genome.fa.s4.2.7.7.80.10.50.1000.23.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: Scaffold4
Parameters: 2 7 7 80 10 50 1000
Length:  5986281

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   

This is table  23  of  31  ( 3628 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)
4825711--4825750	21	2.0	20	90	5	62	50	0	0	50	1.00
4826638--4826701	20	3.2	20	77	14	69	50	0	1	48	1.10
4826727--4826780	22	2.6	22	80	13	62	40	0	0	59	0.98
4830278--4830443	11	16.5	11	70	19	96	62	1	1	35	1.11
4830290--4830431	20	7.1	20	68	18	73	63	0	0	35	1.05
4830354--4830443	9	9.4	10	73	18	59	58	1	1	38	1.12
4830357--4830419	27	2.4	27	81	7	76	55	0	0	44	0.99
4832916--4833008	6	15.5	6	70	20	61	45	1	1	52	1.15
4832916--4833007	11	7.7	11	77	17	78	44	1	1	53	1.15
4832915--4833005	24	3.8	23	78	18	96	43	1	1	53	1.15
4833063--4833111	24	2.0	24	84	7	64	38	0	2	59	1.09
4833080--4833129	23	2.1	23	81	3	55	42	0	2	56	1.11
4834366--4834398	13	2.5	13	100	0	66	39	0	0	60	0.97
4834366--4834398	6	5.0	7	85	14	52	39	0	0	60	0.97
4835493--4835558	30	2.2	29	86	2	96	37	9	1	51	1.43
4835500--4835557	30	2.0	30	93	3	100	36	6	0	56	1.26
4837005--4837050	23	2.0	24	82	4	58	36	2	2	58	1.22
4837036--4837080	18	2.5	18	82	7	56	24	2	4	68	1.19
4844456--4844488	2	16.5	2	100	0	66	0	48	0	51	1.00
4844696--4844750	25	2.3	25	84	6	69	43	0	0	56	0.99
4846247--4846285	12	3.2	12	85	7	51	53	7	0	38	1.30
4846607--4846654	13	3.8	13	75	5	53	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4846593--4846663	34	2.1	34	86	5	99	45	0	0	54	0.99
4846724--4846780	27	2.2	26	83	3	69	61	0	0	38	0.96
4846765--4846806	18	2.2	19	87	12	59	54	0	0	45	0.99
4846962--4847003	19	2.2	19	83	8	50	57	2	2	38	1.25
4847202--4847256	16	3.7	16	72	18	55	34	0	0	65	0.93
4848151--4848211	24	2.5	23	82	15	70	63	1	1	32	1.13
4848164--4848211	12	4.5	10	79	20	53	64	0	2	33	1.05
4848494--4848535	21	2.0	21	86	13	61	40	0	0	59	0.97
4848592--4848649	17	3.8	16	76	21	61	60	5	0	34	1.19
4849231--4849260	2	15.0	2	92	0	51	46	0	3	50	1.18
4849484--4849527	21	2.1	21	83	8	54	50	2	0	47	1.13
4849657--4849694	2	19.0	2	100	0	76	50	0	0	50	1.00
4849694--4849740	2	23.5	2	100	0	94	51	0	48	0	1.00
4850511--4850555	21	2.2	20	84	4	54	64	0	0	35	0.94
4850924--4850980	26	2.1	28	81	12	66	43	0	1	54	1.10
4852127--4852214	41	2.1	41	97	0	167	50	4	15	29	1.64
4858549--4858589	17	2.5	17	84	11	50	31	2	0	65	1.05
4858958--4859007	2	26.5	2	88	11	79	52	0	0	48	1.00
4859592--4859622	2	16.0	2	93	6	55	48	0	0	51	1.00
4859751--4859797	25	1.9	24	91	4	76	29	2	2	65	1.15
4870846--4870874	3	9.7	3	100	0	58	68	0	0	31	0.89
4873998--4874043	24	1.9	24	82	8	58	52	4	4	39	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4874034--4874080	20	2.4	19	79	6	58	70	2	0	27	0.99
4874041--4874099	25	2.5	25	83	8	70	67	3	0	28	1.06
4874481--4874509	2	14.5	2	100	0	58	51	0	0	48	1.00
4874852--4875162	170	1.8	168	83	9	407	42	9	10	37	1.72
4875841--4875893	17	3.1	17	75	5	54	56	3	0	39	1.17
4876178--4876210	17	1.9	17	93	0	57	48	0	0	51	1.00
4877739--4877802	32	2.0	33	87	3	94	40	7	4	46	1.53
4879667--4879708	19	2.2	19	95	0	75	52	9	7	30	1.61
4884120--4884244	55	2.3	57	75	10	125	63	0	1	35	1.04
4884193--4884265	33	2.3	32	83	6	94	58	0	1	39	1.06
4884255--4884429	43	4.2	44	65	25	119	54	2	1	41	1.22
4884548--4884573	13	2.0	13	100	0	52	69	0	0	30	0.89
4885378--4885402	13	1.9	13	100	0	50	20	0	0	80	0.72
4886506--4886592	34	2.7	32	82	8	95	45	0	0	54	1.00
4886556--4886597	20	2.0	22	86	9	61	38	0	0	61	0.96
4886506--4886613	34	3.2	34	79	10	89	44	0	0	54	1.06
4886470--4886623	15	10.5	15	68	20	69	42	0	1	55	1.13
4887024--4887064	21	1.9	20	85	14	55	24	0	4	70	1.06
4887218--4887271	4	14.0	4	74	14	51	70	0	0	29	0.88
4887208--4887249	21	2.0	20	86	4	57	64	0	0	35	0.94
4887215--4887268	27	2.0	27	85	7	74	70	0	0	29	0.88
4888022--4888167	26	5.4	26	71	18	84	39	0	1	58	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4888022--4888147	26	4.7	26	72	15	96	38	0	1	59	1.07
4888088--4888177	34	2.6	35	74	13	87	41	1	0	57	1.06
4888094--4888149	18	3.3	18	73	16	57	42	0	0	57	0.99
4888075--4888140	20	3.4	19	72	16	55	40	0	0	59	0.98
4888151--4888211	7	8.1	7	74	13	50	32	3	0	63	1.10
4888158--4888200	11	3.9	11	78	9	52	32	4	0	62	1.15
4888096--4888172	32	2.4	34	85	10	99	42	1	0	55	1.07
4888161--4888203	21	2.0	21	95	4	77	27	4	0	67	1.10
4888537--4888570	13	2.6	13	85	0	50	61	5	0	32	1.20
4902978--4903006	2	14.5	2	100	0	58	51	0	0	48	1.00
4906041--4906116	24	3.2	24	72	18	70	57	0	1	40	1.07
4907224--4907283	21	2.6	24	82	10	72	48	1	0	50	1.11
4907204--4907283	24	3.2	25	76	13	76	51	1	0	47	1.08
4907548--4907594	6	8.2	6	86	9	55	48	0	0	51	1.00
4907549--4907583	5	6.6	5	96	3	52	45	0	0	54	0.99
4907596--4907658	10	6.0	10	80	9	63	44	0	0	55	0.99
4907591--4907639	20	2.6	19	76	17	50	40	0	0	59	0.98
4907615--4907658	16	2.8	16	78	0	52	40	0	0	59	0.98
4907852--4907916	29	2.3	30	84	10	91	40	0	0	60	0.97
4908780--4908897	20	5.8	20	72	22	68	56	0	0	43	0.99
4908777--4908907	11	12.6	11	69	23	54	57	0	0	42	0.98
4908782--4908909	46	3.1	42	70	23	112	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4908837--4908903	26	2.6	26	84	13	77	50	0	0	49	1.00
4909531--4909596	6	11.0	6	77	19	59	36	0	0	63	0.95
4909540--4909586	18	2.6	19	87	12	73	36	0	0	63	0.94
4910636--4910687	18	2.9	18	73	0	50	59	1	5	32	1.32
4910880--4910957	9	8.8	9	75	12	54	35	1	2	60	1.19
4910906--4910940	8	4.4	8	92	0	61	40	0	0	60	0.97
4910892--4910940	16	3.0	16	87	3	62	34	2	2	61	1.19
4911397--4911453	23	2.5	22	76	20	64	50	0	0	49	1.00
4911486--4911553	8	8.2	8	72	15	50	41	0	1	57	1.08
4911600--4911641	20	2.0	21	86	4	59	50	0	0	50	1.00
4911833--4911880	22	2.3	21	82	13	55	43	0	0	56	0.99
4911862--4911929	32	2.1	33	83	2	84	45	4	0	50	1.22
4914076--4914114	19	2.0	19	85	5	51	41	7	10	41	1.68
4914137--4914171	17	2.1	17	88	0	52	34	0	0	65	0.93
4915431--4915471	21	1.9	22	85	5	57	60	9	0	29	1.28
4915959--4916036	5	15.4	5	73	12	52	60	1	0	38	1.05
4915961--4916065	24	4.5	24	67	21	62	58	0	0	40	1.05
4915991--4916043	13	3.8	13	76	16	52	64	0	0	35	0.94
4915988--4916038	7	7.3	7	75	16	52	66	0	0	33	0.92
4915987--4916100	20	5.6	21	70	21	82	60	0	0	39	0.97
4915989--4916102	40	2.7	41	77	16	110	60	0	0	39	0.97
4915987--4916091	14	7.7	13	72	17	70	60	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4916049--4916098	18	2.8	17	85	11	57	60	0	0	40	0.97
4921805--4921898	14	6.1	15	70	21	70	32	1	3	62	1.18
4921844--4921929	24	3.6	22	77	13	73	36	3	0	60	1.14
4921886--4921935	24	2.1	24	84	0	64	44	4	0	52	1.20
4923337--4923380	20	2.2	20	83	4	52	47	0	0	52	1.00
4923858--4923883	3	8.7	3	100	0	52	34	34	30	0	1.58
4923919--4923957	15	2.6	15	83	0	51	0	61	10	28	1.28
4933459--4933498	3	13.3	3	100	0	80	32	0	32	35	1.58
4934654--4934711	23	2.6	21	77	17	55	39	1	1	56	1.19
4935047--4935388	148	2.3	145	81	7	386	38	8	7	46	1.61

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