genome.fa.s293.2.7.7.80.10.50.1000.4.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: Scaffold293
Parameters: 2 7 7 80 10 50 1000
Length:  1704560

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  4  of  12  ( 1341 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)
489788--489856	30	2.4	30	75	18	74	57	1	1	39	1.16
489981--490009	11	2.6	11	100	0	58	86	0	13	0	0.58
489981--490017	11	3.1	13	88	11	53	83	0	16	0	0.64
490099--490134	2	18.5	2	94	5	65	50	0	0	50	1.00
491758--491808	24	2.1	25	85	3	68	54	17	7	19	1.67
494126--494169	20	2.0	22	83	12	56	63	4	0	31	1.14
494182--494220	19	2.0	20	90	5	62	33	7	5	53	1.51
494218--494264	13	3.3	14	77	13	51	40	0	8	51	1.33
495347--495389	3	14.0	3	80	4	50	2	6	32	58	1.38
495316--495434	58	2.1	54	81	9	139	7	11	27	52	1.64
495514--495561	18	2.7	18	87	6	62	14	6	8	70	1.31
495508--495560	18	2.7	20	77	17	56	13	5	11	69	1.34
495555--495664	45	2.4	45	88	8	170	24	0	20	55	1.43
495567--495637	23	3.1	23	62	11	56	22	0	22	54	1.44
495578--495647	22	3.1	22	64	11	61	25	0	20	54	1.45
495695--495732	9	3.9	10	83	16	53	42	0	0	57	0.98
502332--502383	25	2.2	25	93	6	90	32	7	7	51	1.59
502533--502587	17	3.1	18	72	17	53	45	0	1	52	1.11
502560--502665	52	2.1	51	81	1	122	39	0	1	58	1.09
510739--510776	3	13.0	3	94	5	69	34	0	31	34	1.58
511047--511089	16	2.7	16	100	0	86	60	0	0	39	0.97
511334--511418	9	9.8	9	72	16	56	63	0	0	36	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
511326--511405	19	4.1	19	73	19	65	60	0	0	40	0.97
511372--511414	19	2.1	21	79	12	54	65	0	0	34	0.93
511335--511425	24	3.8	24	74	17	73	61	0	0	38	0.96
511997--512026	12	2.5	12	94	0	51	56	0	6	36	1.26
512179--512219	19	2.2	19	91	4	66	31	0	9	58	1.31
512174--512221	18	2.5	19	76	13	53	33	0	8	58	1.28
512698--512731	12	2.8	12	95	0	59	76	8	0	14	1.01
512698--512731	16	2.1	16	94	0	59	76	8	0	14	1.01
513099--513125	2	13.5	2	100	0	54	48	0	0	51	1.00
513397--513433	16	2.3	16	90	9	58	56	0	0	43	0.99
513468--513510	23	2.0	21	86	9	59	44	2	0	53	1.13
513593--513638	24	2.0	22	87	8	65	58	0	0	41	0.98
513587--513656	33	2.1	33	82	10	81	58	0	0	41	0.98
513618--513681	15	4.2	16	74	9	62	56	3	1	39	1.25
513618--513678	16	4.1	15	77	12	54	55	3	1	39	1.26
513630--513686	30	1.9	30	85	7	80	56	3	1	38	1.27
521905--521977	24	3.2	21	70	24	58	26	0	5	68	1.11
522095--522430	113	2.9	112	76	15	312	53	1	2	42	1.25
522432--522474	16	2.6	17	81	3	52	34	0	0	65	0.93
523168--523614	90	5.0	88	81	6	415	42	7	14	34	1.75
523168--523595	178	2.4	169	81	7	482	42	7	14	35	1.74
525654--525683	14	2.1	15	93	6	53	60	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
526276--526364	23	3.8	23	76	15	85	35	1	1	61	1.11
526277--526353	22	3.2	24	80	14	88	33	1	1	63	1.11
526349--526424	30	2.5	31	80	8	93	48	2	0	48	1.15
526379--526680	117	2.7	115	86	7	408	43	3	0	52	1.21
526846--526896	13	3.6	14	82	15	61	54	0	0	45	0.99
526846--526896	26	1.9	26	88	4	75	54	0	0	45	0.99
527460--527500	6	6.8	6	97	0	73	19	51	12	17	1.76
527574--527606	3	11.0	3	100	0	66	33	0	0	66	0.92
536261--536301	3	13.7	3	100	0	82	31	0	0	68	0.90
540711--540771	27	2.3	27	91	0	95	29	18	40	11	1.85
541040--541074	18	1.9	18	88	0	52	28	20	42	8	1.81
541719--541771	26	2.1	25	92	3	88	26	16	35	20	1.94
541800--541926	59	2.2	59	89	0	191	17	15	32	34	1.91
548779--548850	28	2.6	28	81	0	81	25	18	33	23	1.97
548843--548967	51	2.4	52	81	6	155	36	9	22	32	1.86
551329--551354	13	2.0	13	100	0	52	38	15	15	30	1.88
551308--551374	33	2.0	33	88	0	98	43	16	14	25	1.86
551394--551461	19	3.9	18	76	23	83	38	14	11	35	1.83
551416--551440	13	1.9	13	100	0	50	32	16	16	36	1.90
551397--551459	32	2.0	32	96	0	117	36	15	12	34	1.86
551720--551787	19	3.9	19	78	21	85	35	11	14	38	1.83
551741--551765	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)
551722--551784	32	2.0	32	96	0	117	34	12	15	36	1.86
551827--551852	13	2.0	13	100	0	52	30	15	15	38	1.88
551807--551869	33	1.9	33	86	0	90	25	14	17	42	1.87
554217--554340	51	2.4	50	81	5	158	33	22	9	33	1.87
554329--554400	28	2.6	28	81	0	81	23	33	18	25	1.97
557399--557437	19	2.0	20	85	5	53	46	0	7	46	1.31
560048--560094	2	23.5	2	95	0	85	48	0	2	48	1.13
560357--560391	2	17.5	2	93	0	61	48	2	0	48	1.16
562456--562491	2	18.0	2	100	0	72	50	0	0	50	1.00
565591--565626	2	18.0	2	100	0	72	50	0	0	50	1.00
570676--570909	75	3.1	75	85	4	303	10	46	9	33	1.72
570928--571039	21	5.9	20	74	17	80	2	44	1	50	1.26
570888--571048	72	2.2	72	82	9	186	4	44	1	49	1.30
570941--571048	39	2.9	37	72	16	98	4	45	0	49	1.29
571874--571920	24	2.0	24	83	8	60	57	0	0	42	0.98
571883--571934	24	2.1	24	89	3	77	57	0	0	42	0.98
572442--572476	12	3.0	11	88	12	52	48	0	0	51	1.00
572442--572495	26	2.2	25	87	9	76	53	0	0	46	1.00
572951--572991	14	2.7	15	82	17	50	26	0	0	73	0.84
573228--573293	20	3.0	21	72	22	64	57	1	0	40	1.08
574399--574442	22	2.0	22	100	0	88	36	18	9	36	1.82
578444--578495	23	2.4	21	80	6	59	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
578931--578961	15	2.0	16	93	6	55	41	6	0	51	1.27
578923--578969	17	2.8	17	81	18	62	42	4	0	53	1.20
578936--578969	15	2.2	15	89	5	50	41	5	0	52	1.25
585606--585648	12	3.3	13	80	9	52	58	0	2	39	1.11
585643--585710	11	6.9	10	69	15	52	58	0	0	41	0.98
585631--585731	29	3.6	27	77	17	82	56	0	1	41	1.10
585621--585723	19	5.3	18	73	19	66	57	0	1	40	1.10
586293--586317	2	12.5	2	100	0	50	48	0	52	0	1.00
587241--587274	2	17.0	2	100	0	68	50	0	0	50	1.00
587274--587308	2	17.5	2	100	0	70	51	0	48	0	1.00
588693--588740	14	3.5	15	75	18	50	37	2	0	60	1.09
596919--596967	24	2.0	24	100	0	98	32	36	6	24	1.80
608610--608657	15	3.1	15	87	3	60	50	0	0	50	1.00
609408--609466	15	3.8	15	86	4	73	35	0	11	52	1.38
609820--609871	27	1.9	27	84	7	70	40	5	11	42	1.65
611061--611129	26	2.7	26	82	10	88	53	0	1	44	1.09
611080--611180	23	4.5	24	67	27	69	52	0	1	45	1.12
611087--611168	39	2.0	40	84	9	105	48	0	1	50	1.08
611144--611211	27	2.4	27	77	18	68	52	1	2	42	1.25
611054--611221	66	2.6	63	78	16	157	53	0	1	44	1.15
612542--612589	21	2.2	22	88	7	71	33	0	10	56	1.34
612609--612651	21	2.2	20	87	8	61	37	0	2	60	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
612617--612679	27	2.2	30	83	8	78	36	3	3	57	1.31
612609--612680	30	2.4	29	84	11	83	36	2	2	58	1.27
613058--613092	18	1.9	18	88	0	52	60	0	0	40	0.97
614349--614377	2	14.5	2	100	0	58	51	0	0	48	1.00
619008--619044	2	18.5	2	88	0	56	56	43	0	0	0.99
622047--622075	5	5.8	5	100	0	58	0	62	0	37	0.96
623269--623316	17	2.9	17	84	9	64	47	2	0	50	1.12
623277--623316	16	2.5	17	88	8	57	47	2	0	50	1.14
625256--625298	17	2.6	17	79	17	54	32	0	0	67	0.91
625614--625672	23	2.6	22	73	19	59	52	0	0	47	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12