genome.fa.s262.2.7.7.80.10.50.1000.3.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: Scaffold262
Parameters: 2 7 7 80 10 50 1000
Length:  1141274

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 957 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)
258397--258449	17	3.1	17	83	2	70	15	1	0	83	0.74
258408--258450	22	2.0	22	86	9	61	16	2	0	81	0.79
258403--258451	16	2.9	16	78	18	55	14	2	0	83	0.73
259594--259623	11	2.7	11	94	0	51	63	0	0	36	0.95
259886--259932	19	2.7	18	75	21	55	63	10	0	25	1.26
260433--260462	15	2.0	15	93	0	51	56	0	0	43	0.99
260531--260590	19	3.1	21	70	18	58	40	0	0	60	0.97
260558--260600	14	3.1	14	76	6	52	39	0	0	60	0.97
260597--260640	21	2.1	21	86	0	61	52	0	0	47	1.00
262279--262309	14	2.2	14	94	0	53	54	0	0	45	0.99
263761--263796	18	1.9	19	88	5	56	38	5	2	52	1.39
264360--264399	20	2.0	21	90	5	64	55	0	2	42	1.13
264407--264451	20	2.1	22	88	12	67	35	0	0	64	0.94
264405--264456	20	2.6	19	77	19	61	38	0	0	61	0.96
266645--266699	23	2.3	25	75	12	62	56	0	0	43	0.99
266869--266949	32	2.4	33	87	6	110	58	0	0	41	0.98
267392--267455	17	3.6	19	76	20	75	34	1	0	64	1.03
267400--267456	18	3.3	18	75	9	64	36	0	0	63	0.95
267718--267749	7	4.6	7	100	0	64	68	0	0	31	0.90
268773--268817	23	2.0	22	86	4	63	57	0	0	42	0.98
268745--268846	32	3.4	29	72	16	84	56	0	0	43	0.99
268998--269044	19	2.6	18	83	12	60	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
269002--269043	19	2.2	20	91	4	68	50	0	0	50	1.00
269832--269886	21	2.7	21	81	15	71	45	0	0	54	0.99
270537--270586	20	2.4	21	80	3	57	44	2	4	50	1.32
274749--274807	2	29.5	2	100	0	118	49	0	50	0	1.00
276801--276843	22	2.0	22	90	4	70	46	0	6	46	1.30
276963--276995	6	5.5	6	100	0	66	51	0	0	48	1.00
276963--277001	18	2.2	18	90	0	60	56	0	0	43	0.99
277106--277152	24	1.9	25	86	4	69	53	0	4	42	1.20
280780--280820	21	2.0	21	86	9	59	48	0	0	51	1.00
283435--283538	25	4.3	25	76	22	89	57	0	0	40	1.11
283435--283538	13	8.6	12	71	11	79	57	0	0	40	1.11
283810--283859	13	4.0	13	84	7	68	62	0	0	38	0.96
283818--283859	12	3.4	12	86	3	57	59	0	0	40	0.97
283818--283867	25	2.0	25	84	7	66	58	0	4	38	1.17
283917--283974	30	1.9	30	86	10	82	44	1	1	51	1.21
285781--285826	24	1.9	24	81	0	56	26	6	26	41	1.80
288191--288236	21	2.1	22	84	4	58	30	17	30	21	1.96
290140--290203	28	2.3	29	89	5	96	20	4	18	56	1.59
290175--290241	24	2.7	26	79	4	66	23	1	26	47	1.60
292169--292201	6	5.5	6	100	0	66	18	66	0	15	1.25
292397--292457	22	2.7	22	75	12	61	44	1	0	54	1.10
292417--292479	28	2.3	26	80	17	74	36	0	1	61	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
294870--294960	11	7.9	11	68	20	53	64	5	2	27	1.27
295650--295689	20	2.0	20	90	0	62	40	0	0	60	0.97
297643--297695	19	2.7	19	82	5	70	49	0	13	37	1.42
298411--298444	17	2.1	17	88	5	52	41	0	2	55	1.15
299203--299250	14	3.3	15	88	11	73	43	0	0	56	0.99
300672--300728	24	2.3	25	82	14	66	35	7	0	57	1.26
302269--302332	20	3.0	20	80	8	74	37	4	1	56	1.30
304339--304367	2	14.5	2	100	0	58	51	0	0	48	1.00
304649--304679	12	2.5	13	89	10	55	29	0	0	70	0.87
307700--307738	2	19.5	2	83	0	51	43	2	5	48	1.38
307711--307748	20	1.9	20	94	0	67	36	0	13	50	1.42
307712--307746	16	2.2	16	100	0	70	37	0	11	51	1.38
310952--310997	3	15.3	3	100	0	92	67	0	0	32	0.91
312945--313021	37	2.1	37	85	7	104	46	2	0	50	1.15
313333--313377	21	2.1	21	83	0	54	33	2	0	64	1.06
313341--313373	13	2.8	12	90	9	50	30	3	0	66	1.06
313388--313474	3	29.3	3	72	15	65	58	3	0	37	1.15
316537--316606	23	3.1	23	77	4	63	52	0	0	47	1.00
320647--320712	33	2.0	34	84	3	89	43	3	3	50	1.33
321581--321618	3	12.7	3	88	0	58	63	2	0	34	1.09
321871--321914	18	2.3	19	84	11	54	47	0	0	52	1.00
321903--321934	16	1.9	17	93	6	57	62	0	0	37	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
325502--325527	2	13.0	2	100	0	52	50	0	0	50	1.00
326410--326451	2	22.5	2	86	13	63	50	0	0	50	1.00
328644--328729	32	2.7	33	78	12	97	39	1	2	56	1.19
328664--328726	18	3.9	16	73	21	51	41	1	1	55	1.19
329559--329594	18	2.0	18	100	0	72	22	11	16	50	1.77
329711--329777	15	4.8	15	80	12	56	50	0	0	49	1.00
329711--329769	21	2.7	22	71	19	61	50	0	0	49	1.00
332105--332283	88	2.0	87	91	3	288	30	18	18	31	1.96
332670--332704	17	2.1	17	100	0	70	54	11	11	22	1.68
335388--335416	14	2.0	15	93	6	51	17	27	48	6	1.72
335844--335916	23	3.1	23	78	11	76	43	0	0	56	0.99
335892--335956	34	2.0	32	85	11	87	53	0	0	46	1.00
339752--339779	14	2.0	14	100	0	56	57	0	0	42	0.99
340142--340228	30	3.0	29	80	15	99	44	1	0	54	1.07
340142--340242	30	3.5	28	76	14	82	46	0	0	52	1.07
342220--342275	24	2.2	26	78	9	71	58	1	0	39	1.08
344238--344278	20	2.0	20	100	0	82	29	7	29	34	1.84
346296--346359	32	2.0	32	100	0	128	34	21	15	28	1.94
350666--350698	10	3.3	10	91	0	57	48	0	0	51	1.00
351894--351952	18	3.2	18	79	13	57	44	0	0	55	0.99
351902--351967	17	3.9	16	73	25	55	46	0	0	53	1.00
351939--352004	29	2.4	28	80	16	75	36	1	0	62	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
352700--352759	25	2.4	26	86	10	81	65	0	0	35	0.93
352758--352807	25	2.0	26	84	11	68	58	2	0	40	1.10
355234--355292	27	2.2	27	90	6	93	45	0	3	50	1.18
355242--355285	13	3.2	14	84	15	65	47	0	2	50	1.13
355234--355304	27	2.6	28	84	4	74	46	1	2	49	1.25
358230--358256	2	13.5	2	100	0	54	48	0	0	51	1.00
358285--358365	40	2.0	40	100	0	162	24	9	14	50	1.73
366103--366142	14	2.8	14	85	14	55	42	0	0	57	0.98
366095--366144	14	3.5	14	78	15	50	46	0	0	54	1.00
366135--366209	31	2.6	28	80	12	87	49	1	0	49	1.09
366149--366214	31	2.1	32	94	2	116	50	1	0	48	1.10
366772--366807	17	2.1	18	90	10	58	66	0	0	33	0.92
366870--366921	27	1.9	26	84	7	68	55	0	1	42	1.10
368347--368456	36	3.1	36	93	0	193	51	14	15	18	1.76
369535--369606	28	2.6	28	78	10	76	43	5	12	38	1.66
370915--371074	50	3.2	50	89	1	250	29	20	20	29	1.98
375463--375601	50	2.8	50	93	2	226	27	22	19	30	1.98
375462--375621	50	3.2	49	88	5	214	31	20	18	29	1.97
378195--378219	2	12.5	2	100	0	50	48	0	0	52	1.00
378878--378957	27	2.9	27	84	1	106	46	22	10	21	1.81
385464--385506	22	2.0	22	86	9	61	58	0	0	41	0.98
386036--386067	10	3.3	10	95	4	57	50	18	31	0	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
390650--390675	12	2.2	12	100	0	52	15	34	26	23	1.94
390678--390728	12	3.9	12	78	16	57	43	5	11	39	1.66
390684--390740	27	2.1	27	90	0	87	40	5	19	35	1.74
390862--390897	14	2.6	14	100	0	72	22	22	30	25	1.99
392524--392553	15	1.9	16	93	6	53	53	3	6	36	1.44
392586--392626	20	2.0	21	85	4	57	34	0	14	51	1.43
393189--393246	31	1.9	30	82	3	71	60	0	0	39	0.97
394639--394704	27	2.5	27	78	7	73	62	1	1	34	1.14
394943--394972	15	1.9	16	93	6	53	66	0	0	33	0.92
395413--395456	3	14.7	3	100	0	88	68	0	0	31	0.90

Tables:   1   2   3   4   5   6   7   8