genome.fa.s71.2.7.7.80.10.50.1000.28.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  28  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)
4715598--4715645	25	2.0	24	87	4	69	58	0	0	41	0.98
4715591--4715654	33	1.9	34	84	6	87	62	0	0	37	0.95
4718285--4718311	2	13.5	2	100	0	54	51	48	0	0	1.00
4719155--4719187	2	16.5	2	93	0	57	0	48	3	48	1.17
4719187--4719215	2	14.5	2	100	0	58	48	0	0	51	1.00
4727458--4727537	28	2.9	28	73	15	76	45	1	1	52	1.16
4727471--4727537	29	2.4	28	82	9	82	44	0	1	53	1.09
4731914--4731943	14	2.1	14	100	0	60	0	13	6	80	0.91
4732437--4732466	15	2.0	15	100	0	60	33	6	40	20	1.78
4733275--4733325	7	7.1	7	74	12	50	49	1	0	49	1.12
4734204--4734237	3	11.3	3	100	0	68	0	32	0	67	0.91
4739022--4739052	2	15.5	2	100	0	62	51	0	48	0	1.00
4739487--4739578	24	3.9	24	76	10	73	53	0	0	46	1.00
4739489--4739568	29	2.9	29	78	12	87	52	0	0	47	1.00
4739505--4739551	14	3.1	16	79	20	64	53	0	0	46	1.00
4739916--4739951	3	12.0	3	100	0	72	33	0	0	66	0.92
4740073--4740118	3	15.3	3	100	0	92	32	0	0	67	0.91
4744047--4744096	15	3.2	16	81	16	52	62	0	0	38	0.96
4744062--4744099	14	2.6	15	84	15	53	60	0	0	39	0.97
4745003--4745034	16	2.0	16	93	0	55	53	0	0	46	1.00
4745610--4745660	20	2.6	19	79	14	50	43	9	3	43	1.56
4745830--4745887	24	2.5	24	78	10	68	46	1	0	51	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4745833--4745887	23	2.5	22	77	14	58	47	1	0	50	1.11
4745834--4745883	16	3.1	16	81	13	50	50	2	0	48	1.12
4748956--4749006	2	25.5	2	87	0	75	49	3	1	45	1.32
4748956--4749006	16	3.2	16	94	0	84	49	3	1	45	1.32
4749735--4749764	15	2.0	15	100	0	60	46	0	0	53	1.00
4751405--4751447	18	2.3	19	84	4	61	25	0	25	48	1.51
4753127--4753174	18	2.9	15	77	22	51	60	0	0	39	0.97
4753135--4753170	18	2.0	18	89	10	56	58	0	0	41	0.98
4753134--4753174	15	2.6	16	81	14	50	63	0	0	36	0.95
4753123--4753209	32	2.6	34	73	12	90	60	0	0	39	0.97
4753141--4753203	15	3.8	17	76	16	53	61	0	0	38	0.96
4756462--4756519	16	3.6	16	81	9	73	56	6	1	34	1.36
4756423--4756508	32	2.7	32	85	1	102	55	9	1	33	1.39
4759024--4759074	20	2.5	19	75	12	57	56	0	5	37	1.23
4763084--4763110	2	13.5	2	100	0	54	51	48	0	0	1.00
4767304--4767334	2	15.5	2	100	0	62	48	0	0	51	1.00
4770029--4770058	2	15.0	2	100	0	60	50	0	50	0	1.00
4771893--4771917	2	12.5	2	100	0	50	52	0	0	48	1.00
4784006--4784031	2	13.0	2	100	0	52	50	0	50	0	1.00
4784156--4784217	2	31.0	2	90	0	88	43	0	6	50	1.28
4788517--4788733	34	6.4	33	82	8	258	41	25	7	25	1.82
4788517--4788733	102	2.1	101	90	0	335	41	25	7	25	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4793138--4793359	34	6.5	34	79	9	231	42	24	6	26	1.79
4793140--4793359	69	3.2	67	79	6	237	42	24	6	25	1.79
4793140--4793359	103	2.2	101	85	2	296	42	24	6	25	1.79
4794501--4794539	14	2.7	14	82	17	53	43	0	0	56	0.99
4794501--4794559	29	2.0	30	83	9	77	35	0	3	61	1.13
4795289--4795335	24	1.9	24	86	4	67	48	0	0	51	1.00
4795700--4795728	6	4.8	6	100	0	58	68	0	0	31	0.89
4795767--4795811	22	2.1	22	87	4	65	33	0	2	64	1.06
4796227--4796283	19	3.0	19	97	0	105	15	33	45	5	1.69
4800219--4800260	2	21.0	2	100	0	84	50	0	50	0	1.00
4802720--4802769	15	3.4	15	76	15	59	64	0	0	36	0.94
4802711--4802771	29	2.1	30	90	3	97	60	0	0	39	0.97
4802728--4802775	21	2.3	21	75	10	55	64	0	0	35	0.94
4812661--4812689	14	2.1	14	100	0	58	20	13	44	20	1.85
4817298--4817463	85	1.9	87	96	3	309	54	10	17	17	1.69
4819461--4820367	301	3.0	301	99	0	1805	36	16	11	35	1.85
4822280--4822324	4	11.2	4	95	0	54	66	0	24	8	1.20
4822398--4822671	137	2.0	137	100	0	548	35	19	16	28	1.93
4824971--4825214	120	2.0	120	97	0	461	39	17	13	29	1.88
4830861--4831000	45	3.1	44	74	13	124	33	0	7	58	1.27
4830895--4831001	22	4.8	22	65	16	58	36	0	7	56	1.28
4830902--4830973	23	3.2	22	67	13	65	36	0	6	56	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4830886--4831027	45	3.2	45	75	13	125	37	0	7	55	1.27
4831406--4831440	16	2.3	15	90	5	52	48	0	2	48	1.16
4831514--4831596	22	3.3	24	75	19	73	51	1	0	46	1.08
4833137--4833188	22	2.3	23	80	16	63	59	1	0	38	1.08
4833258--4833291	18	2.0	17	88	11	52	47	0	0	52	1.00
4833322--4833364	20	2.2	20	83	8	52	39	0	0	60	0.97
4834865--4834903	20	2.0	20	89	0	60	61	5	5	28	1.39
4836763--4836797	17	2.1	17	88	0	52	2	14	0	82	0.77
4841198--4841250	22	2.4	21	87	9	79	52	3	20	22	1.62
4844482--4844536	25	2.3	23	78	12	56	76	1	16	5	1.06
4854014--4854050	2	18.5	2	100	0	74	51	0	48	0	1.00
4860223--4860269	2	23.5	2	100	0	94	51	0	0	48	1.00
4866624--4866751	64	2.0	64	95	0	229	35	21	11	31	1.90
4869766--4869833	33	2.1	33	100	0	136	60	23	11	4	1.49
4871174--4871288	58	2.0	57	89	1	176	38	21	13	26	1.90
4872808--4872891	34	2.4	35	75	18	86	55	1	2	40	1.20
4872964--4873017	18	3.0	18	80	0	63	44	0	7	48	1.31
4877261--4877491	114	2.0	114	100	0	462	43	12	19	23	1.86
4883892--4883932	11	3.1	14	76	23	52	46	0	0	53	1.00
4885314--4885354	18	2.3	18	80	20	50	56	0	0	43	0.99
4885932--4886300	188	2.0	184	90	2	576	18	24	13	43	1.86
4888953--4888992	20	2.0	20	100	0	80	45	15	20	20	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4889471--4889498	8	3.5	8	100	0	56	35	0	14	50	1.43
4896563--4896768	105	2.0	106	89	0	315	18	16	14	51	1.76
4897178--4897268	44	2.1	44	95	0	164	24	10	8	56	1.62
4899976--4900070	30	3.1	30	77	18	106	52	0	0	47	1.00
4901116--4901146	14	2.2	14	94	0	53	35	3	0	61	1.12
4902804--4902845	21	2.1	19	86	8	57	69	0	0	30	0.89
4903581--4903624	20	2.1	21	84	16	56	56	0	0	43	0.99
4905129--4905202	36	2.1	36	100	0	148	51	13	16	18	1.76
4905906--4905944	16	2.5	17	84	16	57	33	0	0	66	0.92
4905910--4905944	15	2.2	16	90	5	54	31	0	0	68	0.90
4905917--4905961	20	2.3	20	84	3	56	28	4	0	66	1.11
4905916--4905969	19	2.8	19	78	10	56	31	5	0	62	1.18
4906485--4906531	21	2.2	22	84	3	60	44	0	2	53	1.12
4907186--4907223	2	19.0	2	94	0	67	50	2	0	47	1.15
4914078--4914110	2	16.5	2	100	0	66	51	0	0	48	1.00
4920552--4920594	16	2.7	16	85	0	59	46	2	0	51	1.13
4920552--4920607	11	5.2	11	80	4	69	50	1	0	48	1.11
4921009--4921108	10	9.9	10	69	10	69	51	3	4	42	1.36
4921039--4921108	31	2.3	29	85	4	86	51	1	2	44	1.25
4922942--4922983	3	14.0	3	100	0	84	66	0	0	33	0.92
4923399--4923555	44	4.0	41	64	24	102	51	1	1	45	1.20
4927337--4927390	22	2.5	20	80	16	63	68	1	0	29	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4927336--4927442	23	4.9	21	70	17	58	62	1	1	33	1.17
4927710--4927909	104	1.9	110	80	14	247	47	1	0	51	1.14
4927844--4927891	23	2.0	24	88	4	71	41	0	0	58	0.98
4927847--4927894	20	2.4	19	77	16	53	41	0	0	58	0.98
4927814--4927944	69	1.9	69	85	10	182	45	0	0	54	0.99
4928982--4929041	14	4.1	14	72	10	57	36	0	0	63	0.95
4929007--4929058	20	2.6	20	82	11	63	42	0	1	55	1.10
4928967--4929035	30	2.3	30	80	7	79	40	0	0	59	0.97
4929001--4929113	49	2.3	48	80	14	124	39	0	1	58	1.09
4929070--4929123	18	2.9	18	79	15	58	37	1	0	61	1.07

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