genome.fa.s107.2.7.7.80.10.50.1000.3.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: Scaffold107
Parameters: 2 7 7 80 10 50 1000
Length:  2327068

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  3  of  15  ( 1755 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)
278783--278839	20	2.8	21	75	15	57	84	10	0	5	0.77
278792--278841	15	3.7	15	75	20	56	84	10	0	6	0.79
280091--280444	28	12.5	28	84	4	440	29	29	18	22	1.97
281372--281431	20	3.0	20	80	2	66	33	11	13	41	1.80
281361--281571	72	3.0	71	91	1	350	28	14	12	43	1.83
281515--281591	20	3.8	20	82	0	100	31	11	12	44	1.79
281463--281639	91	1.9	91	84	4	232	29	14	12	42	1.82
285562--285708	51	2.9	51	94	0	249	27	16	10	45	1.79
287155--287208	20	2.7	20	91	5	83	37	18	12	31	1.89
287236--287297	19	3.2	19	88	11	90	33	16	14	35	1.89
287258--287321	32	2.0	32	87	3	92	40	15	14	29	1.86
295989--296041	13	4.5	13	71	26	55	37	18	11	32	1.87
295989--296057	33	2.1	33	89	5	104	37	20	11	30	1.88
296106--296137	13	2.5	13	94	0	55	40	12	15	31	1.85
296619--296656	20	1.9	20	94	0	67	23	15	10	50	1.75
301052--301625	28	19.5	29	76	12	424	30	28	15	25	1.96
301052--301625	86	6.5	85	76	11	331	30	28	15	25	1.96
301053--301625	57	9.8	56	76	10	405	30	28	15	25	1.96
301308--301381	38	2.0	37	86	2	103	27	29	13	29	1.94
301193--301495	152	2.0	153	84	3	405	29	30	16	24	1.96
301165--301618	180	2.5	179	83	4	554	30	28	15	25	1.96
301405--301632	122	1.9	124	85	5	320	30	27	15	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
301466--301589	66	1.9	66	86	0	176	30	28	16	25	1.96
301433--301617	94	2.0	94	91	0	298	30	28	15	25	1.96
308919--309107	79	2.4	79	83	5	222	30	23	11	34	1.90
309058--309224	51	3.3	51	87	4	232	28	28	11	31	1.92
309110--309351	129	1.9	130	87	0	360	29	27	11	31	1.91
308979--309433	180	2.5	181	85	2	601	30	26	11	32	1.91
309257--309400	51	2.8	51	95	0	252	33	22	6	36	1.81
309388--309443	28	2.0	28	85	0	76	23	26	16	33	1.95
309416--309601	80	2.3	80	81	5	198	27	24	15	32	1.95
317664--317697	14	2.4	14	95	0	59	58	0	26	14	1.36
322633--323115	61	8.1	61	80	8	519	25	28	18	27	1.98
322633--323115	116	4.1	116	79	8	451	25	28	18	27	1.98
322613--323115	178	2.8	178	89	2	744	26	27	18	27	1.98
323143--323356	46	4.8	43	80	6	171	18	24	14	42	1.87
323274--323356	44	1.9	44	79	11	84	16	19	16	46	1.84
326390--326599	79	2.6	78	85	6	271	28	26	12	32	1.93
326531--326647	51	2.3	51	90	0	180	29	28	13	29	1.94
326661--326779	51	2.3	52	84	7	163	30	26	12	30	1.93
326454--326787	130	2.6	130	87	1	508	29	26	12	31	1.93
326763--326833	27	2.6	29	78	15	87	23	28	19	28	1.99
326788--326960	80	2.2	78	80	6	197	26	21	15	36	1.93
330228--330291	19	3.7	19	70	23	68	35	12	15	35	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
330229--330299	32	2.2	32	100	0	142	35	12	16	35	1.87
332886--332985	52	1.9	53	85	2	139	30	25	11	34	1.90
332841--333009	51	3.2	53	74	11	143	29	27	11	31	1.91
338363--338699	184	1.8	182	82	5	435	29	25	12	32	1.92
340654--340688	17	2.1	17	100	0	70	22	11	31	34	1.90
352689--352837	52	2.9	51	89	4	235	30	17	18	32	1.94
352826--352850	13	1.9	13	100	0	50	36	16	16	32	1.90
352891--352957	33	2.0	33	88	0	98	40	14	11	32	1.83
352913--352937	13	1.9	13	100	0	50	32	16	16	36	1.90
353932--353994	1	63.0	1	74	0	54	87	7	4	0	0.67
353931--353980	9	5.8	9	88	4	68	86	12	2	0	0.67
353933--353994	8	7.6	8	87	8	72	87	8	4	0	0.68
354390--354463	20	3.7	20	81	3	103	35	13	20	31	1.91
354408--354483	21	3.7	21	82	3	109	40	11	18	28	1.86
354390--354483	41	2.3	41	100	0	188	38	12	19	29	1.89
356002--356046	21	2.1	21	84	8	56	53	4	20	22	1.63
359894--359973	20	3.8	20	75	15	79	26	15	15	43	1.85
359959--359997	13	3.0	13	96	0	69	30	17	15	35	1.91
364167--364762	59	10.3	59	86	6	710	26	27	20	25	1.99
364193--364762	55	9.9	55	83	10	551	25	27	20	25	1.99
365526--365589	19	3.7	19	74	23	77	34	12	17	35	1.87
365546--365570	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)
365527--365597	32	2.2	32	97	0	133	33	12	18	35	1.89
365652--365751	51	1.9	53	84	8	134	29	17	17	37	1.92
366195--366228	10	3.4	10	87	0	50	79	14	5	0	0.91
368235--368334	52	1.9	53	85	6	141	31	26	10	33	1.89
368189--368358	51	3.3	53	73	12	147	30	28	10	30	1.90
368341--368417	28	2.8	28	83	0	82	23	33	19	23	1.97
368023--368467	212	2.1	203	85	6	570	28	28	12	31	1.92
368371--368575	79	2.6	79	80	4	218	23	31	18	26	1.97
371679--371728	21	2.4	21	86	6	66	38	18	10	34	1.84
373210--373267	28	2.1	27	84	6	73	31	10	1	56	1.43
373728--373937	76	2.8	76	80	7	232	44	13	11	30	1.79
374099--374198	48	2.1	48	84	3	130	45	10	13	32	1.76
374147--374609	58	8.0	58	76	5	366	43	14	13	28	1.83
374216--374299	29	2.9	29	66	7	71	41	14	14	29	1.85
374169--374606	115	3.8	114	73	10	327	43	15	13	27	1.84
374169--374606	230	1.9	231	83	3	578	43	15	13	27	1.84
382382--382456	20	3.8	19	78	7	87	37	13	16	33	1.87
383364--383712	29	12.1	29	86	5	458	23	17	30	29	1.97
383364--383712	57	6.0	57	87	4	452	23	17	30	29	1.97
383722--383933	28	7.5	28	89	2	316	20	16	32	30	1.95
383621--385206	100	15.9	100	72	18	492	21	17	31	29	1.96
383722--383928	85	2.4	86	90	1	328	20	16	33	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
383722--383926	57	3.6	57	91	1	331	20	16	32	29	1.95
383892--383976	43	2.0	43	90	0	134	18	17	29	34	1.94
383650--384004	71	5.0	71	67	11	233	20	18	31	30	1.96
383935--384232	28	10.5	28	90	2	452	20	17	32	29	1.95
383935--384232	57	5.2	57	92	0	481	20	17	32	29	1.95
384234--384580	29	12.2	28	86	6	450	22	18	30	28	1.97
384163--384303	71	2.0	71	90	0	219	19	18	30	31	1.96
384234--384580	28	12.2	29	87	4	492	22	18	30	28	1.97
384234--384580	57	6.1	57	90	2	509	22	18	30	28	1.97
384590--385030	28	15.5	28	85	3	558	21	17	30	30	1.96
384518--384651	71	1.9	72	87	4	200	21	21	28	28	1.99
384590--385786	57	21.3	56	79	9	967	21	17	31	29	1.96
385032--385786	28	26.6	28	86	5	1005	21	16	31	29	1.96
386997--387060	8	7.9	8	79	6	58	4	3	7	84	0.86
387021--387063	9	5.0	9	83	11	54	4	0	6	88	0.63
397924--397954	15	2.1	15	93	0	53	48	16	22	12	1.80
400019--400056	13	2.9	13	92	0	58	36	18	13	31	1.89
402609--402634	13	2.0	13	100	0	52	38	15	15	30	1.88
402591--402654	32	2.0	33	87	3	94	40	17	14	28	1.88
408587--408660	20	3.7	19	87	7	103	28	16	13	41	1.86
409487--409527	17	2.4	17	95	0	73	2	0	34	63	1.08
410964--411142	51	3.5	51	80	2	209	31	23	9	35	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
411160--411272	51	2.2	51	82	3	138	31	27	9	30	1.89
411027--411300	130	2.1	130	87	5	385	30	25	11	32	1.91
411259--411324	28	2.4	28	85	12	91	25	28	19	25	1.99
414674--414728	20	2.8	20	85	0	74	40	12	12	34	1.82
418588--418628	15	2.7	15	88	0	64	26	9	17	46	1.79
418668--418711	22	2.0	21	86	4	61	18	2	25	54	1.55
418666--418811	51	2.8	51	78	4	159	21	6	23	48	1.72
418774--418837	21	3.0	22	83	4	76	17	4	29	48	1.67
418818--418860	15	2.9	15	85	0	59	20	9	30	39	1.84
419747--419780	3	11.3	3	87	0	50	32	0	38	29	1.58

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15