genome.fa.s89.2.7.7.80.10.50.1000.27.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: Scaffold89
Parameters: 2 7 7 80 10 50 1000
Length:  5168001

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   

This is table  27  of  27  ( 3236 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)
4871174--4871248	20	3.8	20	78	0	87	34	13	12	40	1.81
4871174--4871251	40	2.0	39	87	2	111	34	12	12	39	1.82
4874984--4875021	2	18.0	2	89	10	58	47	5	0	47	1.24
4877532--4877561	2	15.0	2	100	0	60	50	0	50	0	1.00
4878541--4878571	2	15.5	2	100	0	62	51	0	0	48	1.00
4887483--4887532	26	1.9	26	83	0	64	28	8	16	48	1.74
4889897--4889943	21	2.2	22	88	3	69	48	4	0	46	1.21
4890092--4890175	30	2.9	28	79	10	87	13	16	9	60	1.58
4900642--4900672	4	7.8	4	92	0	53	3	70	0	25	1.02
4905063--4905111	20	2.5	20	79	0	62	61	4	0	34	1.15
4906863--4906892	2	15.0	2	100	0	60	50	0	0	50	1.00
4908738--4908762	3	8.3	3	100	0	50	64	0	0	36	0.94
4911776--4911819	6	6.7	6	80	19	52	36	0	13	50	1.42
4911774--4911814	8	5.6	8	78	21	54	36	0	12	51	1.40
4911774--4911823	14	3.6	14	97	2	93	36	0	14	50	1.43
4916686--4916713	2	14.0	2	100	0	56	50	0	50	0	1.00
4917050--4917081	16	2.0	16	93	0	55	71	0	28	0	0.86
4928856--4928899	18	2.4	18	84	0	61	15	38	22	22	1.92
4928884--4928924	21	2.0	21	95	0	73	26	31	29	12	1.92
4928911--4928945	15	2.3	15	95	0	61	22	51	11	14	1.74
4929251--4929287	9	4.1	9	96	0	65	10	21	37	29	1.88
4929328--4929378	24	2.1	24	92	0	84	37	13	33	15	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4929644--4929669	2	13.0	2	100	0	52	50	0	0	50	1.00
4935362--4935389	4	7.0	4	100	0	56	25	25	0	50	1.50
4942848--4942879	5	6.2	5	96	3	55	78	0	0	21	0.76
4942905--4942929	2	12.5	2	100	0	50	48	0	0	52	1.00
4946803--4946842	2	20.5	2	94	5	73	50	0	0	50	1.00
4947202--4947234	2	16.5	2	100	0	66	51	0	48	0	1.00
4952840--4952872	2	16.5	2	93	0	57	48	0	3	48	1.17
4952874--4952908	2	17.5	2	100	0	70	51	0	48	0	1.00
4953985--4954023	2	19.5	2	86	0	51	51	5	0	43	1.24
4953985--4954022	10	3.8	10	89	0	58	52	5	0	42	1.24
4956842--4956887	21	2.1	22	88	4	67	32	19	28	19	1.96
4958751--4958808	24	2.3	26	91	5	93	32	25	15	25	1.95
4958798--4958863	27	2.4	27	85	5	80	25	9	18	46	1.78
4958825--4958880	27	2.0	27	82	3	67	23	7	17	51	1.70
4961212--4961291	35	2.2	39	84	10	107	50	0	0	50	1.00
4961243--4961305	15	4.0	15	73	22	58	52	0	0	47	1.00
4961244--4961305	24	2.6	24	72	12	65	53	0	0	46	1.00
4961267--4961320	25	2.1	25	83	13	65	61	0	0	38	0.96
4965971--4966001	2	15.5	2	100	0	62	51	0	0	48	1.00
4972124--4972163	2	19.5	2	94	5	71	47	2	0	50	1.14
4984661--4984715	17	3.0	20	74	17	64	41	14	10	32	1.81
4987967--4988041	38	1.9	39	97	2	143	8	25	10	56	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4988937--4988970	2	17.0	2	88	11	52	50	2	0	47	1.16
4989976--4990018	2	21.5	2	90	0	68	46	2	2	48	1.27
4991102--4991144	4	10.8	4	94	0	77	0	25	2	72	0.97
4991438--4991537	49	2.0	49	94	0	173	24	18	21	37	1.94
4992442--4992486	2	22.5	2	86	0	63	51	6	0	42	1.28
4992662--4992699	2	19.0	2	100	0	76	0	50	0	50	1.00
4992699--4992728	2	15.0	2	100	0	60	50	0	0	50	1.00
4997378--4997417	2	20.5	2	94	5	73	50	0	0	50	1.00
5000395--5000429	17	2.0	17	88	5	52	0	17	0	82	0.66
5001436--5001473	6	6.3	6	93	0	67	28	15	39	15	1.89
5003630--5003665	2	18.0	2	100	0	72	50	0	0	50	1.00
5042414--5042464	2	25.5	2	100	0	102	49	0	0	50	1.00
5042660--5042731	36	2.0	36	94	0	126	26	48	9	15	1.75
5044395--5044432	3	12.7	3	100	0	76	34	0	0	65	0.93
5048284--5048317	2	17.0	2	100	0	68	50	0	0	50	1.00
5048407--5048435	3	9.7	3	100	0	58	0	31	34	34	1.58
5053468--5053520	2	26.5	2	96	0	97	1	47	0	50	1.12
5054929--5054959	7	4.4	7	95	0	53	29	32	38	0	1.57
5056600--5056643	23	1.9	23	85	0	61	79	13	6	0	0.92
5072751--5072797	17	2.6	18	86	6	60	65	0	0	34	0.93
5072781--5072822	13	3.1	14	80	16	52	54	2	0	42	1.13
5078727--5078751	4	6.2	4	100	0	50	48	28	0	24	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5087777--5087820	22	2.0	22	82	13	54	38	22	9	29	1.85
5088766--5088921	36	4.0	36	70	22	118	42	5	1	51	1.32
5088868--5088952	19	4.5	19	71	14	77	38	5	0	55	1.24
5089408--5089483	20	3.8	20	78	0	89	36	13	11	38	1.81
5089408--5089486	40	2.0	39	87	2	113	36	12	12	37	1.82
5090403--5090451	23	2.1	23	100	0	98	16	8	8	67	1.40
5090397--5090451	23	2.5	21	88	11	92	18	10	9	61	1.54
5094211--5094236	4	6.5	4	100	0	52	23	0	0	76	0.78
5094496--5094525	2	15.5	2	93	6	53	50	0	0	50	1.00
5102586--5102621	2	18.5	2	88	5	56	50	2	0	47	1.15
5103560--5103594	14	2.6	13	86	8	52	5	8	0	85	0.73
5105645--5105711	35	1.9	35	90	0	107	22	1	43	32	1.62
5105663--5105744	35	2.3	35	83	4	94	23	3	42	30	1.71
5109880--5109940	13	5.2	13	70	22	53	31	13	13	42	1.82
5109880--5109958	33	2.4	33	97	0	149	30	13	12	43	1.82
5109926--5110074	52	2.9	50	87	6	199	34	17	16	31	1.92
5114161--5114198	20	1.9	20	100	0	76	39	10	18	31	1.85
5114751--5115982	28	42.9	29	86	5	1606	22	17	30	28	1.97
5114797--5115985	57	20.8	57	86	4	1578	22	17	31	28	1.97
5117198--5117274	19	4.2	18	77	14	77	1	3	11	83	0.85
5117202--5117276	11	6.7	12	83	6	54	1	2	12	84	0.80
5117228--5117277	5	10.0	5	75	16	50	0	0	14	86	0.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5117235--5117277	11	4.0	11	93	3	70	0	0	13	86	0.58
5117236--5117277	16	2.6	16	88	0	66	0	0	14	85	0.59
5117202--5117277	27	2.8	25	82	13	89	1	2	13	82	0.83
5121878--5121905	13	2.2	13	100	0	56	28	14	17	39	1.89
5134448--5134485	20	1.9	20	94	0	67	42	10	15	31	1.81
5139367--5139444	24	3.3	24	73	20	74	41	0	1	57	1.07
5139629--5139679	23	2.2	24	82	10	61	52	0	1	45	1.12
5146581--5146645	27	2.3	27	77	12	69	61	3	3	32	1.27
5146581--5146671	29	3.4	26	73	15	69	59	2	3	35	1.26
5148993--5149018	3	8.7	3	100	0	52	0	34	0	65	0.93
5151655--5151699	21	2.1	21	100	0	90	33	15	15	35	1.89
5154039--5154071	15	2.2	15	89	10	50	33	0	3	63	1.10
5156780--5156859	7	10.7	7	76	12	63	2	2	61	33	1.23
5156787--5156819	17	1.9	17	93	0	57	3	3	54	39	1.31
5156773--5156859	22	3.8	22	78	16	81	2	2	60	34	1.22
5156855--5156952	21	4.7	21	75	14	87	10	2	42	44	1.49
5156779--5158127	15	90.2	14	74	17	790	5	4	49	40	1.45
5159970--5160019	9	5.4	9	78	4	55	4	16	40	40	1.67
5156866--5167778	7	1434.0	7	73	20	4900	5	12	42	39	1.67
5162578--5162901	97	3.4	98	79	16	276	4	2	54	38	1.33
5163358--5163483	17	7.6	17	84	12	124	4	13	34	46	1.64
5164952--5165253	47	6.4	45	72	20	142	6	1	53	37	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5165516--5165564	16	3.0	16	80	14	55	0	24	36	38	1.56
5165583--5165628	22	2.0	23	83	4	58	2	19	43	34	1.63
5165517--5167778	76	29.7	74	70	20	727	6	15	39	38	1.72
5166621--5166670	25	2.0	25	88	7	75	4	18	34	44	1.68
5167826--5167995	7	23.7	7	75	14	134	8	79	2	10	1.02
5167827--5167989	16	10.8	15	72	13	104	8	79	2	9	1.03

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

The End!