genome.fa.s1115.2.7.7.80.10.50.1000.1.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: Scaffold1115
Parameters: 2 7 7 80 10 50 1000
Length:  495024

Tables:   1   2   

This is table  1  of  2  ( 164 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)
3370--3401	2	16.0	2	100	0	64	50	0	0	50	1.00
8100--8336	129	1.8	128	80	2	287	32	15	15	36	1.89
15813--15858	17	2.7	17	86	6	58	39	0	6	54	1.26
20158--20183	10	2.6	10	100	0	52	84	7	0	7	0.77
20670--20740	20	3.5	20	82	0	88	32	9	14	43	1.78
21624--21671	21	2.5	20	87	12	73	27	27	12	33	1.92
25531--25577	2	25.0	2	79	12	55	46	0	0	53	1.00
26763--26811	20	2.5	19	81	12	55	24	2	2	71	1.07
26781--26813	16	2.1	16	88	11	50	30	0	0	69	0.88
35179--35218	19	2.1	19	86	9	55	57	0	2	40	1.12
35182--35294	27	4.0	27	74	18	81	55	1	1	40	1.20
39930--39979	20	2.5	20	87	3	66	28	14	16	42	1.86
40032--40056	13	1.9	13	100	0	50	36	16	16	32	1.90
47984--48066	34	2.4	34	90	4	132	54	3	24	18	1.59
48650--48680	16	2.0	16	93	6	55	6	6	3	83	0.88
48682--48728	6	8.3	6	83	9	55	63	2	2	31	1.18
48909--49021	33	3.3	35	78	10	99	40	19	7	32	1.79
48955--49121	35	4.8	35	79	8	110	38	20	10	30	1.86
48994--49170	69	2.6	68	81	8	200	37	19	10	32	1.85
49049--49157	34	3.2	33	78	11	112	41	19	8	31	1.81
50846--50884	15	2.4	16	83	8	53	10	15	0	74	1.07
54483--54952	156	3.0	154	75	9	465	38	17	16	27	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56826--56992	23	7.1	22	72	12	93	4	16	20	57	1.57
56914--56991	22	3.5	22	87	1	93	3	14	23	58	1.52
56959--57011	23	2.3	23	86	3	70	7	15	22	54	1.65
69081--69121	21	2.1	19	86	13	57	73	0	2	24	0.96
77188--77230	17	2.7	16	85	7	52	72	0	0	27	0.85
77489--77522	9	3.8	9	84	0	50	55	0	0	44	0.99
79392--79439	20	2.3	20	86	10	62	33	6	2	58	1.35
80782--80844	2	33.0	2	78	9	60	42	1	1	53	1.19
82652--82700	16	3.0	16	74	14	55	65	0	2	32	1.04
82685--82717	16	2.1	16	88	5	50	60	0	0	39	0.97
84356--84392	18	2.0	19	89	5	58	54	10	16	18	1.71
86256--86284	14	2.0	15	93	6	51	37	6	0	55	1.27
86844--86873	13	2.3	13	94	0	51	20	3	0	76	0.92
87203--87245	16	2.7	16	85	0	59	6	23	30	39	1.81
91823--91863	20	2.0	21	95	4	75	31	0	14	53	1.41
93884--93936	23	2.2	25	75	21	60	45	1	5	47	1.37
104908--105089	46	4.0	45	85	3	231	54	4	2	37	1.36
104917--105091	91	1.9	92	89	1	271	57	5	2	34	1.36
106151--106220	21	3.6	20	71	24	69	37	8	7	47	1.62
106146--106223	38	2.1	38	97	0	147	38	7	6	47	1.58
106242--106270	5	6.0	5	96	4	51	17	0	0	82	0.66
107048--107102	2	29.0	2	89	10	80	47	0	1	50	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
107100--107150	27	1.9	27	84	4	68	37	0	9	52	1.34
110769--110809	20	2.0	21	95	4	75	31	0	14	53	1.41
111017--111060	19	2.4	18	81	7	52	47	0	0	52	1.00
111018--111054	19	1.9	19	88	0	56	45	0	0	54	1.00
112829--112881	23	2.2	25	75	21	60	45	1	5	47	1.37
123850--123879	15	2.0	15	93	0	51	60	0	3	36	1.14
123863--123998	42	3.2	40	83	10	164	55	5	3	35	1.42
125072--125141	21	3.6	20	71	24	69	37	8	7	47	1.62
125067--125144	38	2.1	38	97	0	147	38	7	6	47	1.58
125163--125191	5	6.0	5	96	4	51	17	0	0	82	0.66
125971--126025	2	29.0	2	89	10	80	47	0	1	50	1.11
126023--126073	27	1.9	27	84	4	68	37	0	9	52	1.34
129689--129729	20	2.0	21	95	4	75	31	0	14	53	1.41
129933--129976	19	2.4	18	81	7	52	47	0	0	52	1.00
129934--129970	19	1.9	19	88	0	56	45	0	0	54	1.00
131746--131798	23	2.2	25	75	21	60	45	1	5	47	1.37
142706--142789	41	2.1	40	90	2	132	54	7	4	33	1.49
142687--142907	117	1.8	119	88	6	340	51	5	3	39	1.42
142809--142990	46	4.0	45	85	3	231	54	4	2	37	1.36
142818--142992	91	1.9	92	89	1	271	57	5	2	34	1.36
144053--144122	21	3.6	20	71	24	69	37	8	7	47	1.62
144048--144125	38	2.1	38	97	0	147	38	7	6	47	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
144144--144172	5	6.0	5	96	4	51	17	0	0	82	0.66
144949--145003	2	29.0	2	89	10	80	47	0	1	50	1.11
145001--145051	27	1.9	27	84	4	68	37	0	9	52	1.34
148658--148688	2	15.5	2	100	0	62	48	0	0	51	1.00
152008--152156	52	2.9	51	83	4	208	32	14	16	35	1.90
152142--152169	13	2.2	13	100	0	56	39	17	14	28	1.89
152231--152255	13	1.9	13	100	0	50	32	16	16	36	1.90
152210--152275	32	2.0	33	88	2	98	39	15	12	33	1.84
152544--152600	18	2.8	21	70	22	50	59	5	0	35	1.20
154305--154338	17	2.0	17	88	0	50	64	0	0	35	0.94
154302--154367	28	2.4	28	78	12	66	60	3	0	36	1.12
156823--156891	30	2.3	31	87	2	95	36	1	39	23	1.64
391310--391565	110	2.4	107	78	5	273	34	6	21	37	1.79
397469--397638	75	2.3	75	79	6	184	37	22	7	32	1.83
405239--405277	20	2.0	20	94	0	69	64	2	0	33	1.08
406352--406465	60	2.0	58	89	6	178	50	3	4	42	1.39
408351--408391	21	2.0	21	90	0	64	41	0	2	56	1.13
408351--408395	12	4.0	12	77	16	51	40	0	4	55	1.20
412887--412925	2	19.5	2	94	0	69	48	2	0	48	1.15
414588--414629	3	14.0	3	94	0	75	30	0	2	66	1.04
415893--415993	52	1.9	52	86	4	141	41	13	3	40	1.63
416432--416482	6	8.3	6	85	10	59	27	1	0	70	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
416445--416482	17	2.2	17	90	0	58	26	0	0	73	0.83
416699--416734	5	7.2	5	93	0	63	38	2	0	58	1.13
417168--417207	19	2.0	20	85	4	55	22	5	7	65	1.38
417168--417207	20	2.1	19	86	13	55	22	5	7	65	1.38
417264--417323	22	2.7	22	81	0	75	30	0	16	53	1.44
417463--417498	18	2.0	18	94	0	63	36	16	8	38	1.79
418030--418084	12	4.5	12	80	14	60	27	0	0	72	0.85
418033--418093	26	2.3	27	86	8	81	27	0	0	72	0.85
418088--418140	26	2.0	27	82	10	65	45	0	0	54	0.99
418346--418382	4	9.8	4	94	5	60	24	0	0	75	0.80
418645--418720	25	3.1	25	81	11	77	39	1	2	56	1.21
418677--418721	23	2.0	23	90	0	72	46	2	0	51	1.13
420145--420178	15	2.3	15	95	5	61	67	0	0	32	0.91
420762--420792	15	2.1	15	100	0	62	48	0	12	38	1.42
421641--421783	71	2.0	70	89	4	216	38	25	8	27	1.85
428036--428064	2	14.5	2	100	0	58	48	0	51	0	1.00
428047--428112	33	2.0	33	100	0	132	30	6	54	9	1.56
428473--428573	41	2.5	41	93	0	166	53	6	1	37	1.39
428510--428574	20	3.2	20	66	20	53	53	3	1	41	1.25
428473--428607	41	3.3	41	86	6	159	52	6	1	39	1.37
428537--428604	22	3.2	22	67	19	54	52	4	0	42	1.21
428554--429067	52	9.8	51	76	13	397	50	5	2	41	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
428580--428775	108	1.8	106	83	6	261	53	8	1	37	1.40
428914--428964	21	2.4	20	75	18	50	52	0	0	47	1.00
429031--429099	35	2.0	35	88	2	104	42	2	2	52	1.31
429061--429445	51	7.6	50	72	13	243	51	4	2	41	1.35
429272--429450	96	1.9	96	82	8	231	48	6	2	41	1.44
431641--431681	21	1.9	22	90	5	66	41	17	19	21	1.90
432526--432654	52	2.5	52	96	0	240	27	17	18	35	1.94
432720--432784	19	3.8	18	75	24	77	40	15	12	32	1.84
432715--432782	32	2.1	32	94	5	120	38	16	11	33	1.85
432739--432763	13	1.9	13	100	0	50	32	16	16	36	1.90

Tables:   1   2