genome.fa.s160.2.7.7.80.10.50.1000.28.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: Scaffold160
Parameters: 2 7 7 80 10 50 1000
Length:  5021213

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   

This is table  28  of  30  ( 3592 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)
4625567--4625643	38	2.0	38	100	0	154	44	2	37	15	1.61
4627022--4627065	22	2.0	22	86	8	63	34	0	0	65	0.93
4627034--4627077	16	2.9	16	83	12	58	36	0	0	63	0.95
4627614--4627682	19	4.0	18	75	22	76	37	10	14	37	1.80
4627617--4627677	32	1.9	32	93	0	104	36	9	16	37	1.82
4641666--4641695	13	2.3	13	94	0	51	90	10	0	0	0.47
4643129--4643420	28	10.1	28	85	4	327	31	33	15	18	1.93
4643131--4643452	30	11.1	30	85	5	335	31	32	15	20	1.94
4643135--4643435	58	5.2	58	87	4	419	32	33	15	18	1.93
4643426--4643582	34	4.6	34	90	1	217	20	31	13	34	1.91
4643589--4643680	43	2.1	43	91	0	148	26	25	17	31	1.97
4643635--4643880	52	4.8	52	71	9	180	23	27	16	32	1.96
4643632--4643984	154	2.3	150	88	4	519	24	27	15	32	1.95
4644641--4644709	19	4.0	18	75	22	76	37	10	14	37	1.80
4644644--4644704	32	1.9	32	93	0	104	36	9	16	37	1.82
4648021--4648123	33	3.2	30	75	22	84	62	0	1	34	1.13
4648733--4648783	11	4.5	11	81	13	50	64	0	1	33	1.05
4648748--4648787	11	3.6	11	86	0	62	65	0	0	35	0.93
4649503--4649593	40	2.4	37	81	9	103	3	28	1	67	1.14
4649557--4649621	25	2.5	26	87	5	96	3	29	0	67	1.05
4649509--4649628	4	28.0	4	71	21	50	2	28	1	67	1.13
4654883--4654945	16	3.9	17	75	21	55	44	1	1	52	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4654919--4655006	16	5.6	16	78	9	56	40	1	0	57	1.06
4654935--4654991	21	2.8	21	71	5	55	36	0	0	63	0.95
4654880--4654956	27	2.5	32	82	12	92	44	1	1	53	1.17
4654968--4655006	15	2.7	14	88	4	51	38	2	0	58	1.12
4655807--4655852	21	2.2	21	100	0	92	41	4	32	21	1.73
4656559--4656583	12	2.1	12	100	0	50	76	0	0	24	0.80
4656544--4656614	35	2.0	35	89	5	108	59	0	0	40	0.98
4656917--4656976	31	1.9	30	86	6	84	45	10	0	45	1.37
4657674--4657720	24	2.0	24	83	8	60	46	2	0	51	1.13
4657705--4657747	16	2.7	16	77	0	50	39	2	2	55	1.25
4662103--4662225	61	2.0	61	100	0	246	19	11	11	57	1.63
4662631--4662708	32	2.5	31	80	4	75	33	2	3	60	1.28
4663709--4663754	21	2.3	20	82	10	58	36	0	0	63	0.95
4664151--4664225	15	4.9	15	71	12	55	41	0	1	57	1.07
4664151--4664264	18	6.8	17	71	20	64	42	0	0	57	1.05
4664597--4664666	24	3.0	24	81	10	65	62	0	1	35	1.04
4664615--4664666	7	6.6	8	82	12	56	61	0	0	38	0.96
4665220--4665257	17	2.2	17	90	0	58	26	5	0	68	1.11
4666327--4666360	17	2.1	17	88	5	52	79	0	17	2	0.86
4666719--4666774	23	2.4	23	85	5	69	23	5	7	64	1.40
4667635--4667687	26	2.0	27	85	10	74	47	0	0	52	1.00
4669875--4669900	2	13.0	2	100	0	52	0	0	50	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4673023--4673047	12	2.1	12	100	0	50	12	8	0	80	0.92
4675628--4675658	16	1.9	16	93	0	53	35	3	0	61	1.12
4677194--4677251	22	2.8	20	80	14	73	32	13	12	41	1.82
4682601--4682649	24	2.0	24	96	0	89	42	4	32	20	1.71
4691798--4691829	16	2.0	16	100	0	64	37	6	37	18	1.76
4694876--4695168	61	4.8	61	85	4	360	31	18	24	26	1.97
4695114--4695403	100	3.0	99	85	5	360	27	17	29	25	1.97
4696356--4696415	9	6.6	9	85	12	54	5	8	1	85	0.81
4696359--4696412	13	4.0	13	83	9	56	5	5	1	87	0.74
4696364--4696405	9	4.4	10	91	8	61	7	4	0	88	0.64
4696371--4696407	10	3.7	10	89	10	58	8	2	0	89	0.58
4698122--4698178	22	2.6	22	94	2	98	28	21	21	29	1.98
4702416--4702485	35	2.0	35	97	0	131	31	15	8	44	1.77
4708811--4709189	79	4.8	78	75	8	302	34	15	22	27	1.94
4709129--4709252	50	2.5	50	82	1	131	40	12	19	27	1.88
4712714--4712812	17	6.2	17	68	20	61	78	7	7	7	1.08
4712711--4712770	14	4.6	12	78	15	57	83	8	5	3	0.90
4712721--4712776	27	2.0	28	86	10	78	80	7	7	5	1.02
4712711--4712791	41	2.0	42	85	7	112	81	6	6	6	0.98
4712738--4712770	12	2.7	12	95	4	57	84	6	6	3	0.84
4712731--4712790	14	4.3	13	76	16	50	83	5	5	6	0.91
4712711--4712791	42	2.0	41	85	9	112	81	6	6	6	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4713796--4713833	14	2.7	14	95	0	67	21	31	13	34	1.91
4714302--4714462	30	5.4	30	70	18	86	29	24	13	32	1.93
4714389--4714529	28	4.9	27	76	12	113	29	26	18	25	1.98
4714389--4714529	57	2.4	57	84	4	176	29	26	18	25	1.98
4714389--4714522	29	4.6	28	77	11	112	29	26	17	26	1.97
4714684--4714931	52	4.8	52	77	3	221	25	23	14	36	1.93
4714680--4714945	104	2.6	104	75	6	263	24	24	13	36	1.92
4715538--4715653	20	5.7	20	78	3	115	37	12	18	31	1.88
4715562--4715653	41	2.2	41	98	0	175	35	13	19	31	1.90
4715586--4715653	21	3.3	21	79	4	93	36	14	19	29	1.91
4715906--4715977	36	2.0	36	91	0	117	37	16	12	33	1.86
4721513--4721574	20	3.2	19	79	20	74	61	11	4	22	1.48
4721625--4721673	25	2.0	25	87	0	71	51	2	12	34	1.51
4721765--4721828	26	2.4	27	82	12	71	45	1	4	48	1.32
4721803--4721853	19	2.5	19	84	9	66	52	1	0	45	1.12
4724376--4724428	20	2.7	20	100	0	106	35	26	15	22	1.93
4724439--4724487	20	2.5	19	90	3	71	32	16	16	34	1.91
4730447--4730478	12	2.7	12	95	0	55	18	25	37	18	1.94
4735193--4735224	12	2.7	12	95	0	55	18	25	37	18	1.94
4735695--4735770	23	3.0	25	77	15	77	52	1	1	44	1.17
4744362--4744441	21	3.8	21	80	6	90	33	25	16	25	1.95
4744372--4744454	42	2.0	42	90	0	130	32	22	18	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4744368--4744453	21	4.1	20	70	14	57	31	23	18	26	1.97
4748973--4748998	13	2.0	13	100	0	52	23	0	0	76	0.78
4749423--4749493	28	2.4	29	84	9	83	60	2	5	30	1.34
4749854--4749966	29	4.2	28	76	19	100	56	0	0	41	1.11
4749967--4750038	30	2.4	30	85	0	90	55	1	0	43	1.08
4749697--4750546	401	2.1	396	92	6	1425	49	3	4	42	1.39
4750254--4750363	27	4.2	27	78	15	99	55	0	1	41	1.16
4750344--4750384	21	2.0	21	90	4	66	58	0	0	41	0.98
4750385--4750467	42	2.1	39	80	13	89	57	3	0	38	1.16
4750483--4750515	15	2.1	16	88	5	50	54	0	0	45	0.99
4750600--4750654	24	2.4	23	84	6	67	65	0	0	34	0.93
4750633--4750713	42	2.0	42	83	11	105	56	2	0	40	1.12
4751513--4751549	17	2.2	17	95	0	65	51	2	0	45	1.15
4752866--4752892	13	2.1	13	100	0	54	29	14	14	40	1.86
4752847--4752911	32	2.0	32	90	3	103	26	16	16	40	1.90
4752876--4752933	19	2.9	19	87	5	80	32	15	17	34	1.91
4752976--4753007	13	2.5	13	94	0	55	43	15	12	28	1.83
4752963--4753027	33	2.0	33	87	6	96	41	13	15	29	1.86
4759108--4759135	13	2.2	13	100	0	56	28	14	17	39	1.89
4760997--4761043	17	2.8	17	90	6	69	29	0	34	36	1.58
4761580--4761606	13	2.1	13	100	0	54	29	14	14	40	1.86
4761561--4761624	32	2.0	32	90	3	101	25	17	18	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4761697--4761726	13	2.3	13	94	0	51	36	16	16	30	1.91
4763339--4763371	15	2.1	16	94	5	59	9	39	0	51	1.34
4765243--4765299	13	4.8	13	69	30	56	35	15	15	33	1.90
4765242--4765320	33	2.4	33	97	0	149	35	13	15	35	1.87
4765256--4765319	20	3.5	20	70	27	70	34	14	15	35	1.88
4765453--4765532	27	3.2	24	67	25	65	56	13	1	28	1.46
4765464--4765546	28	3.1	28	67	19	77	54	15	2	27	1.54
4765442--4765546	52	2.0	52	96	0	192	55	15	1	27	1.51
4769889--4769923	3	11.7	3	93	0	61	31	31	0	37	1.58
4772283--4772327	16	2.5	19	82	13	60	53	2	0	44	1.13

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