genome.fa.s64.2.7.7.80.10.50.1000.39.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: Scaffold64
Parameters: 2 7 7 80 10 50 1000
Length:  7997333

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   38   39   40   41   42   43   44   45   

This is table  39  of  45  ( 5312 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)
6869671--6869747	20	3.9	19	79	6	82	28	15	12	42	1.84
6869671--6869747	40	1.9	40	86	0	109	28	15	12	42	1.84
6872032--6872319	51	5.6	51	88	2	371	30	25	11	32	1.91
6872304--6872401	27	3.6	27	90	1	142	26	33	18	21	1.96
6872359--6872556	78	2.5	79	90	1	317	25	29	15	29	1.96
6872513--6872596	28	2.9	28	87	3	114	21	23	17	36	1.94
6872542--6872710	79	2.1	79	87	6	236	27	24	13	33	1.93
6876902--6876965	30	2.2	28	84	13	85	26	26	4	42	1.75
6880258--6880297	20	2.0	20	95	0	71	37	10	10	42	1.72
6880260--6880325	33	2.0	33	85	5	89	33	13	9	43	1.76
6883772--6883825	20	2.6	21	85	2	65	35	14	11	38	1.82
6884814--6884887	21	3.6	20	79	3	85	41	9	16	32	1.80
6891659--6891707	22	2.3	22	82	3	55	32	4	8	55	1.48
6891797--6891829	14	2.4	14	95	5	59	63	0	0	36	0.95
6893708--6893766	29	2.0	29	100	0	118	27	13	20	38	1.90
6895778--6895812	13	2.5	14	90	9	54	2	8	2	85	0.79
6895851--6895890	16	2.5	16	88	8	55	35	12	2	50	1.54
6896720--6896758	16	2.4	17	91	4	62	41	0	0	58	0.98
6896726--6896811	43	2.1	40	85	10	111	45	0	1	53	1.07
6896767--6896803	15	2.4	16	82	13	51	45	0	2	51	1.15
6896745--6896831	36	2.4	35	75	12	86	40	1	2	56	1.19
6897076--6897110	13	2.5	14	86	13	54	20	0	8	71	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6897099--6897183	23	3.7	24	75	20	67	37	2	8	51	1.45
6897127--6897183	23	2.4	24	82	8	73	38	3	8	49	1.51
6897148--6897194	23	2.0	23	83	0	58	40	4	6	48	1.48
6897256--6897310	25	2.2	26	96	3	103	50	12	0	36	1.41
6898023--6898258	129	1.8	128	83	1	312	59	10	11	19	1.59
6899239--6899263	12	2.1	12	100	0	50	68	0	0	32	0.90
6899806--6899871	2	33.5	2	89	3	89	42	0	6	51	1.26
6901349--6901396	23	2.1	23	84	0	60	37	10	8	43	1.69
6901459--6901506	16	3.1	16	84	3	53	60	12	4	22	1.49
6902076--6902144	24	2.9	24	80	2	86	55	2	1	40	1.24
6904759--6904800	22	2.0	20	90	9	66	47	0	11	40	1.40
6905503--6905553	19	2.8	19	85	5	70	35	1	0	62	1.06
6905496--6905562	10	7.0	10	75	14	70	37	1	0	61	1.05
6905761--6905801	16	2.6	16	82	14	50	48	0	2	48	1.14
6906246--6906297	22	2.4	21	75	9	50	28	1	0	69	0.99
6910773--6910814	17	2.5	17	88	3	59	7	14	0	78	0.95
6910801--6910861	10	5.9	10	83	7	77	4	11	0	83	0.79
6910773--6910861	27	3.3	25	76	19	74	6	12	0	80	0.88
6911748--6911772	13	1.9	13	100	0	50	32	16	16	36	1.90
6911760--6911812	20	2.6	21	84	3	72	39	15	16	28	1.89
6911727--6911790	33	1.9	32	84	12	85	32	20	17	29	1.95
6911864--6911888	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)
6911844--6911911	33	2.1	33	88	2	102	35	17	14	32	1.91
6918185--6918225	22	2.0	21	86	13	59	31	21	4	41	1.74
6918488--6918539	20	2.5	20	90	9	77	23	50	23	3	1.66
6920504--6920528	13	1.9	13	100	0	50	32	16	16	36	1.90
6920619--6920643	13	1.9	13	100	0	50	32	16	16	36	1.90
6920599--6920666	33	2.1	33	88	2	102	35	17	14	32	1.91
6921826--6921925	41	2.4	41	81	0	119	34	16	25	25	1.95
6925244--6925292	23	2.1	23	85	11	64	48	0	0	51	1.00
6929302--6929446	49	2.9	50	82	3	193	46	10	16	26	1.79
6930490--6930551	16	3.9	17	79	8	51	30	4	11	53	1.57
6931534--6931573	21	2.0	21	90	5	64	42	12	17	27	1.85
6934059--6934151	45	2.1	45	89	0	141	54	20	10	13	1.69
6934763--6934789	13	2.1	13	100	0	54	29	14	14	40	1.86
6936476--6936509	9	3.8	9	96	0	50	50	0	23	26	1.50
6936929--6936969	15	2.6	16	81	14	50	56	7	12	24	1.61
6942540--6942608	33	2.1	33	91	0	111	23	21	21	33	1.97
6943368--6943408	22	1.9	22	85	5	57	39	7	12	41	1.70
6949926--6950174	123	2.0	123	90	0	390	43	16	19	20	1.88
6950996--6951043	19	2.5	20	89	3	71	35	18	10	35	1.85
6953384--6953852	229	2.0	232	87	4	676	33	17	8	40	1.81
6954059--6954130	36	2.0	36	94	0	126	36	20	2	40	1.67
6956341--6956389	21	2.4	21	86	3	64	44	0	22	32	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6961747--6961812	28	2.4	28	86	0	87	25	18	34	21	1.96
6961638--6962046	108	3.8	108	85	2	484	32	16	26	25	1.96
6961856--6961926	28	2.6	27	88	8	99	26	16	30	25	1.97
6961961--6962031	28	2.5	28	90	0	106	22	18	36	22	1.95
6961561--6962085	107	4.9	107	81	5	540	32	15	25	26	1.95
6962021--6962199	51	3.5	51	79	2	182	34	11	25	28	1.91
6964484--6964660	20	8.8	19	71	22	114	41	14	16	27	1.87
6964504--6964573	33	2.1	33	97	0	131	40	12	18	28	1.88
6964484--6964642	53	3.1	52	78	11	166	40	13	17	28	1.88
6964523--6964553	13	2.4	13	88	0	53	38	12	16	32	1.86
6967970--6968069	50	2.0	50	98	0	191	36	25	15	24	1.94
6968630--6968698	33	2.1	33	86	0	93	31	23	13	31	1.92
6968727--6968781	19	2.8	19	80	2	65	40	14	12	32	1.84
6977022--6977064	22	1.9	23	86	13	63	41	20	4	32	1.73
6977397--6977555	63	2.5	63	94	0	282	30	15	14	38	1.88
6979284--6979309	2	13.0	2	100	0	52	50	0	0	50	1.00
6980314--6980362	20	2.4	19	83	10	53	51	0	0	48	1.00
6980333--6980372	20	1.9	21	90	10	64	47	0	2	50	1.14
6980897--6980942	16	2.9	16	87	9	60	36	8	0	54	1.32
6981528--6981566	16	2.5	15	92	8	69	33	0	0	66	0.92
6983160--6983190	2	15.5	2	100	0	62	48	0	0	51	1.00
6983773--6983835	19	3.5	19	76	16	55	58	4	1	34	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6983987--6984019	15	2.1	16	94	5	59	27	12	0	60	1.32
6986541--6986601	24	2.5	24	72	0	59	52	3	4	39	1.39
6989983--6990045	16	4.1	16	75	17	71	36	0	1	61	1.05
6989987--6990040	19	3.0	19	86	10	78	35	0	1	62	1.06
6990229--6990277	24	2.0	24	84	0	62	48	0	0	51	1.00
6994158--6994271	58	2.0	58	87	0	165	45	13	10	30	1.77
6994204--6994343	72	1.9	72	88	5	212	47	16	8	27	1.75
6994457--6994570	48	2.4	47	84	8	142	50	14	13	22	1.77
6997201--6997246	23	1.9	23	82	8	56	52	2	0	45	1.13
6997965--6998014	25	2.0	25	84	7	66	62	2	0	36	1.07
6998762--6998823	16	3.9	16	78	2	63	35	0	8	56	1.29
6998763--6998823	32	1.9	32	86	3	88	36	0	8	55	1.30
6999329--6999371	2	21.5	2	100	0	86	48	0	51	0	1.00
7001691--7001742	22	2.4	22	96	3	97	48	5	7	38	1.56
7010337--7010395	32	1.9	30	83	13	75	59	10	10	20	1.58
7010675--7010700	13	2.0	13	100	0	52	30	15	15	38	1.88
7010655--7010718	32	2.0	33	90	3	103	28	14	15	42	1.86
7012430--7012460	15	2.1	15	93	0	53	12	22	16	48	1.80
7016189--7016247	32	1.9	30	83	13	75	59	10	10	20	1.58
7016527--7016552	13	2.0	13	100	0	52	30	15	15	38	1.88
7016507--7016570	32	2.0	33	90	3	103	28	14	15	42	1.86
7023552--7023576	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7029700--7029795	20	4.7	19	82	12	79	31	18	13	36	1.90
7029720--7029760	13	3.4	13	80	16	52	36	14	14	34	1.87
7029866--7029892	13	2.1	13	100	0	54	40	14	14	29	1.86
7031852--7031884	16	2.1	16	100	0	66	42	12	12	33	1.79
7034557--7034660	35	3.0	35	83	9	124	30	26	9	32	1.89
7036552--7036577	13	2.0	13	100	0	52	30	15	15	38	1.88
7036532--7036595	32	2.0	33	87	3	94	28	14	17	40	1.88
7039502--7039770	97	2.8	98	77	6	287	36	11	22	28	1.90
7042348--7042391	22	2.0	22	90	0	70	38	9	13	38	1.77
7045812--7045862	20	2.5	20	87	3	57	35	17	7	39	1.79

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   38   39   40   41   42   43   44   45