genome.fa.s415.2.7.7.80.10.50.1000.3.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: Scaffold415
Parameters: 2 7 7 80 10 50 1000
Length:  1242643

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 880 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)
354305--354343	8	4.9	8	83	0	51	33	7	2	56	1.41
354672--354725	19	2.9	19	86	2	65	66	1	31	0	1.02
354692--354739	18	2.6	18	90	6	69	77	0	22	0	0.78
354696--354741	22	2.1	21	88	4	65	80	0	19	0	0.71
354692--354739	9	5.1	9	85	10	53	77	0	22	0	0.78
355748--355790	17	2.6	16	82	17	61	48	18	2	30	1.60
358862--359463	304	2.0	303	90	2	938	41	16	16	25	1.89
362787--362859	37	1.9	37	83	5	92	32	0	15	52	1.43
363344--363393	2	25.5	2	87	4	75	50	2	2	46	1.24
367348--367450	40	2.6	40	80	6	111	44	9	26	19	1.81
367577--367744	40	4.2	40	73	3	122	48	13	19	17	1.80
367884--368000	41	2.9	41	80	2	119	47	15	18	17	1.82
368472--368688	78	2.8	78	78	8	223	46	9	17	27	1.78
368447--368715	78	3.5	75	74	8	222	46	12	14	26	1.80
368447--368727	75	3.7	75	74	8	228	46	12	15	25	1.81
369421--369564	60	2.4	59	80	3	155	47	16	18	18	1.83
370567--370895	109	3.0	108	79	7	310	37	15	13	33	1.86
372502--372527	2	13.0	2	100	0	52	50	0	0	50	1.00
378961--379018	27	2.1	27	90	0	89	25	41	1	31	1.66
382396--382462	19	3.8	19	72	22	74	37	16	10	35	1.83
382399--382461	32	2.0	32	93	0	108	36	17	11	34	1.85
382750--383081	75	4.4	75	80	3	373	30	9	19	40	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
382750--383081	150	2.2	150	83	1	414	30	9	19	40	1.83
384046--384101	28	2.0	28	96	0	103	64	5	14	16	1.46
384292--384349	28	2.0	29	96	3	109	65	6	12	15	1.45
383918--384635	248	2.9	248	91	0	1132	43	18	12	25	1.84
393417--393456	19	2.1	19	85	0	53	55	0	0	45	0.99
394571--394641	29	2.4	30	80	4	90	46	12	14	26	1.80
394848--394916	31	2.2	31	84	0	84	40	13	17	28	1.87
394907--394991	30	2.8	30	83	7	100	43	17	21	17	1.88
394873--395003	31	4.3	31	77	6	133	41	16	22	19	1.90
395027--395111	31	2.8	30	81	13	79	47	12	15	24	1.81
395055--395127	31	2.4	31	79	2	85	47	16	15	20	1.82
395300--395434	56	2.4	57	81	6	141	28	17	15	38	1.90
395337--395458	56	2.2	55	82	2	145	23	17	17	41	1.89
396928--396977	12	4.2	12	78	21	52	42	0	2	56	1.11
405330--405375	19	2.4	20	85	7	60	32	0	4	63	1.14
411143--411174	3	10.7	3	100	0	64	0	34	0	65	0.93
419853--419877	12	2.1	12	100	0	50	16	16	24	44	1.86
419864--419921	30	1.9	30	89	0	89	20	25	13	39	1.90
424277--424301	7	3.6	7	100	0	50	12	0	0	88	0.53
424541--424572	4	8.0	4	100	0	64	75	0	0	25	0.81
426790--426822	16	2.0	17	88	5	50	72	9	12	6	1.26
428302--428361	21	2.9	21	69	16	54	43	0	1	55	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
428331--428355	9	2.8	9	100	0	50	48	0	0	52	1.00
432741--432804	16	4.0	16	79	0	74	23	14	20	42	1.88
432759--432810	16	3.2	16	73	10	52	23	13	19	44	1.86
441850--442271	61	7.2	60	69	16	213	38	11	23	26	1.89
441935--442315	113	3.4	112	79	3	397	36	12	24	26	1.92
442104--442420	52	5.9	52	71	11	187	36	14	23	25	1.93
442488--442802	33	9.7	32	80	6	303	20	18	31	29	1.96
442505--442791	98	2.9	96	83	9	341	20	18	32	29	1.96
442488--442802	65	4.8	64	82	4	332	20	18	31	29	1.96
442800--442958	33	4.8	33	75	9	155	44	10	22	23	1.83
442818--442942	65	1.9	64	84	7	164	44	9	22	24	1.82
443632--444075	221	2.0	221	100	0	888	32	16	19	31	1.94
444418--444471	26	2.0	27	85	3	74	5	9	5	79	1.04
444425--444472	16	2.9	16	76	17	53	4	10	4	81	0.97
446254--446308	27	2.0	27	100	0	110	36	0	29	34	1.58
452904--452935	14	2.1	16	88	11	50	50	3	15	31	1.60
453465--453514	19	2.5	21	87	6	68	42	14	14	30	1.84
453617--453690	20	3.7	19	83	7	85	29	14	12	43	1.82
463271--463336	33	2.0	33	85	5	89	40	13	15	30	1.85
463355--463433	32	2.5	31	89	4	113	34	15	12	37	1.85
463368--463453	19	4.7	19	68	25	60	34	16	11	37	1.85
469584--469631	24	2.0	24	95	0	87	16	22	12	47	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
470156--470181	12	2.2	12	100	0	52	42	7	0	50	1.31
470757--470835	30	2.6	31	81	4	97	50	18	6	24	1.70
472124--472161	11	3.3	12	89	7	53	47	0	0	52	1.00
472112--472153	14	3.1	14	79	6	50	45	0	0	54	0.99
472346--472392	25	1.9	24	82	4	58	12	38	29	19	1.89
472854--472903	22	2.3	22	86	6	66	34	2	2	62	1.18
472881--472955	37	2.0	37	82	10	91	38	2	0	58	1.12
474172--474213	18	2.3	18	84	8	50	52	4	35	7	1.50
474371--474406	2	18.5	2	88	5	56	47	0	2	50	1.15
476079--476180	8	11.9	8	68	27	59	44	0	0	54	1.06
476083--476179	32	3.4	27	75	19	90	44	1	0	54	1.06
476049--476127	42	1.9	40	82	10	97	41	0	0	58	0.98
476046--476138	40	2.3	39	77	13	100	40	0	0	59	0.98
476088--476162	32	2.3	33	88	4	107	44	1	0	54	1.08
476079--476180	27	4.0	26	72	24	83	44	0	0	54	1.06
476079--476180	19	5.4	19	70	22	72	44	0	0	54	1.06
476047--476204	17	9.2	17	68	18	55	40	0	0	58	1.07
477328--477372	21	2.2	20	84	8	54	37	2	4	55	1.32
477799--477873	40	2.0	40	82	12	95	52	0	0	48	1.00
478873--478902	14	2.1	14	93	0	51	40	0	0	60	0.97
480504--480552	19	2.5	19	80	3	53	71	4	12	12	1.28
481001--481073	21	3.6	21	79	7	78	39	9	15	35	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
481109--481251	50	2.8	50	80	6	162	30	15	14	39	1.87
483397--483421	8	3.1	8	100	0	50	40	12	0	48	1.40
486869--487678	62	13.2	62	78	6	765	26	24	17	31	1.97
487334--487651	123	2.7	112	82	7	350	24	25	18	31	1.98
487450--487678	61	3.7	62	84	4	223	26	24	18	30	1.98
487450--487678	123	1.9	123	82	3	291	26	24	18	30	1.98
487669--488070	42	9.5	42	82	8	456	23	25	10	40	1.87
487669--488070	85	4.7	84	85	6	481	23	25	10	40	1.87
488157--488181	7	3.6	7	100	0	50	0	32	12	56	1.36
490828--490875	24	2.1	21	81	11	51	29	6	8	56	1.53
491347--491801	79	5.8	79	80	5	478	27	25	12	34	1.92
496969--496993	2	12.5	2	100	0	50	0	52	0	48	1.00
497511--497535	11	2.3	11	100	0	50	16	0	0	84	0.63
497549--497579	15	2.1	15	93	0	53	32	0	0	67	0.91
499323--499379	22	2.6	22	81	8	64	50	0	0	49	1.00
499356--499406	14	3.3	15	75	10	50	54	0	0	45	0.99
499340--499421	36	2.3	35	83	10	96	52	0	0	47	1.00
499912--500250	167	2.0	167	91	3	549	25	21	9	44	1.81
500608--500693	10	9.1	10	65	21	51	36	0	1	62	1.03
500661--500701	21	2.1	19	86	9	55	39	0	0	60	0.96
500604--500754	57	2.6	56	72	19	132	36	0	1	60	1.13
500720--500752	14	2.3	15	89	5	50	27	0	0	72	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
508599--508656	21	2.8	22	82	10	77	58	0	0	41	0.98
511699--511738	11	3.4	13	77	22	52	57	0	0	42	0.98
511859--512603	372	2.0	372	91	0	1222	37	13	6	42	1.71
514853--515093	96	2.5	96	91	0	401	29	15	29	26	1.96
517247--517402	20	7.6	20	70	16	104	41	11	14	32	1.82
517291--517364	38	1.9	38	86	5	105	41	13	14	29	1.85
518096--518139	21	2.1	21	91	0	70	40	6	13	38	1.71
518308--518357	18	2.8	18	73	11	57	40	0	0	60	0.97
518304--518351	24	2.0	25	84	12	64	43	0	0	56	0.99
518830--518954	53	2.4	53	78	2	135	46	10	8	35	1.68

Tables:   1   2   3   4   5   6   7   8