genome.fa.s18.2.7.7.80.10.50.1000.25.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: Scaffold18
Parameters: 2 7 7 80 10 50 1000
Length:  4432388

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  25  of  27  ( 3197 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)
4030153--4030203	20	2.6	20	90	3	77	31	13	17	37	1.89
4030255--4030300	13	4.0	13	69	30	50	32	13	17	36	1.88
4030232--4030300	33	2.1	33	86	5	95	34	10	15	39	1.82
4032474--4032499	13	2.0	13	100	0	52	38	15	15	30	1.88
4032456--4032519	32	2.0	33	90	3	103	42	15	14	28	1.86
4036555--4036585	15	2.1	15	93	0	53	48	16	22	12	1.80
4038666--4038703	13	2.9	13	88	0	58	31	18	18	31	1.95
4040323--4040365	23	2.0	21	81	9	50	13	9	16	60	1.58
4040515--4040656	60	2.4	60	96	1	259	37	6	24	31	1.81
4041305--4041356	19	2.7	20	87	6	79	42	15	13	28	1.85
4044432--4044456	13	1.9	13	100	0	50	36	16	16	32	1.90
4044412--4044476	33	2.0	33	85	11	89	35	15	16	32	1.91
4048829--4048855	13	2.1	13	100	0	54	29	18	14	37	1.91
4048779--4048908	63	2.1	63	88	2	190	26	14	18	40	1.89
4051303--4051419	51	2.3	51	83	2	146	29	23	11	34	1.91
4051227--4051500	130	2.1	129	83	0	341	28	25	12	32	1.93
4057443--4057539	36	2.9	33	83	8	119	28	24	13	32	1.93
4057970--4058015	20	2.3	20	92	0	74	34	17	13	34	1.88
4058044--4058107	33	2.0	32	87	3	92	39	15	15	29	1.89
4058096--4058134	20	1.9	21	94	5	71	25	15	23	35	1.94
4058559--4058601	22	2.0	22	85	0	59	16	11	27	44	1.82
4058592--4059087	50	9.9	50	71	7	263	25	20	18	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4058754--4058885	51	2.6	50	79	4	131	26	20	18	34	1.95
4058622--4058981	101	3.6	100	73	10	259	25	20	17	36	1.94
4059129--4059270	52	2.8	52	72	1	133	28	14	17	39	1.89
4064066--4064143	20	3.9	20	76	6	77	39	10	15	34	1.81
4064017--4064192	90	1.9	90	89	2	271	42	9	17	31	1.81
4068149--4068174	13	2.0	13	100	0	52	30	15	15	38	1.88
4076934--4076959	13	2.0	13	100	0	52	30	15	15	38	1.88
4086294--4086332	19	2.1	19	100	0	78	38	5	25	30	1.78
4087699--4087750	20	2.7	19	78	3	59	34	17	11	36	1.86
4087806--4087845	21	1.9	21	94	0	71	37	15	15	32	1.88
4088780--4088879	28	3.6	28	84	0	92	44	13	15	28	1.83
4097116--4097141	13	2.0	13	100	0	52	38	15	15	30	1.88
4099669--4099776	52	2.1	52	85	0	144	35	15	13	35	1.88
4100475--4100514	21	1.9	21	100	0	80	30	30	0	40	1.57
4110031--4110055	4	6.2	4	100	0	50	76	0	0	24	0.80
4112089--4112370	79	3.6	79	83	2	343	31	16	26	25	1.96
4112325--4112398	28	2.6	28	91	0	112	22	21	32	22	1.98
4112246--4112473	103	2.2	105	86	3	307	29	16	27	25	1.97
4112167--4112515	182	1.9	184	84	4	472	32	15	26	26	1.95
4114893--4114931	13	3.0	13	100	0	78	38	15	15	30	1.88
4114963--4115048	19	4.8	18	72	23	74	33	17	11	37	1.86
4114955--4115028	32	2.3	32	93	4	123	33	18	10	36	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4116350--4116422	33	2.2	33	82	4	85	31	20	26	21	1.98
4116360--4116426	33	2.0	33	88	5	100	29	19	28	22	1.98
4120159--4120184	13	2.0	13	100	0	52	38	15	15	30	1.88
4120141--4120204	33	2.0	33	87	3	94	43	14	14	28	1.83
4125691--4125739	20	2.4	20	83	10	64	30	18	10	40	1.84
4129568--4130046	79	6.1	79	75	6	292	28	22	12	37	1.90
4133892--4133946	15	3.5	15	73	24	51	38	0	0	61	0.96
4135488--4135727	119	2.0	118	91	2	392	27	20	19	33	1.96
4137610--4137647	16	2.3	17	86	4	51	5	0	5	89	0.59
4137608--4137647	17	2.4	17	83	8	55	7	0	5	87	0.66
4140406--4140461	18	3.1	18	87	5	69	41	8	8	41	1.68
4140406--4140461	17	3.2	17	85	10	60	41	8	8	41	1.68
4140423--4140476	17	3.2	16	82	12	56	38	7	7	46	1.60
4145307--4145371	17	3.8	17	78	11	71	33	7	13	44	1.73
4145360--4145395	18	2.0	18	94	0	63	33	30	5	30	1.81
4146447--4146666	111	2.0	111	99	0	431	33	11	23	31	1.91
4148820--4148866	17	2.8	18	78	12	55	55	4	0	40	1.19
4153944--4154186	28	8.7	28	71	4	105	30	30	18	20	1.97
4154526--4154576	17	2.9	17	72	13	50	74	9	1	13	1.15
4155329--4155414	35	2.5	34	85	9	113	40	19	26	12	1.88
4155757--4155811	25	2.3	23	78	9	58	60	18	18	3	1.51
4157101--4157329	69	3.3	69	89	1	343	27	19	13	40	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4157101--4157344	137	1.8	137	85	4	343	29	18	12	39	1.87
4163466--4163499	14	2.3	15	90	5	52	85	8	0	5	0.75
4163452--4163500	26	1.9	25	87	4	71	83	10	2	4	0.85
4164592--4164712	52	2.3	52	84	1	154	29	14	28	27	1.96
4164644--4164791	79	1.9	80	86	1	217	31	13	27	27	1.94
4164723--4164842	51	2.4	51	88	0	168	32	13	26	27	1.94
4164555--4164902	131	2.7	131	85	2	466	35	12	24	27	1.92
4167208--4167277	20	3.5	20	90	3	106	45	15	11	27	1.80
4168031--4168173	42	3.2	43	77	12	130	37	15	25	20	1.92
4168057--4168173	42	2.6	46	83	11	138	40	14	25	19	1.90
4168195--4168569	55	6.5	54	81	7	336	28	19	25	26	1.99
4168257--4168549	61	4.9	62	81	7	345	29	18	25	26	1.98
4168592--4168894	55	5.4	55	86	5	378	25	19	27	27	1.99
4168381--4168782	210	1.9	211	87	3	587	27	19	26	26	1.99
4168320--4168834	265	1.9	269	86	5	729	27	19	26	26	1.99
4168259--4168991	320	2.2	326	84	5	955	27	18	27	26	1.98
4169980--4170026	8	5.6	8	79	18	51	0	4	10	85	0.74
4182486--4182606	52	2.3	52	84	1	145	30	13	27	28	1.94
4182539--4182684	78	1.9	79	83	1	195	31	13	26	28	1.94
4182412--4182796	130	3.0	131	83	4	442	34	12	24	28	1.92
4185137--4185242	20	4.8	20	73	22	88	40	16	16	27	1.89
4185177--4185270	30	3.5	29	70	27	89	40	17	17	25	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4185154--4185290	50	2.7	50	95	0	247	43	16	15	24	1.87
4186806--4187377	27	18.8	32	73	17	249	21	29	12	36	1.91
4186834--4187265	27	14.9	27	77	15	327	21	30	13	34	1.92
4187070--4187412	61	5.6	59	70	16	207	21	28	11	38	1.89
4187549--4187860	32	9.8	32	80	6	339	29	29	18	22	1.97
4187540--4187860	64	5.0	63	82	5	376	29	30	17	22	1.97
4187540--4187860	127	2.5	129	86	4	436	29	30	17	22	1.97
4187866--4188273	52	7.9	52	77	5	285	26	23	14	34	1.94
4187866--4188333	104	4.5	102	75	7	334	25	24	14	35	1.94
4188162--4188429	113	2.4	113	86	2	360	23	24	16	35	1.95
4192454--4192522	22	3.2	21	79	10	77	72	7	10	10	1.28
4193700--4194340	29	22.2	28	78	8	583	29	29	16	25	1.97
4193700--4194340	57	11.1	56	78	9	558	29	29	16	25	1.97
4194827--4194901	20	3.8	20	81	0	96	32	14	13	40	1.85
4197109--4197341	98	2.4	97	84	4	317	28	29	11	30	1.91
4198241--4198600	29	12.1	28	74	11	220	30	31	16	22	1.95
4198253--4198463	61	3.6	61	82	6	240	29	30	16	23	1.96
4198463--4198600	62	2.2	63	83	8	176	30	32	15	21	1.94
4198464--4198600	31	4.4	31	80	9	136	30	32	16	21	1.95
4198647--4198751	52	2.0	52	86	0	147	26	21	13	38	1.91
4198721--4198924	60	3.4	61	71	11	177	25	23	11	38	1.89
4199117--4199218	42	2.4	42	83	8	143	13	29	13	43	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4199824--4199881	27	2.1	28	84	9	75	68	10	1	18	1.26
4199863--4199901	20	2.0	20	84	0	51	74	7	0	17	1.05
4200594--4200665	34	2.1	34	81	0	81	40	16	30	12	1.86
4201290--4201552	97	2.7	97	93	0	445	28	25	11	34	1.90
4201502--4201656	69	2.2	69	94	0	265	29	21	10	38	1.87
4202490--4202552	28	2.2	28	88	0	90	36	31	12	19	1.89
4202577--4202696	28	4.3	28	68	3	80	36	25	15	21	1.93
4204589--4204631	4	10.5	4	85	5	59	27	0	2	69	1.00
4204629--4204678	25	2.0	25	88	3	75	54	0	0	46	1.00
4209101--4209155	20	2.8	20	83	8	67	25	18	14	41	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