genome.fa.s71.2.7.7.80.10.50.1000.24.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: Scaffold71
Parameters: 2 7 7 80 10 50 1000
Length:  5741892

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   
          33   

This is table  24  of  33  ( 3929 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)
3832511--3832541	16	1.9	16	93	0	53	0	19	0	80	0.71
3836225--3836249	12	2.1	12	100	0	50	40	0	0	60	0.97
3836375--3836433	25	2.4	25	83	11	68	57	0	1	40	1.09
3845916--3846323	204	2.0	204	99	0	798	23	20	18	37	1.94
3850634--3850681	2	24.0	2	95	0	87	50	2	0	47	1.12
3850884--3851566	353	1.9	354	98	0	1323	20	16	15	46	1.83
3855136--3855467	166	2.0	166	100	0	664	19	18	19	42	1.90
3856933--3856957	7	3.6	7	100	0	50	44	0	0	56	0.99
3858108--3858172	34	1.9	34	90	0	103	40	6	20	33	1.77
3870792--3870873	39	2.1	39	79	2	94	17	24	10	47	1.79
3879808--3879844	14	2.6	14	91	4	56	51	5	5	37	1.48
3881126--3881165	21	1.9	21	90	10	64	60	0	0	40	0.97
3881492--3881534	22	2.0	21	81	4	50	32	4	0	62	1.15
3898279--3898322	21	2.1	21	86	0	61	34	13	27	25	1.93
3899163--3899200	2	19.0	2	94	0	67	50	2	0	47	1.15
3902055--3902088	2	17.0	2	100	0	68	50	0	0	50	1.00
3905783--3905811	2	14.5	2	100	0	58	0	48	0	51	1.00
3907685--3907734	24	2.1	24	100	0	100	20	24	22	34	1.97
3919926--3919969	21	2.1	21	91	8	72	54	4	0	40	1.21
3923027--3923059	12	2.8	12	90	4	50	69	6	0	24	1.10
3923356--3923399	23	2.0	22	81	4	52	52	6	20	20	1.69
3925465--3925492	2	14.0	2	100	0	56	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)
3926322--3926379	24	2.4	24	91	0	89	24	6	36	32	1.82
3931291--3931348	23	2.5	23	88	0	80	3	15	5	75	1.11
3933243--3933281	2	20.0	2	94	5	71	48	0	0	51	1.00
3937575--3938478	469	1.9	469	96	0	1655	26	14	18	40	1.89
3939410--3939524	57	2.0	57	100	0	230	26	12	20	40	1.88
3941686--3941726	2	21.0	2	92	5	66	53	0	0	46	1.00
3947317--3947347	2	15.5	2	100	0	62	0	48	0	51	1.00
3950644--3951125	240	2.0	240	100	0	964	26	13	18	41	1.87
3961475--3961594	59	2.0	59	95	0	213	26	25	12	35	1.91
3961847--3961874	14	2.0	14	100	0	56	42	14	14	28	1.84
3966327--3966406	27	2.9	27	86	3	115	33	3	11	51	1.56
3966383--3966506	60	2.1	60	87	6	180	33	10	10	45	1.73
3968470--3968511	21	2.0	21	86	9	59	52	0	0	47	1.00
3969197--3969222	13	2.0	13	100	0	52	38	0	30	30	1.58
3970272--3970317	14	3.4	14	74	14	51	58	0	0	41	0.98
3971199--3971262	32	2.0	33	84	3	85	54	3	1	40	1.25
3972370--3972399	7	4.4	7	91	8	53	40	0	0	60	0.97
3972370--3972399	13	2.2	14	94	5	53	40	0	0	60	0.97
3972842--3972881	18	2.2	18	86	0	53	40	2	5	52	1.37
3977057--3977103	11	4.2	12	79	20	50	61	0	0	38	0.96
3977061--3977160	19	5.3	19	75	18	77	58	1	2	39	1.16
3977069--3977150	26	3.1	26	74	11	85	58	1	1	39	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3984564--3984610	25	1.9	24	83	12	60	61	6	0	31	1.21
3985220--3985262	22	2.0	21	86	4	59	41	2	0	55	1.12
3988382--3988407	2	13.0	2	100	0	52	50	0	0	50	1.00
3989270--3989328	21	2.9	21	76	19	61	61	0	0	38	0.96
3990627--3990651	4	6.2	4	100	0	50	76	0	24	0	0.80
3991994--3992055	31	2.0	31	100	0	124	41	12	16	29	1.85
3995185--3995226	21	2.0	20	86	4	57	54	0	0	45	0.99
3996728--3996774	21	2.1	23	84	7	62	48	4	0	46	1.21
3997730--3997780	24	2.1	25	85	10	70	52	0	0	47	1.00
3998162--3998227	26	2.7	25	75	11	66	48	1	0	50	1.10
3998259--3998298	19	2.2	19	86	8	57	45	7	0	47	1.31
4003987--4004027	2	21.0	2	95	5	75	51	0	0	48	1.00
4004851--4004888	2	19.0	2	100	0	76	50	0	0	50	1.00
4009438--4009654	34	6.4	34	83	2	258	25	7	25	41	1.81
4009438--4009654	102	2.1	101	89	3	337	25	7	25	41	1.81
4014063--4014279	34	6.4	34	83	1	258	26	7	24	41	1.82
4014063--4014279	102	2.1	101	87	0	317	26	7	24	41	1.82
4015199--4015249	25	2.0	24	85	11	66	62	1	0	35	1.06
4016255--4016298	15	2.7	17	86	10	65	22	4	0	72	1.02
4022145--4022220	32	2.4	32	97	0	143	27	21	19	31	1.97
4022977--4023031	29	1.9	29	85	3	76	49	1	5	43	1.36
4027485--4027534	17	2.9	17	77	16	50	32	0	2	66	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4030806--4030843	18	2.2	17	86	13	51	42	0	0	57	0.98
4038597--4038629	11	3.3	10	88	12	50	90	0	9	0	0.44
4040398--4040434	19	1.9	20	94	5	67	54	0	0	45	1.00
4040394--4040436	19	2.3	19	85	14	63	51	0	0	48	1.00
4040536--4040560	3	8.3	3	100	0	50	36	0	0	64	0.94
4041272--4041316	20	2.2	20	88	7	65	24	0	2	73	0.95
4041250--4041319	25	2.8	26	76	4	72	28	2	2	65	1.21
4042943--4042999	22	2.7	20	74	15	53	52	1	0	45	1.11
4044804--4044831	2	14.0	2	100	0	56	50	0	50	0	1.00
4055901--4055935	17	2.0	18	88	5	54	34	5	2	57	1.37
4063026--4063122	22	4.6	21	71	20	78	58	2	0	39	1.10
4063086--4063123	6	6.5	6	84	6	51	65	0	0	34	0.93
4063202--4063280	39	2.0	39	95	0	140	32	8	6	51	1.58
4063489--4063542	9	5.4	10	80	10	58	68	0	0	31	0.90
4063497--4063569	27	2.7	26	83	6	92	64	0	0	35	0.94
4063491--4063546	16	3.7	16	71	20	57	69	0	0	30	0.89
4063490--4063609	48	2.6	45	77	12	125	60	0	0	40	0.97
4063583--4063634	21	2.5	21	87	0	77	61	0	0	38	0.96
4063754--4063855	38	2.6	37	73	13	98	50	0	0	49	1.07
4063776--4063828	20	2.8	20	76	23	60	39	1	0	58	1.09
4064189--4064491	11	27.2	11	66	22	95	48	2	3	45	1.32
4064189--4064448	21	12.2	21	71	18	166	49	2	3	45	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4064292--4064380	26	3.6	26	76	11	80	48	2	2	47	1.26
4064170--4064492	33	10.1	32	68	18	142	48	2	3	45	1.32
4064346--4064446	43	2.3	45	85	11	138	53	3	0	41	1.26
4064504--4064556	10	5.5	10	73	22	51	49	1	0	49	1.12
4064476--4064542	27	2.5	27	81	16	77	44	1	2	50	1.26
4065218--4065251	18	1.9	17	88	5	50	32	32	29	5	1.81
4069621--4069656	2	18.0	2	100	0	72	50	0	0	50	1.00
4070993--4071035	24	1.9	23	86	13	63	32	2	0	65	1.06
4071322--4071393	25	2.8	25	73	18	67	47	0	0	52	1.00
4071887--4071926	21	1.9	21	89	0	62	70	0	0	30	0.88
4071882--4071996	45	2.5	45	75	18	121	54	0	0	45	0.99
4071929--4071962	13	2.5	14	85	4	52	52	0	0	47	1.00
4078159--4078219	15	4.1	15	76	19	65	37	1	0	60	1.07
4078187--4078247	26	2.3	27	85	2	79	39	0	3	57	1.15
4078290--4078326	15	2.5	15	90	0	56	45	0	0	54	1.00
4078876--4078938	33	1.9	32	87	3	90	41	0	1	57	1.08
4078933--4079010	24	3.3	23	76	7	66	41	0	1	57	1.07
4081216--4081259	2	22.0	2	100	0	88	50	0	0	50	1.00
4084856--4084933	31	2.3	33	76	17	79	56	0	0	43	0.99
4087509--4087548	20	2.0	20	90	0	62	37	2	20	40	1.66
4090426--4090495	17	3.8	17	72	20	68	48	2	8	40	1.49
4093114--4093160	23	2.0	23	83	0	58	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)
4093130--4093180	23	2.1	24	85	10	68	54	3	0	41	1.19
4095210--4095247	20	2.0	20	89	5	60	52	2	0	44	1.14
4104417--4104456	2	20.0	2	94	0	71	50	2	0	47	1.14
4106112--4106147	18	2.1	17	89	5	54	47	11	5	36	1.63
4107307--4107334	13	2.2	13	100	0	56	35	25	7	32	1.83
4107587--4107620	12	2.8	12	90	0	50	55	35	5	2	1.39
4107926--4107987	17	3.6	17	74	10	54	30	6	3	59	1.38
4109609--4109643	3	11.7	3	100	0	70	34	0	0	65	0.93
4109749--4109824	36	2.2	34	81	13	84	51	0	0	48	1.00
4109749--4109824	34	2.2	36	81	13	88	51	0	0	48	1.00

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   
          33