genome.fa.s71.2.7.7.80.10.50.1000.33.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: Scaffold71
Parameters: 2 7 7 80 10 50 1000
Length:  5741892

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   

This is table  33  of  33  ( 3929 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)
5603883--5604038	77	2.0	77	83	4	199	51	10	7	30	1.63
5603960--5604550	253	2.3	259	87	2	834	49	10	8	31	1.67
5605164--5606116	256	3.9	237	77	10	785	48	11	8	31	1.69
5605112--5606205	502	2.2	491	79	8	1135	48	10	8	31	1.69
5610156--5610838	227	2.9	227	85	6	870	41	20	13	24	1.88
5617368--5617394	12	2.2	12	100	0	54	40	14	7	37	1.74
5618221--5618267	14	2.9	16	77	20	53	36	0	0	63	0.94
5618215--5618268	16	3.4	16	76	16	58	38	1	0	59	1.08
5618252--5618336	30	2.9	29	82	6	91	54	1	0	44	1.07
5618252--5618336	29	2.9	29	84	6	100	54	1	0	44	1.07
5618303--5618351	23	2.2	22	82	10	55	48	2	0	48	1.12
5618262--5618349	29	3.1	29	82	8	83	54	2	0	43	1.12
5619977--5620003	2	13.5	2	100	0	54	51	48	0	0	1.00
5625292--5625342	2	25.5	2	91	0	84	49	3	0	47	1.20
5625558--5625583	2	13.0	2	100	0	52	50	50	0	0	1.00
5630310--5630362	26	2.0	26	100	0	106	37	7	3	50	1.49
5634042--5634068	12	2.2	12	100	0	54	40	14	7	37	1.74
5634875--5634937	18	3.6	18	81	12	76	41	0	0	58	0.98
5634887--5634940	17	3.1	17	77	15	65	44	0	0	55	0.99
5634903--5634991	45	2.0	44	80	12	101	41	1	1	56	1.14
5634975--5635033	29	2.0	30	83	9	77	57	3	0	38	1.15
5634975--5635031	30	2.0	30	86	6	82	57	3	0	38	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5635056--5635139	27	3.2	27	73	8	77	53	1	1	44	1.16
5635289--5635338	18	2.6	20	78	18	61	38	0	0	62	0.96
5635289--5635336	20	2.5	20	80	19	57	37	0	0	62	0.95
5635808--5635844	19	1.9	19	100	0	74	27	0	18	54	1.44
5636974--5637043	33	2.1	33	86	5	95	54	10	24	11	1.66
5642628--5642818	102	1.9	102	88	0	292	42	17	13	26	1.86
5644135--5644201	2	33.5	2	93	0	116	0	0	46	53	1.00
5647119--5647168	2	25.5	2	95	4	93	50	0	50	0	1.00
5647414--5647469	29	1.9	30	85	7	80	46	1	0	51	1.11
5647371--5647478	56	1.9	56	81	3	128	52	1	0	45	1.11
5647704--5647789	21	4.1	21	71	13	61	37	1	1	60	1.12
5647737--5647789	21	2.4	24	78	18	69	37	0	0	62	0.96
5647795--5647829	16	2.3	16	90	9	56	40	0	0	60	0.97
5647994--5648121	53	2.4	54	75	21	128	51	2	0	45	1.19
5650607--5650671	32	2.0	32	96	0	121	52	24	15	7	1.69
5653050--5653087	2	19.0	2	100	0	76	50	0	0	50	1.00
5657950--5658041	46	2.0	46	100	0	184	30	13	17	39	1.87
5661846--5661872	12	2.2	12	100	0	54	40	14	7	37	1.74
5662669--5662726	18	3.4	18	68	20	52	37	1	0	60	1.07
5662657--5662717	28	2.2	28	82	11	72	37	3	0	59	1.14
5662679--5662727	15	3.1	15	78	16	62	36	2	0	61	1.08
5662651--5662730	38	2.1	37	81	6	90	42	2	0	55	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5663365--5663394	2	15.0	2	92	0	51	53	0	0	46	1.00
5664955--5665142	102	1.8	102	86	0	268	42	15	14	26	1.86
5666456--5666485	2	15.0	2	92	0	51	3	0	46	50	1.18
5669643--5669684	15	2.9	15	89	3	59	33	35	9	21	1.86
5669664--5669728	32	2.0	33	84	3	87	40	29	9	21	1.84
5669856--5669900	3	15.0	3	95	0	81	33	2	0	64	1.06
5673200--5673264	32	2.0	32	100	0	130	50	24	15	9	1.73
5677346--5677383	19	2.0	19	94	0	67	31	26	13	28	1.93
5677730--5677778	2	24.5	2	82	0	53	40	2	8	48	1.44
5677730--5677842	8	13.6	8	77	7	73	32	2	15	48	1.59
5681535--5681568	2	17.0	2	100	0	68	50	0	0	50	1.00
5683123--5683310	102	1.8	102	87	0	277	43	17	13	25	1.86
5683767--5684374	304	2.0	305	98	0	1173	38	16	14	30	1.89
5691129--5691155	12	2.2	12	100	0	54	40	14	7	37	1.74
5691697--5691724	1	28.0	1	100	0	56	100	0	0	0	0.00
5691942--5692010	17	3.9	17	73	17	59	33	1	1	63	1.12
5691971--5692024	18	3.1	18	82	15	60	31	0	0	68	0.90
5692071--5692120	25	2.0	25	88	0	73	62	0	0	38	0.96
5692083--5692122	18	2.2	18	86	8	55	70	0	0	30	0.88
5692157--5692212	28	2.0	29	86	6	80	55	1	1	41	1.21
5694756--5694943	102	1.8	102	87	0	277	43	17	13	25	1.86
5695400--5696007	304	2.0	305	98	0	1164	37	16	14	31	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5697924--5697951	2	14.0	2	100	0	56	50	0	0	50	1.00
5699510--5699693	102	1.8	102	87	0	278	44	16	13	26	1.84
5703179--5703373	96	2.0	96	98	0	381	42	9	28	19	1.83
5710251--5710307	28	2.0	28	100	0	114	24	17	28	29	1.97
5718475--5718501	12	2.2	12	100	0	54	40	14	7	37	1.74
5719148--5719172	2	12.5	2	100	0	50	52	0	48	0	1.00
5719323--5719365	18	2.4	18	84	7	52	37	2	0	60	1.10
5719356--5719385	15	1.9	16	93	6	53	60	0	0	40	0.97
5720800--5720844	21	2.1	21	83	0	54	42	8	11	37	1.72
5723792--5723831	2	20.0	2	94	0	71	47	2	50	0	1.14
5724007--5724069	18	3.6	17	77	14	65	41	1	0	57	1.08
5724019--5724072	17	3.1	17	77	15	65	44	0	0	55	0.99
5724046--5724103	23	2.5	23	82	0	71	55	3	0	41	1.17
5724385--5724478	40	2.4	39	75	10	93	37	2	2	58	1.22
5724398--5724452	24	2.4	22	82	14	58	36	0	1	61	1.06
5724418--5724467	19	2.5	20	78	15	59	38	0	2	60	1.09
5727811--5727907	48	2.0	48	95	0	176	17	26	14	41	1.88
5728045--5728080	17	2.1	17	89	0	54	55	0	0	44	0.99
5728748--5728780	15	2.1	16	94	5	59	42	9	0	48	1.35
5728597--5728992	211	1.9	203	85	6	544	42	6	3	47	1.45
5729877--5729987	54	2.1	54	96	0	204	54	8	6	31	1.55
5732158--5732191	17	1.9	18	88	5	52	44	11	5	38	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5739089--5739115	13	2.1	13	100	0	54	22	22	25	29	1.99

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33

The End!