genome.fa.s48.2.7.7.80.10.50.1000.26.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: Scaffold48
Parameters: 2 7 7 80 10 50 1000
Length:  4619657

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  26  of  27  ( 3212 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)
4225652--4225698	17	2.5	20	74	22	57	48	0	0	51	1.00
4225937--4225992	2	28.0	2	92	0	94	46	0	3	50	1.19
4226043--4226095	23	2.2	23	83	6	70	54	0	1	43	1.11
4229909--4229951	15	2.9	15	82	0	50	11	6	4	76	1.13
4236046--4236075	14	2.1	14	100	0	60	46	20	0	33	1.51
4239156--4239595	222	2.0	221	94	0	781	34	19	17	28	1.95
4240495--4240532	20	2.0	20	89	5	60	15	2	2	78	0.97
4240837--4240874	20	1.9	20	84	10	51	10	7	7	73	1.24
4240828--4240885	29	2.0	29	83	12	75	13	6	5	74	1.20
4248408--4248459	25	2.1	25	92	0	86	23	11	13	51	1.73
4254308--4254347	21	1.9	21	84	0	53	5	25	0	70	1.08
4258864--4259017	77	2.0	77	97	0	290	27	16	24	32	1.96
4259840--4259864	3	8.3	3	100	0	50	32	0	0	68	0.90
4272272--4272304	2	16.5	2	93	0	57	51	3	0	45	1.16
4276831--4276876	21	2.2	20	88	3	65	58	8	2	30	1.40
4282806--4282877	37	1.9	38	83	13	96	54	1	0	44	1.08
4282806--4282882	34	2.1	38	81	13	92	55	1	0	42	1.07
4283584--4283615	14	2.3	14	100	0	64	43	6	15	34	1.72
4291753--4291779	2	13.5	2	100	0	54	48	0	0	51	1.00
4304659--4304692	2	17.0	2	100	0	68	50	0	0	50	1.00
4305413--4305446	3	11.3	3	100	0	68	32	35	0	32	1.58
4306128--4306161	17	2.0	17	88	0	50	58	2	0	38	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4306456--4306490	13	2.6	13	90	4	52	42	0	0	57	0.99
4307280--4307324	22	2.0	22	86	8	63	46	0	2	51	1.13
4307288--4307339	22	2.3	23	80	6	61	44	3	3	48	1.39
4307387--4307458	25	2.9	25	74	15	69	33	0	1	65	1.02
4307399--4307460	6	10.2	6	83	16	51	32	0	0	67	0.91
4307407--4307461	8	7.2	8	75	24	57	34	0	0	65	0.93
4307396--4307461	19	3.5	19	80	14	82	33	0	0	66	0.92
4307399--4307492	27	3.5	25	75	21	75	35	0	1	63	1.01
4307399--4307492	38	2.3	41	77	20	108	35	0	1	63	1.01
4307404--4307498	16	6.3	15	68	22	56	36	0	1	62	1.03
4307801--4307853	23	2.2	23	83	6	61	49	0	5	45	1.26
4307808--4307860	23	2.2	25	80	16	67	47	0	5	47	1.26
4309219--4309277	31	1.9	31	82	6	75	45	0	1	52	1.10
4309381--4309414	15	2.3	15	89	0	50	11	2	0	85	0.71
4309381--4309417	14	2.5	16	79	20	53	13	2	0	83	0.74
4309380--4309417	13	2.8	13	88	11	51	15	2	0	81	0.80
4310202--4310281	24	3.5	22	73	14	63	41	1	2	55	1.21
4310366--4310415	23	2.2	23	85	7	66	60	2	2	36	1.20
4310365--4310418	24	2.3	24	78	12	67	61	1	1	35	1.18
4314946--4314987	2	21.0	2	95	0	75	0	52	0	47	1.00
4316775--4316802	14	2.0	14	100	0	56	35	14	21	28	1.92
4320538--4320616	26	2.8	29	79	12	94	37	2	1	58	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4320680--4320713	16	2.1	16	94	0	59	41	0	0	58	0.98
4320799--4320841	21	2.0	22	86	13	63	41	0	0	58	0.98
4320801--4320848	22	2.2	21	82	10	53	47	0	0	52	1.00
4320816--4320882	28	2.2	31	79	10	77	47	0	0	52	1.00
4320844--4320894	23	2.2	24	85	3	68	45	0	0	54	0.99
4321102--4321164	24	2.6	24	74	16	60	60	1	1	36	1.16
4322130--4322199	32	2.4	29	78	17	74	57	1	0	41	1.08
4322153--4322198	15	2.9	15	80	6	56	56	2	0	41	1.11
4322144--4322196	15	3.2	16	76	13	54	62	1	0	35	1.06
4324419--4324456	2	19.0	2	88	0	58	52	0	2	44	1.14
4325440--4325511	36	2.0	36	91	0	117	40	8	26	25	1.83
4325701--4325729	2	14.5	2	100	0	58	51	0	0	48	1.00
4337072--4337112	18	2.3	18	82	0	55	48	2	0	48	1.14
4355720--4355757	2	19.5	2	94	5	69	0	50	0	50	1.00
4355883--4355907	6	4.2	6	100	0	50	36	0	48	16	1.46
4356074--4356154	40	2.0	40	100	0	162	29	4	35	29	1.78
4356847--4356878	16	2.0	16	100	0	64	43	0	0	56	0.99
4357206--4357255	22	2.2	23	89	3	75	58	0	10	32	1.31
4357939--4357963	2	12.5	2	100	0	50	0	48	0	52	1.00
4371780--4371813	13	2.6	14	90	9	54	26	0	0	73	0.83
4372313--4372338	2	13.0	2	100	0	52	50	0	0	50	1.00
4374482--4374555	37	2.0	38	94	2	132	58	2	16	22	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4382195--4382293	37	2.7	37	82	7	121	32	23	20	24	1.98
4385598--4385664	33	2.0	33	88	0	98	34	11	13	40	1.81
4385618--4385642	13	1.9	13	100	0	50	36	16	16	32	1.90
4385705--4385729	13	1.9	13	100	0	50	32	16	16	36	1.90
4385738--4385861	52	2.4	52	94	1	214	35	18	17	28	1.94
4390572--4390655	37	2.3	37	87	4	125	39	26	11	22	1.89
4393432--4393475	20	2.2	20	84	8	54	63	0	0	36	0.95
4394570--4394609	20	2.0	20	85	9	55	15	17	7	60	1.57
4400416--4400448	2	16.5	2	100	0	66	51	0	0	48	1.00
4401173--4401218	2	23.5	2	82	4	58	50	6	0	43	1.28
4404004--4404035	13	2.4	14	94	5	57	71	0	9	18	1.12
4405997--4406067	24	2.7	28	81	10	71	12	21	35	30	1.91
4406063--4406116	21	2.6	21	87	0	81	14	20	31	33	1.93
4413162--4413216	2	28.0	2	96	3	103	49	0	0	50	1.00
4413553--4413581	3	10.0	3	92	7	51	0	0	34	65	0.93
4418237--4418266	2	15.5	2	93	6	53	50	0	0	50	1.00
4420182--4420216	2	17.5	2	93	0	61	48	0	2	48	1.16
4423896--4423925	15	1.9	16	93	6	53	50	0	3	46	1.18
4425964--4426021	28	2.0	30	83	12	77	41	0	0	58	0.98
4428656--4428686	2	15.5	2	100	0	62	48	0	0	51	1.00
4429166--4429190	2	12.5	2	100	0	50	48	0	0	52	1.00
4431035--4431079	2	22.5	2	100	0	90	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4432176--4432212	2	18.5	2	88	0	56	45	0	2	51	1.15
4435416--4435452	2	18.5	2	100	0	74	48	0	51	0	1.00
4436864--4436894	14	2.1	15	94	5	55	70	0	3	25	1.02
4437050--4437091	22	1.9	22	85	9	59	73	2	2	21	1.06
4438689--4438724	3	12.0	3	87	0	54	30	0	5	63	1.17
4438828--4438853	2	13.0	2	100	0	52	50	0	0	50	1.00
4439942--4439988	23	2.0	23	100	0	94	31	8	12	46	1.72
4450313--4450349	2	18.5	2	100	0	74	48	0	0	51	1.00
4451306--4451349	2	22.0	2	100	0	88	50	0	0	50	1.00
4451430--4451455	2	13.0	2	100	0	52	50	0	0	50	1.00
4451455--4451494	2	20.0	2	100	0	80	50	0	50	0	1.00
4452208--4452233	7	3.7	7	100	0	52	30	0	0	69	0.89
4456851--4456925	20	3.8	20	76	0	87	34	13	10	41	1.79
4460702--4460781	29	2.7	29	82	1	88	53	0	2	43	1.14
4460726--4460767	13	2.9	15	79	17	52	50	0	0	50	1.00
4460705--4460759	13	3.9	14	77	15	51	47	0	1	50	1.11
4461193--4461224	15	2.1	15	94	0	55	78	0	0	21	0.76
4461194--4461232	20	1.9	20	94	5	69	76	0	0	23	0.78
4461674--4461701	2	14.0	2	100	0	56	50	0	0	50	1.00
4462309--4462334	7	3.7	7	100	0	52	26	0	30	42	1.56
4468013--4468050	20	1.9	20	88	0	58	39	23	5	31	1.77
4469635--4469670	2	18.0	2	100	0	72	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)
4475206--4475234	2	14.5	2	100	0	58	0	48	0	51	1.00
4475428--4475489	30	2.1	30	100	0	124	25	12	40	20	1.89
4485517--4485578	30	2.1	30	100	0	124	25	12	40	20	1.89
4491371--4491404	2	17.0	2	100	0	68	50	0	0	50	1.00
4493073--4493101	4	7.2	4	100	0	58	75	0	0	24	0.80
4493369--4493473	53	2.0	53	94	0	183	32	17	12	38	1.87
4497901--4498004	53	1.9	54	98	1	201	37	3	4	53	1.40
4498163--4498187	2	12.5	2	100	0	50	52	0	0	48	1.00
4498346--4498376	6	5.2	6	96	0	53	61	16	22	0	1.34
4498829--4498881	6	8.7	6	83	4	61	52	33	13	0	1.40

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