genome.fa.s980.2.7.7.80.10.50.1000.1.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: Scaffold3329
Parameters: 2 7 7 80 10 50 1000
Length:  1261902

Tables:   1   2   3   4   

This is table  1  of  4  ( 427 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)
3426--3485	29	2.1	28	84	3	75	45	25	11	18	1.83
4615--4662	18	2.8	18	74	22	50	43	0	0	56	0.99
4615--4664	16	3.1	16	73	21	50	42	0	0	58	0.98
4761--4792	15	2.1	15	94	0	55	50	0	0	50	1.00
4927--5036	45	2.6	43	77	8	111	32	26	5	35	1.79
5017--5068	16	3.2	16	88	0	68	34	32	0	32	1.58
29123--29264	74	1.9	75	91	1	232	31	7	12	47	1.70
34166--34190	12	2.1	12	100	0	50	8	44	0	48	1.32
57603--57627	11	2.3	11	100	0	50	28	12	16	44	1.83
61999--62072	36	2.1	36	97	0	139	21	16	16	45	1.84
62164--62226	31	2.0	31	96	0	117	42	12	11	33	1.78
62261--62292	15	2.1	15	100	0	64	50	12	0	37	1.41
64986--65061	28	2.7	28	83	0	98	34	17	18	30	1.94
69470--69526	30	1.9	30	88	0	87	42	3	22	31	1.71
69738--69769	13	2.5	13	94	0	55	31	0	12	56	1.37
69864--70056	50	3.8	50	90	0	296	26	23	30	20	1.98
77006--77063	30	1.9	30	85	0	80	43	1	24	31	1.64
77275--77306	13	2.5	13	94	0	55	31	0	12	56	1.37
77401--77689	50	5.8	50	90	3	451	26	22	30	20	1.98
77401--77689	96	2.9	99	90	4	449	26	22	30	20	1.98
79161--79229	23	3.0	22	91	4	102	20	26	20	33	1.97
80720--80764	24	1.9	24	90	4	74	35	0	2	62	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
80861--80888	9	3.1	9	100	0	56	57	10	0	32	1.33
80831--81031	59	3.1	68	84	13	307	45	8	4	40	1.57
81020--81062	16	2.7	16	92	0	68	44	6	2	46	1.43
93680--93798	59	2.1	56	85	4	157	29	18	12	39	1.88
97077--97106	15	2.0	15	100	0	60	60	6	13	20	1.55
97066--97124	21	3.1	21	72	27	76	52	5	22	20	1.65
106622--106662	20	2.0	20	85	0	55	56	14	2	26	1.51
107325--107360	19	1.9	18	88	5	54	44	2	0	52	1.15
117607--117638	6	5.3	6	96	0	55	65	15	15	3	1.39
125537--125597	30	1.9	32	83	9	81	49	14	11	24	1.77
129592--129632	21	1.9	22	85	5	57	21	31	19	26	1.97
153620--153670	25	2.0	25	100	0	102	27	23	3	45	1.70
154005--154036	7	4.6	7	100	0	64	43	43	0	12	1.42
163837--163865	4	7.2	4	100	0	58	24	0	24	51	1.48
174106--174148	19	2.3	19	92	8	70	37	16	6	39	1.75
175638--175766	61	2.1	61	100	0	258	50	13	9	26	1.72
192683--192712	14	2.1	14	93	0	51	43	0	13	43	1.43
200921--200966	17	2.8	17	83	3	58	41	2	0	56	1.11
204124--204164	10	4.3	9	85	11	55	14	2	0	82	0.76
204124--204164	19	2.2	19	87	12	59	14	2	0	82	0.76
205831--205901	35	2.0	35	100	0	142	38	2	16	42	1.63
211005--211057	24	2.2	24	86	0	70	52	9	3	33	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
211792--211905	60	1.9	60	83	7	151	40	7	16	35	1.78
211874--212027	69	2.3	65	79	9	152	40	6	14	38	1.72
215042--215097	23	2.5	22	77	8	58	44	0	3	51	1.18
224164--224221	30	1.9	30	85	0	80	39	6	12	41	1.69
233141--233205	34	1.9	34	87	6	96	36	7	15	40	1.76
235983--236115	30	4.4	29	72	11	99	40	6	10	42	1.64
238055--238104	14	3.8	13	84	10	57	72	0	24	4	1.02
247309--247358	3	16.7	3	100	0	100	34	0	0	66	0.92
254848--254886	21	1.9	20	85	15	53	35	10	28	25	1.89
258752--258791	17	2.4	17	86	0	53	27	0	2	70	1.01
262232--262301	29	2.4	28	76	6	68	38	22	8	30	1.84
262723--262807	40	2.1	40	86	4	118	49	12	7	30	1.68
262828--263159	86	3.9	85	84	5	375	41	18	8	31	1.80
266513--267041	207	2.6	203	82	5	602	34	21	11	31	1.89
266868--267343	182	2.6	181	89	1	711	32	20	13	33	1.91
273313--273381	29	2.3	30	80	12	79	52	14	11	21	1.73
274168--274214	21	2.2	21	100	0	94	8	10	19	61	1.53
279470--279536	31	2.2	31	84	7	84	46	2	11	38	1.56
281776--281805	11	2.6	11	94	5	51	53	0	3	43	1.17
281753--281841	29	3.0	30	78	8	101	60	2	2	34	1.21
281834--281882	23	2.1	24	88	3	73	61	0	2	36	1.08
284459--284487	6	4.8	6	100	0	58	34	0	17	48	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
284693--284717	2	12.5	2	100	0	50	52	0	0	48	1.00
285048--285161	60	1.9	61	81	5	142	50	6	9	33	1.60
291797--291947	75	2.0	75	100	0	302	27	19	11	40	1.87
299544--299601	18	3.0	20	71	19	59	39	3	0	56	1.16
299963--300005	20	2.2	20	100	0	86	39	20	34	4	1.74
300178--300236	29	2.0	29	96	0	109	35	18	13	32	1.90
312385--312728	180	1.9	183	80	6	414	21	18	17	42	1.89
314560--314629	26	2.7	26	88	2	88	70	4	0	25	1.06
314570--314629	26	2.3	26	94	2	104	71	0	0	28	0.86
315998--316060	26	2.4	27	89	7	96	68	0	1	30	0.99
316002--316100	38	2.6	38	79	9	128	71	1	2	25	1.03
316072--316102	7	4.4	7	91	0	53	83	0	3	12	0.75
321841--321939	48	2.1	48	94	0	171	37	13	14	35	1.84
324124--324175	26	2.0	26	100	0	104	23	11	7	57	1.59
327036--327066	14	2.1	15	94	5	55	61	6	0	32	1.21
327913--328331	209	2.0	210	94	1	743	37	22	17	21	1.94
330142--330195	4	13.5	4	88	0	54	24	9	25	40	1.85
330143--330195	12	4.4	12	80	0	70	24	9	26	39	1.86
330938--330985	23	2.1	23	84	7	62	18	10	14	56	1.66
343589--343648	31	1.9	31	86	0	84	38	13	10	38	1.78
345262--345304	15	2.6	16	82	10	52	39	0	0	60	0.97
346431--346491	32	1.9	32	87	12	90	32	3	3	60	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
348452--349076	222	2.8	221	89	3	895	39	20	18	21	1.93
349625--349663	18	2.2	18	95	0	69	46	5	23	25	1.73
352508--352564	29	1.9	29	92	3	96	36	8	8	45	1.66
352513--352585	30	2.4	29	86	8	94	41	9	6	42	1.64
355029--355103	30	2.5	28	78	18	80	42	5	17	34	1.72
355897--355943	4	11.8	4	100	0	94	48	25	0	25	1.51
356464--356529	29	2.3	29	87	10	91	37	3	13	45	1.59
356856--356901	15	2.8	17	75	18	53	47	4	0	47	1.21
372991--373029	9	4.2	9	80	6	51	5	12	0	82	0.83
376327--376391	18	3.4	18	89	6	85	32	7	0	60	1.25
376498--376570	30	2.5	30	80	8	87	30	12	2	54	1.51
381075--381110	15	2.4	15	90	0	54	72	11	2	13	1.23
383231--384277	88	11.9	88	95	0	1798	27	21	24	26	1.99
385889--385953	18	3.4	18	89	6	85	32	7	0	60	1.25
386060--386132	30	2.5	30	80	8	87	30	12	2	54	1.51
388417--388444	5	5.6	5	100	0	56	35	0	0	64	0.94
389678--389790	31	3.6	30	74	8	75	38	14	7	39	1.75
408327--408384	31	1.9	30	89	3	89	32	10	13	43	1.78
408327--408396	31	2.3	31	85	2	88	31	11	14	42	1.81
416460--417000	194	2.8	191	89	1	785	32	18	17	31	1.95
416890--417168	155	1.8	154	83	6	350	30	20	16	32	1.95
417005--417705	191	3.7	192	84	5	900	32	19	16	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
420619--420677	31	1.9	31	86	6	84	18	8	23	49	1.75
421206--421271	34	1.9	35	87	3	98	42	16	9	31	1.80
427087--427131	22	2.0	22	82	0	54	28	2	2	66	1.15
427243--427302	30	2.0	31	83	9	79	43	0	0	56	0.99
433532--433572	13	3.2	12	89	6	55	80	0	4	14	0.87
440208--440628	167	2.5	167	89	2	637	24	15	18	41	1.89
441761--441790	15	1.9	16	93	6	53	13	0	0	86	0.57
442268--442323	29	1.9	29	82	7	69	26	7	17	48	1.73
443964--444007	18	2.3	19	80	11	54	29	0	4	65	1.12
445080--445144	32	2.0	32	100	0	130	36	12	0	50	1.40

Tables:   1   2   3   4