genome.fa.s7.2.7.7.80.10.50.1000.20.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: Scaffold7
Parameters: 2 7 7 80 10 50 1000
Length:  6555642

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   34   35   36   37   

This is table  20  of  37  ( 4421 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)
3488668--3488733	33	2.0	33	87	0	96	42	15	12	30	1.83
3488921--3488963	21	2.0	21	100	0	86	27	37	9	25	1.87
3495040--3495359	29	10.7	29	77	7	209	29	28	16	25	1.97
3495040--3495175	57	2.4	58	83	3	168	30	30	18	21	1.97
3495040--3495359	86	3.6	87	72	13	256	29	28	16	25	1.97
3495254--3495405	28	5.3	28	84	5	173	36	28	16	18	1.92
3495425--3495819	48	8.1	48	83	4	409	25	25	16	31	1.96
3497364--3497389	13	2.0	13	100	0	52	30	15	15	38	1.88
3497450--3497522	20	3.6	20	81	3	101	31	19	13	35	1.91
3497428--3497522	41	2.3	42	96	1	174	29	17	12	40	1.87
3498129--3498174	16	2.8	16	93	6	74	30	39	2	28	1.69
3499981--3500019	13	3.0	13	96	0	69	35	15	17	30	1.91
3500005--3500083	20	3.7	20	70	20	70	45	16	12	25	1.82
3502091--3502128	15	2.5	15	91	0	58	13	21	15	50	1.78
3506192--3506217	13	2.0	13	100	0	52	30	15	15	38	1.88
3506256--3506331	21	3.7	21	80	3	100	28	17	11	42	1.84
3506277--3506349	20	3.6	20	81	3	101	31	19	13	35	1.91
3506256--3506349	41	2.3	41	98	0	179	29	18	12	39	1.88
3506686--3506770	19	4.7	19	77	18	101	36	10	11	41	1.76
3506726--3506752	13	2.1	13	100	0	54	29	14	14	40	1.86
3506706--3506770	32	2.0	32	100	0	130	35	12	12	40	1.80
3506813--3506837	13	1.9	13	100	0	50	32	16	16	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3506846--3506974	52	2.5	52	96	0	231	36	16	17	29	1.92
3510047--3510122	32	2.3	33	81	2	91	46	31	10	11	1.75
3510055--3510122	16	4.2	16	79	7	75	45	30	10	13	1.76
3513826--3513949	52	2.4	51	90	1	194	28	16	18	37	1.92
3513958--3513982	13	1.9	13	100	0	50	36	16	16	32	1.90
3514023--3514089	33	2.0	33	88	0	98	40	13	11	34	1.81
3514045--3514069	13	1.9	13	100	0	50	32	16	16	36	1.90
3514565--3514687	32	3.8	32	82	4	131	39	30	16	14	1.88
3514565--3514687	16	7.6	16	77	6	113	39	30	16	14	1.88
3517421--3517448	2	14.0	2	100	0	56	50	0	0	50	1.00
3520592--3520825	82	2.8	83	84	1	301	47	14	13	24	1.80
3520594--3520876	83	3.4	81	80	2	287	45	15	14	24	1.83
3527516--3527552	19	1.9	19	88	0	56	37	5	0	56	1.22
3527499--3527554	28	2.0	26	80	19	60	35	3	0	60	1.14
3527674--3527722	17	2.9	17	87	6	64	53	0	0	46	1.00
3529456--3529498	21	2.0	21	90	0	68	30	23	18	27	1.98
3529669--3529788	62	1.9	62	84	3	161	33	8	11	46	1.70
3532668--3532785	51	2.3	51	82	0	146	32	14	24	28	1.94
3532596--3532946	130	2.7	130	77	6	309	32	13	25	29	1.93
3532804--3532914	51	2.2	51	85	3	143	28	9	27	33	1.89
3532898--3532974	28	2.8	28	86	4	111	25	20	32	20	1.97
3532855--3533057	107	1.9	107	95	0	370	29	14	30	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3534532--3534561	15	2.0	15	100	0	60	46	26	13	13	1.80
3535461--3535486	13	2.0	13	100	0	52	38	15	15	30	1.88
3535524--3535581	13	4.0	13	74	23	53	34	15	15	34	1.89
3535538--3535600	19	3.7	18	76	24	73	36	17	12	33	1.88
3535442--3535602	32	5.0	32	75	15	138	34	15	15	34	1.89
3538500--3538569	22	3.1	22	66	10	61	30	20	2	47	1.64
3545014--3545085	28	2.6	26	82	8	72	25	20	31	22	1.98
3544935--3545353	107	3.9	107	72	13	299	30	15	26	27	1.96
3545078--3545413	52	6.4	52	69	16	172	32	12	25	29	1.93
3545230--3545300	27	2.6	27	86	2	88	23	21	30	23	1.99
3545007--3545413	212	1.9	212	86	4	579	31	14	26	28	1.94
3547776--3547801	13	2.0	13	100	0	52	38	15	15	30	1.88
3547755--3547821	33	2.0	33	88	0	98	43	16	14	25	1.86
3547841--3547895	19	2.9	19	97	0	101	40	14	10	34	1.81
3548412--3549818	55	25.0	54	84	9	1521	22	20	28	27	1.99
3548675--3548759	26	3.2	26	65	15	64	22	21	29	27	1.99
3549257--3549345	27	3.2	29	65	20	80	19	19	32	29	1.96
3548412--3549819	568	2.5	567	93	2	2407	23	20	28	27	1.99
3558826--3558894	28	2.5	28	90	0	102	26	20	31	21	1.98
3558883--3559220	52	6.4	52	67	17	178	31	13	25	29	1.93
3559039--3559107	27	2.5	27	88	6	95	23	21	30	24	1.99
3561563--3561589	13	2.1	13	100	0	54	40	14	14	29	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3561629--3561696	19	3.9	18	73	23	74	38	13	11	36	1.81
3561632--3561694	32	2.0	32	93	0	108	36	14	12	36	1.84
3563025--3563049	13	1.9	13	100	0	50	40	8	16	36	1.77
3563006--3563071	33	2.0	33	88	5	98	39	10	16	33	1.83
3563103--3563155	21	2.6	21	88	5	74	33	13	13	39	1.83
3563102--3563161	19	3.0	20	83	9	79	31	11	13	43	1.80
3565369--3565442	20	3.7	20	72	13	71	29	13	13	43	1.82
3565956--3566726	384	2.0	384	97	0	1452	25	23	12	38	1.90
3570919--3570953	15	2.3	15	90	0	52	28	25	2	42	1.69
3572464--3572489	13	2.0	13	100	0	52	30	15	15	38	1.88
3572444--3572507	32	2.0	33	90	3	103	28	14	18	39	1.90
3572444--3572514	19	4.0	18	72	25	62	26	12	21	39	1.89
3573214--3573262	24	2.0	24	100	0	98	44	18	4	32	1.68
3575578--3575602	13	1.9	13	100	0	50	36	16	16	32	1.90
3575558--3575627	33	2.1	33	89	0	104	34	11	14	40	1.82
3575666--3575690	13	1.9	13	100	0	50	32	16	16	36	1.90
3575679--3575823	52	2.8	50	86	6	200	34	18	17	29	1.94
3582571--3582615	21	2.1	21	84	8	56	22	20	4	53	1.63
3584819--3584844	13	2.0	13	100	0	52	30	15	15	38	1.88
3584799--3584862	32	2.0	33	90	3	103	28	14	18	39	1.90
3584799--3584869	19	4.0	18	72	25	62	26	12	21	39	1.89
3586149--3586204	19	2.9	19	91	2	85	35	16	17	30	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3590262--3590298	14	2.6	14	91	4	56	75	0	0	24	0.80
3590664--3591040	151	2.5	152	81	6	456	23	19	19	36	1.95
3592423--3592464	21	2.0	21	85	0	57	30	23	16	28	1.96
3592629--3592756	62	2.1	62	92	0	211	27	10	16	45	1.81
3596025--3596055	13	2.5	13	94	5	55	29	16	12	41	1.85
3596006--3596070	32	2.0	32	85	8	87	30	15	10	43	1.81
3601000--3601136	53	2.6	53	92	1	229	27	17	18	37	1.93
3601124--3601181	21	2.8	21	84	2	73	31	13	15	39	1.86
3601219--3601259	21	2.0	21	85	9	57	39	9	12	39	1.76
3607079--3607246	87	1.9	88	91	1	275	22	22	25	30	1.99
3607207--3607381	67	2.6	68	88	4	237	15	21	30	32	1.94
3607494--3607647	43	3.6	42	80	6	193	40	13	27	17	1.87
3607462--3607646	85	2.2	85	92	1	300	41	11	30	16	1.84
3607595--3607672	37	2.1	37	80	2	95	43	8	26	20	1.81
3613190--3613398	106	2.0	106	95	1	375	30	18	17	33	1.94
3617494--3617558	33	2.0	33	81	6	78	33	16	13	35	1.89
3617588--3617643	19	2.9	19	83	2	67	35	16	16	32	1.90
3626560--3626589	14	2.1	14	93	0	51	50	3	23	23	1.64
3629219--3629244	13	2.0	13	100	0	52	30	15	15	38	1.88
3631772--3631810	13	3.0	13	92	0	60	35	12	17	33	1.88
3631796--3631874	20	3.7	20	78	15	77	44	15	15	25	1.85
3635719--3635763	21	2.1	21	84	8	56	22	20	4	53	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3637977--3638002	13	2.0	13	100	0	52	30	15	15	38	1.88
3638738--3638791	20	2.7	20	82	2	72	35	14	9	40	1.78
3638829--3638906	21	3.7	21	98	0	147	28	14	15	42	1.85
3642476--3642527	19	2.7	20	87	6	79	28	13	13	44	1.82
3644974--3645025	21	2.5	21	84	9	70	3	21	48	26	1.67
3645457--3645493	13	2.8	13	91	0	56	35	16	16	32	1.91
3651655--3651706	19	2.7	20	87	6	79	28	13	13	44	1.82
3652124--3652178	20	2.7	21	85	2	76	27	16	14	41	1.87
3654644--3654680	13	2.8	13	91	0	56	35	18	13	32	1.90
3660855--3660880	13	2.0	13	100	0	52	38	15	15	30	1.88

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   34   35   36   37