genome.fa.s160.2.7.7.80.10.50.1000.24.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: 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  24  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)
3969250--3969307	20	2.8	21	81	5	82	37	1	27	32	1.67
3970058--3970108	19	2.6	20	90	6	86	41	9	19	29	1.84
3974152--3974313	47	3.4	47	92	3	270	41	6	1	49	1.40
3974239--3974264	2	13.0	2	100	0	52	50	0	0	50	1.00
3974152--3974313	49	3.4	49	93	5	278	41	6	1	49	1.40
3974561--3974704	76	1.9	75	88	1	216	43	9	17	29	1.81
3976869--3976909	21	2.0	21	85	9	57	36	7	4	51	1.51
3977852--3977890	18	2.2	18	86	9	53	48	2	2	46	1.29
3978025--3978071	24	2.0	23	88	8	69	53	2	0	44	1.12
3979780--3979843	33	1.9	33	87	0	92	32	15	14	37	1.87
3982480--3982517	20	1.9	20	88	0	58	36	18	5	39	1.73
3988628--3988657	13	2.3	13	94	0	51	33	13	16	36	1.88
3988608--3988672	33	2.0	33	88	11	98	32	20	13	33	1.91
3990809--3990860	22	2.3	23	83	9	63	26	3	3	65	1.27
3990800--3990860	23	2.7	22	80	10	70	29	3	3	63	1.26
3992638--3992732	33	2.9	33	96	1	174	50	9	25	14	1.73
3993479--3993540	20	2.9	20	77	18	63	40	1	1	56	1.19
3993509--3993588	40	2.0	40	83	9	101	48	0	0	51	1.00
3993516--3993598	39	2.1	39	80	8	89	48	1	0	50	1.08
3993850--3993912	20	3.2	20	75	8	58	61	3	0	34	1.12
3994525--3994587	11	5.5	11	83	9	65	61	0	0	38	0.96
3994525--3994597	22	3.1	22	80	11	67	60	1	0	38	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3994910--3994985	32	2.6	28	82	12	89	44	1	0	53	1.08
3994930--3994979	14	3.3	14	75	20	55	46	0	0	54	1.00
3994931--3994980	17	3.1	17	72	21	61	44	0	0	56	0.99
3994930--3994991	32	1.9	32	93	0	106	41	0	0	58	0.98
3994881--3994984	20	5.8	18	67	19	65	45	1	0	52	1.11
3997961--3998000	20	2.0	21	95	5	73	40	15	10	35	1.80
4006600--4006643	20	2.1	22	91	8	74	40	20	9	29	1.83
4009936--4011725	450	4.0	447	91	2	2858	28	15	14	41	1.87
4009936--4011725	897	2.0	894	91	2	2923	28	15	14	41	1.87
4011970--4012004	18	1.9	18	94	0	61	22	25	11	40	1.88
4012779--4012861	16	5.1	16	77	8	69	9	4	4	80	1.00
4012792--4012860	7	9.9	7	76	9	52	10	2	5	81	0.97
4012782--4012844	23	2.7	22	75	20	65	9	4	6	79	1.05
4015264--4015353	19	5.1	18	71	22	75	35	12	15	36	1.85
4015310--4015334	13	1.9	13	100	0	50	36	16	16	32	1.90
4015289--4015361	32	2.3	32	97	0	137	34	12	17	35	1.88
4015405--4015430	13	2.0	13	100	0	52	30	15	15	38	1.88
4015385--4015451	34	2.0	33	91	2	107	25	16	13	44	1.84
4017829--4018152	51	6.3	51	84	5	332	29	26	10	33	1.90
4018140--4018372	80	2.9	78	75	8	227	25	27	13	32	1.94
4021687--4021723	17	2.2	17	100	0	74	64	5	5	24	1.36
4023353--4023406	24	2.3	24	96	3	101	61	9	11	18	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4024297--4024371	20	3.8	19	78	7	87	41	12	13	33	1.81
4024294--4024371	40	2.0	39	89	2	120	41	12	12	33	1.82
4024983--4027084	86	24.5	85	87	5	2875	21	17	32	28	1.96
4025015--4027085	29	72.5	29	89	4	2931	21	17	32	27	1.96
4028325--4028363	8	5.0	8	84	6	53	0	2	12	84	0.72
4028322--4028366	23	2.0	23	90	0	72	0	2	15	82	0.77
4033919--4034119	78	2.6	78	82	3	215	29	16	29	24	1.97
4034079--4034152	28	2.6	28	87	8	98	24	17	32	25	1.97
4034136--4034472	52	6.4	51	72	13	236	30	13	27	29	1.94
4034025--4034477	212	2.1	212	89	2	678	30	13	28	27	1.94
4034288--4034362	27	2.7	27	87	2	96	21	22	34	21	1.97
4033998--4034414	107	3.9	106	74	7	378	29	14	28	27	1.96
4037056--4037104	23	2.3	20	78	18	62	63	8	10	18	1.50
4037061--4037113	23	2.3	23	100	0	106	60	9	11	18	1.57
4038024--4038098	20	3.8	19	78	7	87	41	12	13	33	1.81
4038021--4038098	40	2.0	39	89	2	120	41	12	12	33	1.82
4038712--4039931	28	42.6	29	87	5	1564	21	18	32	27	1.97
4038712--4039931	86	14.2	86	86	5	1605	21	18	32	27	1.97
4040611--4040932	51	6.2	51	85	5	337	29	26	10	32	1.90
4044469--4044505	17	2.2	17	100	0	74	64	5	5	24	1.36
4046131--4046179	23	2.3	20	78	18	62	63	8	10	18	1.50
4046136--4046188	23	2.3	23	100	0	106	60	9	11	18	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4047099--4047173	20	3.8	19	78	7	87	41	12	13	33	1.81
4047096--4047173	40	2.0	39	89	2	120	41	12	12	33	1.82
4047785--4049004	28	42.6	29	87	5	1564	21	18	32	27	1.96
4047785--4049004	86	14.2	86	86	5	1605	21	18	32	27	1.96
4049684--4050007	51	6.3	51	84	5	341	29	27	10	32	1.90
4049995--4050226	79	2.9	78	75	9	227	25	28	13	31	1.94
4053541--4053577	17	2.2	17	100	0	74	64	5	5	24	1.36
4055200--4055248	23	2.3	20	78	18	62	63	8	10	18	1.50
4055205--4055257	23	2.3	23	100	0	106	60	9	11	18	1.57
4056168--4056242	20	3.8	19	78	7	87	41	12	13	33	1.81
4056165--4056242	40	2.0	39	89	2	120	41	12	12	33	1.82
4059911--4060926	55	17.9	55	83	8	1122	27	27	20	24	1.99
4060589--4060687	33	3.2	33	61	19	84	22	22	18	37	1.94
4059915--4060925	287	3.6	281	86	7	1348	27	27	20	24	1.99
4059875--4060927	342	3.1	339	88	5	1514	27	27	20	25	1.99
4061895--4061971	21	3.7	21	85	3	102	35	11	16	36	1.86
4062028--4062054	13	2.1	13	100	0	54	40	14	14	29	1.86
4062105--4062171	34	2.0	33	88	2	98	25	14	13	46	1.82
4064555--4064878	51	6.3	51	80	5	310	31	25	10	33	1.89
4068009--4068034	13	2.0	13	100	0	52	30	15	15	38	1.88
4070411--4070457	21	2.3	20	76	23	53	40	4	21	34	1.73
4070578--4070654	20	3.6	20	77	16	73	42	15	15	25	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4072670--4072700	15	2.1	15	93	0	53	12	22	16	48	1.80
4074504--4074548	21	2.1	21	84	8	56	22	20	4	53	1.63
4076768--4076793	13	2.0	13	100	0	52	30	15	15	38	1.88
4086475--4086528	22	2.4	23	93	6	101	0	11	25	62	1.28
4087725--4087775	3	18.0	3	80	11	63	31	3	0	64	1.11
4087725--4087779	14	4.0	14	79	9	60	29	3	0	67	1.08
4087725--4087775	17	3.0	17	88	0	75	31	3	0	64	1.11
4088317--4089368	84	12.5	84	75	6	644	34	17	28	19	1.94
4088315--4089349	42	24.6	43	73	5	567	34	17	28	19	1.94
4089520--4089616	44	2.4	40	83	13	110	39	12	24	23	1.89
4092998--4093249	82	3.2	80	78	12	254	29	32	20	17	1.95
4093069--4093227	72	2.2	72	86	1	219	28	32	22	16	1.95
4103419--4103616	82	2.4	82	83	2	245	28	35	20	15	1.93
4103459--4103666	82	2.5	82	81	6	233	29	36	19	14	1.92
4109115--4109141	13	2.1	13	100	0	54	40	14	14	29	1.86
4111477--4111516	22	1.9	19	85	14	53	50	0	20	30	1.49
4111646--4111670	13	1.9	13	100	0	50	32	16	16	36	1.90
4115757--4115784	13	2.2	13	100	0	56	39	17	14	28	1.89
4115738--4115804	33	2.0	33	85	5	91	41	14	14	28	1.86
4116605--4117168	52	11.4	49	79	7	439	31	17	26	25	1.97
4116681--4117168	98	4.9	99	79	7	496	30	17	26	25	1.97
4116637--4117176	150	3.7	148	80	7	550	31	17	26	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4117076--4117163	43	2.0	43	95	0	158	29	19	25	26	1.98
4117185--4117334	28	5.4	28	83	7	173	15	18	32	34	1.92
4117211--4117334	55	2.2	55	88	4	178	14	19	31	34	1.92
4118797--4118875	9	8.4	9	74	16	63	0	6	10	83	0.80
4118807--4118875	15	4.4	16	71	10	63	0	7	8	84	0.79
4124828--4124878	21	2.6	18	77	19	57	33	19	9	37	1.85
4130457--4130554	19	5.8	19	71	26	103	43	15	11	29	1.81
4130476--4130568	13	8.2	13	69	29	79	41	15	12	30	1.84
4130455--4130567	32	3.5	32	97	0	217	43	15	11	29	1.82
4135071--4135126	20	2.8	19	89	5	76	39	14	16	30	1.88

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