genome.fa.s110.2.7.7.80.10.50.1000.3.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: Scaffold110
Parameters: 2 7 7 80 10 50 1000
Length:  1159294

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 712 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)
282346--282389	16	2.8	17	80	13	58	36	0	4	59	1.18
283768--283819	27	2.0	26	85	11	70	48	0	7	44	1.31
283862--283906	18	2.4	18	88	3	63	46	0	2	51	1.13
285455--285480	13	2.0	13	100	0	52	30	15	15	38	1.88
285435--285498	32	2.0	33	90	3	103	28	10	15	45	1.80
287176--287234	16	3.7	16	79	0	64	38	30	13	16	1.88
289834--289889	22	2.5	22	88	2	76	58	5	3	32	1.37
299516--299540	11	2.3	11	100	0	50	76	0	24	0	0.80
300267--300299	16	2.1	16	100	0	66	36	0	12	51	1.39
300516--300559	6	7.3	6	80	19	56	27	0	0	72	0.85
300507--300559	19	2.8	20	78	21	62	28	0	0	71	0.86
300512--300547	17	2.1	18	89	5	56	27	0	0	72	0.85
300505--300562	18	3.1	19	82	9	75	31	0	0	68	0.89
300818--300860	19	2.3	18	84	15	52	58	0	0	41	0.98
309219--309243	2	12.5	2	100	0	50	52	0	0	48	1.00
313454--313509	20	2.8	20	86	2	69	32	10	12	44	1.77
313548--313572	13	1.9	13	100	0	50	32	16	16	36	1.90
313581--313708	52	2.5	52	93	3	215	33	17	17	31	1.93
319842--319910	33	2.1	33	86	5	95	39	15	13	31	1.86
319864--319894	13	2.4	13	100	0	62	38	12	16	32	1.86
319939--319994	19	2.9	19	86	2	67	33	19	17	28	1.95
320495--320521	13	2.1	13	100	0	54	29	14	14	40	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
320505--320557	19	2.7	19	85	2	61	33	15	16	33	1.90
322240--322264	12	2.1	12	100	0	50	40	0	28	32	1.57
328635--328676	22	1.9	22	95	0	75	38	4	35	21	1.75
329256--329282	13	2.1	13	100	0	54	29	14	14	40	1.86
329382--329436	20	2.8	20	94	0	92	36	12	16	34	1.87
336981--337014	9	3.8	9	88	11	52	29	26	0	44	1.55
338687--338742	19	2.9	19	91	2	85	35	17	16	30	1.92
338979--339015	18	2.1	18	100	0	74	37	10	18	32	1.86
339358--339384	13	2.1	13	100	0	54	29	14	14	40	1.86
339339--339403	33	2.0	32	90	3	103	27	15	16	40	1.89
339370--339425	19	2.8	21	86	8	80	33	14	17	33	1.90
347521--347559	18	2.1	19	95	4	71	53	0	33	12	1.39
347549--347671	37	3.1	40	84	13	166	34	1	30	32	1.68
347571--347674	19	5.4	19	70	14	88	34	0	30	33	1.65
348231--348282	21	2.6	21	87	6	72	34	15	17	32	1.91
348198--348260	32	1.9	33	87	3	92	30	17	14	38	1.89
348310--348373	33	1.9	32	84	12	85	35	10	18	34	1.86
350785--350819	8	4.4	8	100	0	70	65	34	0	0	0.93
356526--356583	20	2.9	20	86	0	80	43	8	15	32	1.77
356697--356748	20	2.5	20	81	3	59	32	15	13	38	1.86
356625--356795	93	1.9	91	85	4	236	29	15	15	40	1.87
357293--357467	52	3.4	51	75	4	145	30	16	16	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
357763--357892	53	2.4	53	85	1	152	24	22	23	30	1.99
363733--363773	20	2.0	20	95	0	73	43	9	17	29	1.80
366485--366541	28	1.9	30	82	10	73	28	17	14	40	1.88
366214--366763	237	2.3	238	79	4	594	27	24	13	34	1.92
366233--366769	79	6.8	78	81	4	465	27	24	13	34	1.93
375515--375685	89	1.9	89	80	4	202	41	8	5	43	1.60
375496--375702	89	2.3	87	77	8	193	39	9	5	46	1.59
380174--380198	13	1.9	13	100	0	50	72	0	0	28	0.86
386393--386451	19	3.0	20	68	22	61	32	15	15	37	1.88
386413--386482	19	3.6	19	69	17	63	34	15	15	34	1.90
386391--386483	39	2.4	39	96	0	168	33	16	15	35	1.89
386416--386476	21	3.0	21	68	17	58	34	14	14	36	1.87
386472--386496	13	1.9	13	100	0	50	32	16	20	32	1.94
387011--387092	23	3.7	22	82	14	107	31	26	0	41	1.56
387014--387102	21	4.2	22	82	12	89	29	26	0	43	1.55
387055--387121	18	3.6	19	76	13	68	25	32	0	41	1.56
387105--387208	45	2.4	44	90	3	165	29	21	0	48	1.57
389076--389110	13	2.7	13	90	0	52	37	17	14	31	1.89
393200--393235	15	2.4	16	86	13	58	30	16	0	52	1.44
395425--395463	20	1.9	21	94	5	71	20	20	20	38	1.94
396235--396259	13	1.9	13	100	0	50	32	16	16	36	1.90
396214--396276	33	1.9	32	87	3	90	34	20	14	30	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
396328--396395	33	2.1	33	86	8	95	36	17	14	30	1.90
397944--397991	24	2.0	24	100	0	96	25	8	16	50	1.73
399008--399083	21	3.7	21	82	3	109	28	18	11	40	1.86
399028--399101	20	3.7	20	81	3	103	31	20	13	35	1.91
399008--399101	41	2.3	41	100	0	188	29	19	12	38	1.89
401552--401590	13	3.0	13	92	0	60	35	12	17	33	1.88
405503--405547	21	2.1	21	84	8	56	22	20	4	53	1.63
407761--407786	13	2.0	13	100	0	52	30	15	15	38	1.88
410895--410919	13	1.9	13	100	0	50	24	0	16	60	1.36
415052--415107	28	2.0	28	92	0	94	32	10	7	50	1.64
416624--416697	20	3.7	20	81	3	103	35	13	20	31	1.91
416642--416717	21	3.7	21	82	3	109	40	11	18	28	1.86
416624--416717	41	2.3	41	100	0	188	38	12	19	29	1.89
418995--419039	21	2.1	21	84	8	56	53	4	20	22	1.63
422943--422981	13	3.0	13	96	0	69	30	17	15	35	1.91
425524--425549	13	2.0	13	100	0	52	38	15	15	30	1.88
426402--426451	26	1.9	26	95	0	91	30	18	20	32	1.96
427062--427147	42	2.1	42	91	2	138	61	4	13	19	1.50
427742--427768	13	2.1	13	100	0	54	29	14	14	40	1.86
427752--427812	19	3.1	19	83	4	68	39	16	11	32	1.84
427837--427890	20	2.7	20	91	5	83	31	12	18	37	1.89
428384--428409	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
433108--433414	142	2.2	142	87	5	451	44	10	10	35	1.72
433108--433480	142	2.6	140	83	8	409	43	10	10	35	1.74
433494--433537	19	2.4	19	85	7	56	18	4	0	77	0.94
434367--434411	11	3.9	12	85	11	58	0	17	0	82	0.68
434363--434406	20	2.3	19	92	4	70	0	15	0	84	0.63
434381--434409	13	2.3	13	94	5	51	0	10	0	89	0.48
434973--435329	166	2.1	169	80	8	390	47	7	12	32	1.69
439954--440003	21	2.3	21	80	10	57	56	4	18	22	1.58
441799--441829	15	2.1	15	93	0	53	48	16	22	12	1.80
443911--443948	13	2.9	13	96	0	67	34	18	15	31	1.92
445559--445602	23	2.0	21	82	8	52	15	9	15	59	1.61
446477--446539	32	1.9	34	90	6	103	44	12	12	30	1.80
448519--448556	20	1.9	20	88	0	58	28	0	13	57	1.36
454872--454922	20	2.6	20	93	3	86	41	17	15	25	1.89
455632--455660	15	1.9	15	100	0	58	13	20	6	58	1.58
463529--463590	19	3.6	19	73	24	73	38	17	16	27	1.91
463547--463571	13	1.9	13	100	0	50	36	16	16	32	1.90
463529--463624	32	3.0	32	90	1	147	41	15	14	28	1.86
464365--464464	51	1.9	52	87	2	148	34	7	26	33	1.83
464450--464522	28	2.6	29	82	6	96	19	15	36	28	1.92
466490--466521	14	2.4	14	90	10	50	15	31	12	40	1.85
466940--467080	52	2.7	52	86	1	174	45	12	14	28	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
467136--467190	20	2.7	20	88	2	74	30	16	10	41	1.83
471619--471670	19	2.6	21	90	6	81	42	13	15	28	1.85
474261--474506	79	3.2	77	80	9	261	28	28	13	30	1.94
474442--474555	51	2.2	51	89	3	167	30	25	12	31	1.92
474541--474614	28	2.6	28	89	0	103	21	31	21	25	1.98
474493--474700	107	1.9	107	85	3	285	25	27	16	29	1.97
479310--479667	150	2.4	150	79	3	382	35	20	17	26	1.95
480362--480413	3	17.7	3	92	4	88	30	1	0	67	1.02
481440--481465	13	2.0	13	100	0	52	30	15	15	38	1.88
481420--481483	32	2.0	33	90	3	103	28	14	18	39	1.90

Tables:   1   2   3   4   5   6