genome.fa.s412.2.7.7.80.10.50.1000.28.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: Scaffold412
Parameters: 2 7 7 80 10 50 1000
Length:  4645160

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   

This is table  28  of  32  ( 3728 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)
3984593--3984641	23	2.1	23	96	0	89	53	10	18	18	1.72
3984936--3984976	10	4.2	9	82	17	55	0	14	0	85	0.60
3984934--3984976	15	2.9	15	83	13	61	0	16	0	83	0.64
3984936--3984976	11	4.1	10	81	12	57	0	14	0	85	0.60
3984936--3984976	19	2.1	20	90	4	66	0	14	0	85	0.60
3984943--3984975	17	1.9	17	88	11	50	0	15	0	84	0.61
3985652--3985741	21	4.4	21	73	10	87	35	15	14	34	1.88
3986554--3986583	13	2.3	13	94	0	51	33	16	10	40	1.82
3986599--3986686	20	4.8	19	75	21	89	28	18	13	39	1.88
3986536--3986665	33	4.1	33	77	9	144	27	16	15	40	1.89
3986616--3986646	13	2.4	13	100	0	62	29	16	16	38	1.90
3988465--3988490	13	2.0	13	100	0	52	30	15	15	38	1.88
3990230--3990345	51	2.3	51	87	1	171	33	25	11	29	1.91
3990174--3990551	129	2.9	128	79	5	397	28	24	12	33	1.92
3990360--3990476	50	2.3	50	81	10	123	28	24	13	33	1.93
3990999--3991448	248	1.8	248	100	0	900	30	17	22	29	1.97
3996974--3997583	55	10.5	59	86	5	606	26	26	19	27	1.99
4000701--4000841	52	2.7	52	91	2	230	31	17	17	33	1.94
4000830--4000854	13	1.9	13	100	0	50	36	16	16	32	1.90
4000920--4000944	13	1.9	13	100	0	50	32	16	16	36	1.90
4000898--4000964	33	2.0	33	88	0	98	40	13	11	34	1.81
4001002--4001043	21	2.0	21	90	0	66	35	14	14	35	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4001576--4002596	171	6.1	167	82	8	1195	37	14	25	22	1.92
4001778--4001936	49	3.1	49	76	6	147	35	15	23	24	1.94
4001987--4002076	42	2.1	42	85	6	117	35	16	25	22	1.95
4001714--4002736	334	3.1	330	80	10	1191	36	14	25	23	1.93
4002283--4002441	49	3.1	49	76	6	147	35	15	23	24	1.94
4001576--4002599	505	2.0	505	99	0	2012	37	14	25	22	1.92
4002492--4002764	43	6.1	42	74	17	212	33	16	25	24	1.96
4002538--4003068	98	5.6	95	84	11	568	32	17	25	24	1.96
4002452--4002924	140	3.4	140	87	6	604	33	16	24	25	1.96
4002695--4003079	49	8.1	49	85	5	533	32	18	25	24	1.97
4002695--4003079	98	4.1	94	96	2	643	32	18	25	24	1.97
4003099--4003163	33	1.9	34	96	3	123	16	18	36	27	1.93
4003168--4003581	34	12.8	33	80	12	423	30	12	35	21	1.91
4003200--4003587	160	2.4	155	85	9	532	30	12	35	21	1.91
4003168--4003585	194	2.1	192	85	10	539	31	12	34	21	1.91
4003674--4003715	21	2.0	21	90	0	66	35	14	14	35	1.86
4003938--4004159	55	3.9	55	83	6	282	27	27	20	25	1.99
4004178--4004301	55	2.2	56	88	1	178	30	25	21	22	1.99
4004253--4004564	61	5.1	61	85	2	351	24	26	19	29	1.98
4004555--4004691	42	3.2	42	78	16	145	18	27	11	42	1.85
4004724--4004836	41	2.8	40	76	11	115	19	25	13	41	1.88
4005470--4005497	13	2.2	13	100	0	56	28	14	17	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4007888--4008018	51	2.6	51	85	4	180	32	27	9	29	1.89
4007939--4008245	157	1.9	158	81	1	366	27	26	14	31	1.94
4007939--4008245	79	3.9	79	80	2	330	27	26	14	31	1.94
4010458--4010501	3	14.7	3	100	0	88	68	0	0	31	0.90
4012999--4013049	25	2.1	25	85	10	70	31	0	0	68	0.90
4014515--4014653	32	4.3	32	85	9	162	43	0	0	56	0.99
4014548--4014633	32	2.7	32	96	0	163	45	0	0	54	0.99
4014556--4014653	16	6.3	16	71	17	64	40	0	0	59	0.98
4014515--4014682	64	2.6	64	79	13	166	42	0	0	55	1.08
4015160--4015201	2	21.0	2	100	0	84	50	0	0	50	1.00
4015471--4015510	19	2.1	19	85	0	53	40	2	2	55	1.27
4018881--4018909	2	14.5	2	100	0	58	48	0	0	51	1.00
4019156--4019219	2	32.0	2	90	0	101	50	0	4	45	1.22
4019154--4019218	16	4.1	16	100	0	130	50	0	6	43	1.27
4021873--4021912	2	20.0	2	100	0	80	50	0	0	50	1.00
4022626--4022709	41	1.9	44	81	11	102	35	1	2	60	1.17
4023509--4023547	12	3.3	12	82	7	53	33	2	10	53	1.48
4025307--4025369	33	1.9	33	83	6	83	30	15	14	39	1.87
4025400--4025455	19	2.8	20	78	5	60	37	12	17	32	1.88
4033032--4033087	20	2.8	20	80	0	67	28	17	14	39	1.89
4034874--4034961	44	2.0	44	100	0	176	47	9	6	36	1.62
4038893--4038936	15	2.9	15	82	0	61	59	0	0	40	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4038962--4039000	12	3.4	11	86	10	51	69	7	0	23	1.14
4046045--4046084	20	2.0	20	85	5	53	17	2	5	75	1.10
4060617--4060661	18	2.6	17	82	6	54	46	0	2	51	1.13
4061266--4061290	2	12.5	2	100	0	50	48	0	52	0	1.00
4063031--4063090	31	1.9	31	86	6	86	33	6	23	36	1.81
4064068--4064103	2	18.0	2	100	0	72	50	0	0	50	1.00
4065993--4066087	33	2.8	33	76	12	95	40	1	2	56	1.18
4067621--4067716	41	2.3	40	84	5	120	37	10	6	45	1.64
4067897--4067939	19	2.3	19	84	8	52	11	13	4	69	1.33
4071867--4071910	15	2.9	15	77	16	54	40	29	11	18	1.85
4072173--4072213	17	2.5	16	88	7	64	46	2	12	39	1.54
4074417--4074460	21	2.1	21	86	0	61	36	20	13	29	1.91
4074491--4074544	20	2.7	21	91	8	94	25	16	12	44	1.84
4074526--4074555	13	2.3	13	100	0	60	30	16	13	40	1.87
4074571--4074625	20	2.8	20	88	5	76	25	14	16	43	1.86
4074608--4074638	13	2.4	13	88	0	53	29	12	16	41	1.85
4076960--4077293	79	4.2	78	77	4	323	27	25	14	32	1.95
4076957--4077293	157	2.1	158	80	5	380	27	25	14	32	1.95
4078351--4078415	33	2.0	33	85	11	89	33	13	18	33	1.90
4079135--4079307	86	2.0	86	93	0	292	28	21	21	27	1.99
4080083--4080113	3	10.3	3	92	0	53	35	0	35	29	1.58
4088664--4088694	2	15.5	2	100	0	62	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4089755--4089779	2	12.5	2	100	0	50	48	0	0	52	1.00
4094854--4094935	30	2.7	30	77	3	85	37	4	4	52	1.44
4094854--4094906	20	2.7	20	79	5	63	37	3	3	54	1.36
4095731--4095770	19	2.0	20	90	4	64	32	2	0	65	1.06
4107255--4107308	20	2.6	21	82	2	65	46	11	11	31	1.74
4111125--4111248	22	5.7	21	83	4	122	35	8	8	47	1.64
4111125--4111240	43	2.7	44	80	2	135	35	8	9	46	1.67
4111124--4111245	65	1.9	65	87	3	183	35	8	9	47	1.65
4112801--4112858	28	2.0	28	83	6	71	31	6	27	34	1.83
4112771--4112992	79	2.8	79	78	1	248	29	13	27	29	1.94
4112923--4113042	51	2.4	51	81	0	159	30	12	26	30	1.93
4112982--4113257	108	2.6	108	78	7	285	32	13	25	28	1.94
4113136--4113200	28	2.3	28	89	5	96	27	13	32	26	1.94
4113193--4113336	51	2.8	51	78	4	173	34	11	22	31	1.89
4115637--4115743	20	5.7	20	75	18	88	43	14	14	27	1.84
4115661--4115726	33	2.0	33	96	0	123	43	15	15	25	1.85
4115759--4115788	13	2.3	13	94	0	51	43	13	13	30	1.82
4115770--4115826	20	2.8	20	91	0	96	45	15	14	24	1.83
4117185--4117236	22	2.4	23	84	12	67	25	9	26	38	1.86
4117254--4117452	22	9.1	22	68	8	102	34	10	14	41	1.79
4118621--4118674	26	2.1	26	92	0	90	29	14	5	50	1.66
4119163--4119289	67	1.9	67	83	3	166	39	25	8	25	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4123434--4123488	20	2.8	20	91	0	92	41	12	14	30	1.83
4124065--4124253	61	3.1	61	83	2	236	29	19	28	23	1.98
4124292--4124704	55	7.4	55	85	5	515	25	21	25	27	1.99
4124486--4124571	27	3.1	27	62	15	68	29	20	23	26	1.99
4124722--4124962	55	4.4	55	91	0	383	22	21	26	29	1.99
4124573--4124855	149	1.9	149	93	0	485	24	19	27	28	1.99
4124530--4124913	204	1.9	205	92	0	644	25	18	27	28	1.98
4124451--4125009	259	2.2	259	92	0	922	25	19	28	27	1.99
4124936--4125014	39	2.2	36	77	20	85	27	13	35	22	1.93
4125982--4126060	1	79.0	1	76	0	68	3	1	7	87	0.71

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