14	64	21	52	56	0	1	41	1.08
542227--542715	79	6.2	79	77	7	417	27	23	12	36	1.91
542208--542715	159	3.2	157	79	7	537	27	22	12	36	1.91
543918--543947	13	2.3	13	94	0	51	33	13	16	36	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
543903--543969	33	2.0	33	82	5	82	31	14	13	40	1.85
544485--544579	34	2.8	34	88	1	136	31	12	24	31	1.92
546201--546244	21	2.1	20	84	16	54	56	4	15	22	1.57
550063--550123	13	4.2	13	74	25	59	27	18	14	39	1.90
550060--550143	33	2.5	33	92	0	123	27	17	14	40	1.88
550202--550258	20	2.8	21	94	2	98	35	10	17	36	1.84
551922--551946	12	2.1	12	100	0	50	48	24	0	28	1.52
552062--552244	98	1.9	98	87	2	269	37	8	7	46	1.64
552812--552843	2	16.5	2	93	6	57	46	0	0	53	1.00
554499--554548	2	25.0	2	100	0	100	0	50	0	50	1.00
554550--554591	2	21.0	2	100	0	84	50	0	0	50	1.00
554839--554947	30	3.7	30	74	6	105	39	5	1	53	1.35
556036--556073	14	2.7	14	87	0	58	63	0	2	34	1.09
558104--558137	6	5.7	6	89	0	50	2	20	26	50	1.63
559979--560253	149	1.8	149	100	0	550	35	13	10	40	1.79
562188--562213	2	13.0	2	100	0	52	0	50	0	50	1.00
570857--570884	2	14.0	2	100	0	56	50	0	50	0	1.00
571071--571109	6	6.5	6	87	0	51	23	2	38	35	1.68
571143--571170	2	14.0	2	100	0	56	50	0	0	50	1.00
571219--571249	2	15.5	2	100	0	62	51	0	0	48	1.00
575776--575851	3	25.0	3	88	7	109	68	0	0	31	0.90
577505--577592	20	4.5	19	76	11	79	30	19	14	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
577627--577677	20	2.5	20	87	6	68	35	15	19	29	1.93
579271--579299	3	9.7	3	100	0	58	34	0	34	31	1.58
586139--586254	51	2.3	51	100	0	232	40	15	18	25	1.90
586283--586334	20	2.7	19	78	3	59	30	15	11	42	1.82
586380--586409	13	2.3	13	94	0	51	36	16	10	36	1.82
586364--586430	33	2.0	33	85	5	91	34	14	17	32	1.91
587365--587407	19	2.4	19	88	7	63	79	0	2	18	0.85
587366--587407	9	4.6	9	85	5	57	80	0	2	16	0.81
587494--587595	52	2.0	52	90	7	167	20	19	17	42	1.90
587603--587637	12	2.9	12	91	0	61	20	22	14	42	1.88
587778--587813	11	3.3	11	84	0	54	13	19	19	47	1.83
588270--588336	35	1.9	34	88	8	100	76	4	14	4	1.11
589674--589698	13	1.9	13	100	0	50	48	12	0	40	1.40
594412--594470	30	2.0	30	93	0	100	32	18	8	40	1.81
595600--595652	20	2.7	20	87	0	70	35	18	11	33	1.87
595706--595738	12	2.8	12	86	13	50	30	15	18	36	1.91
596745--596776	12	2.7	12	95	0	55	31	28	9	31	1.88
600752--601353	301	2.0	301	100	0	1204	44	17	16	21	1.87
602014--602063	19	2.6	19	100	0	100	36	16	12	36	1.85
602862--603417	97	5.7	97	94	0	916	30	17	26	24	1.97
603548--603798	27	8.6	27	80	14	241	31	11	35	21	1.89
603537--603798	55	4.5	57	78	13	223	32	12	34	20	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
603562--603655	34	2.8	33	90	1	143	37	13	29	19	1.90
603537--603798	82	3.0	83	80	10	222	32	12	34	20	1.90
603820--604129	31	10.0	31	84	8	373	33	15	29	22	1.95
603820--604129	94	3.3	95	83	7	386	33	15	29	22	1.95
611758--611820	19	3.7	18	76	24	73	33	12	17	36	1.88
611777--611801	13	1.9	13	100	0	50	36	16	16	32	1.90
611758--611828	32	2.2	32	97	0	133	32	12	18	36	1.88
611873--611899	13	2.1	13	100	0	54	29	14	14	40	1.86
618192--618614	211	2.0	211	97	0	792	23	25	12	38	1.89
619086--619137	21	2.4	21	87	3	68	78	17	3	0	0.89
620434--620586	31	4.9	31	80	7	159	24	30	15	30	1.95
620519--620734	35	6.5	34	73	13	148	24	30	11	34	1.90
620557--620663	35	3.1	35	86	2	153	24	29	10	35	1.88
620782--622884	144	14.3	146	77	11	1734	24	25	17	32	1.97
620844--622780	196	9.9	196	82	9	1959	24	26	17	32	1.97
621384--621451	21	3.2	21	65	19	50	27	27	14	29	1.95
620782--622825	297	7.0	291	82	8	1897	24	26	17	32	1.97
621758--622780	49	21.0	43	68	19	165	24	26	17	32	1.96
620782--622877	101	21.4	101	82	9	2023	24	25	17	32	1.97
620782--622974	52	44.8	49	78	10	2065	24	25	17	32	1.97
623754--623824	32	2.2	32	94	0	124	33	11	18	36	1.86
623754--623816	19	3.7	18	72	24	64	34	11	17	36	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
627343--627367	13	1.9	13	100	0	50	40	8	16	36	1.77
627326--627389	33	1.9	33	87	6	94	39	10	17	32	1.84
627421--627483	19	3.6	19	72	24	75	36	17	11	34	1.85
627413--627483	32	2.2	32	92	0	124	36	18	11	33	1.86
628070--628125	20	2.8	19	89	5	76	41	16	16	26	1.88
630429--630473	21	2.1	21	84	8	56	53	4	20	22	1.63
632274--632304	15	2.1	15	93	0	53	48	16	22	12	1.80
634383--634407	13	1.9	13	100	0	50	24	16	20	40	1.91
636842--636897	20	2.8	19	89	5	76	41	16	16	26	1.88
637864--637956	44	2.1	46	89	4	145	33	20	17	29	1.95

Tables:   1   2   3   4   5   6   7   8   9