genome.fa.s5.2.7.7.80.10.50.1000.2.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: Scaffold5
Parameters: 2 7 7 80 10 50 1000
Length:  1536239

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  2  of  14  ( 1571 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)
198519--198567	15	3.5	15	78	18	52	36	0	0	63	0.95
200645--200789	78	1.9	78	85	2	202	42	16	15	26	1.87
201131--201182	20	2.7	20	82	11	65	46	1	0	51	1.12
201292--201336	20	2.2	20	88	7	65	75	0	0	24	0.80
202421--202484	34	2.0	34	82	11	82	42	3	6	48	1.44
202633--202710	2	39.0	2	94	0	111	43	0	6	50	1.28
202634--202710	20	3.8	20	92	0	127	42	0	6	50	1.28
203034--203104	23	3.0	23	78	13	74	54	0	1	43	1.08
204681--204785	11	9.1	11	71	25	67	38	1	1	58	1.20
204677--204785	26	4.1	27	70	22	79	37	1	1	58	1.19
204681--204785	5	20.2	5	70	17	63	38	1	1	58	1.20
205069--205146	17	4.5	15	73	25	57	52	1	1	44	1.17
205076--205141	19	3.7	18	75	19	66	53	1	1	43	1.19
205065--205146	35	2.3	35	89	6	121	52	1	1	45	1.16
205149--205193	20	2.3	19	85	11	56	33	0	0	66	0.92
206726--206787	24	2.7	22	78	14	63	32	1	0	66	1.02
206938--207000	18	3.6	17	77	10	65	44	0	0	55	0.99
206954--206996	21	2.0	22	82	13	54	41	0	0	58	0.98
206934--207052	22	5.7	21	68	23	65	41	0	0	57	1.04
210640--210664	13	1.9	13	100	0	50	36	16	8	40	1.77
214227--214268	14	2.8	15	78	10	50	50	0	0	50	1.00
214229--214277	22	2.3	21	82	3	53	42	0	0	57	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
214852--214880	6	4.8	6	100	0	58	34	17	0	48	1.47
214852--214888	18	2.1	18	89	0	56	29	16	2	51	1.58
215391--215422	3	10.7	3	100	0	64	34	0	0	65	0.93
216177--216235	13	4.5	13	75	16	50	35	6	0	57	1.25
216198--216333	13	9.4	14	66	21	52	36	2	0	61	1.08
216256--216306	18	2.9	18	77	8	52	39	0	0	60	0.97
224227--224281	21	2.6	22	73	26	57	58	0	0	41	0.98
224233--224303	17	4.0	18	72	15	58	59	4	0	36	1.17
226607--226698	40	2.3	39	83	14	109	54	1	1	43	1.14
226983--227024	2	21.0	2	95	0	75	47	0	2	50	1.14
228246--228283	20	1.9	20	88	0	58	36	0	0	63	0.95
228524--228566	13	3.0	15	83	13	63	58	0	0	41	0.98
229902--229962	24	2.4	27	78	13	76	55	1	0	42	1.09
229968--230041	21	3.9	20	75	16	61	51	2	0	45	1.15
241191--241238	2	25.0	2	81	8	55	54	0	2	43	1.12
241191--241238	23	2.1	23	88	0	69	54	0	2	43	1.12
241341--241368	2	14.0	2	100	0	56	50	0	0	50	1.00
241379--241411	13	2.6	13	90	4	50	66	0	0	33	0.92
241697--241779	14	6.1	14	80	5	98	28	0	19	51	1.47
241691--241784	18	5.2	18	93	0	161	29	0	18	52	1.46
241679--241784	36	2.9	36	94	0	176	32	0	16	51	1.44
241697--241783	4	23.8	4	79	17	100	28	0	19	51	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
246460--246505	20	2.4	19	79	17	58	80	10	0	8	0.91
247342--247372	15	2.0	16	93	6	55	58	6	16	19	1.59
252166--252221	12	4.7	12	77	4	60	53	0	0	46	1.00
252162--252221	24	2.5	25	81	8	79	51	0	0	48	1.00
253780--253809	2	15.0	2	92	0	51	46	3	0	50	1.18
255774--255814	2	20.5	2	84	0	55	51	2	0	46	1.14
257704--257751	17	2.9	17	84	3	53	50	0	0	50	1.00
258039--258090	26	2.0	27	85	7	72	57	0	0	42	0.98
263701--263865	80	2.1	80	92	0	276	30	12	15	40	1.85
269766--269799	17	2.0	17	88	0	50	76	5	5	11	1.14
269968--270020	26	2.0	26	82	13	65	37	5	1	54	1.35
269936--270624	340	2.0	343	94	2	1199	32	19	18	29	1.96
271516--271562	11	4.5	11	80	17	55	61	0	0	38	0.96
271615--271647	16	2.1	17	88	11	52	57	0	6	36	1.23
272185--272238	24	2.2	25	81	15	69	51	1	0	46	1.11
272232--272278	22	2.0	24	84	8	62	42	2	0	55	1.12
275746--275795	2	25.0	2	100	0	100	50	0	0	50	1.00
276307--276347	19	2.2	19	95	0	73	56	0	4	39	1.21
277104--277139	2	18.0	2	100	0	72	50	0	0	50	1.00
277250--277280	16	1.9	16	100	0	62	32	0	41	25	1.56
282551--282587	13	2.6	15	83	16	60	45	5	0	48	1.25
284863--284891	13	2.2	13	100	0	58	44	13	17	24	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
286587--286624	14	2.8	14	80	4	51	55	0	0	44	0.99
292943--292987	15	3.2	15	78	15	51	48	0	0	51	1.00
293002--293097	28	3.4	28	76	15	72	44	1	1	53	1.14
293035--293103	28	2.5	28	83	4	77	46	1	1	50	1.19
293211--293260	25	2.0	25	84	0	64	64	0	0	36	0.94
293511--293569	14	4.5	14	71	16	54	61	0	0	38	0.96
293558--293623	19	3.7	19	72	25	56	42	0	0	57	0.98
294539--294603	14	4.6	14	80	1	76	58	4	0	36	1.19
294537--294591	28	2.0	28	96	0	101	61	5	0	32	1.19
294573--294631	16	3.7	16	80	12	68	55	1	0	42	1.09
294628--294676	22	2.3	21	78	3	53	46	6	2	44	1.39
296488--296537	16	3.1	16	73	21	50	38	0	4	58	1.17
296526--296574	11	4.7	11	78	14	59	30	0	0	69	0.89
296528--296569	19	2.4	17	82	17	59	30	0	0	69	0.89
296523--296569	18	2.7	19	84	15	66	31	0	0	68	0.90
296529--296579	16	3.3	15	73	13	50	33	1	0	64	1.05
298087--298147	25	2.3	26	75	10	63	45	4	4	44	1.46
298243--298322	38	2.1	38	88	0	115	40	10	6	43	1.63
307545--307572	2	14.0	2	100	0	56	50	0	0	50	1.00
308501--308536	12	3.1	12	88	8	56	52	0	0	47	1.00
309817--309846	13	2.2	14	94	5	53	33	0	0	66	0.92
309925--309963	18	2.1	19	85	4	53	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
310215--310264	22	2.2	22	82	3	64	32	0	2	66	1.03
310343--310393	5	11.4	5	76	19	51	41	0	0	58	0.98
310347--310391	22	2.2	20	92	8	72	40	0	0	60	0.97
310343--310394	13	4.0	13	78	14	54	42	0	0	57	0.98
310305--310395	29	3.0	29	70	23	71	42	1	1	54	1.14
310788--310819	10	3.2	10	90	0	55	46	0	0	53	1.00
310788--310853	19	3.5	20	80	15	70	48	0	0	51	1.00
310788--310853	20	3.5	17	80	15	69	48	0	0	51	1.00
310804--310882	37	2.1	37	84	13	101	53	0	0	46	1.00
316959--317103	69	2.1	69	94	0	254	29	14	14	41	1.85
321064--321100	14	2.5	15	86	8	58	62	0	0	37	0.96
321182--321236	8	6.4	9	73	12	53	50	1	1	45	1.22
321302--321330	10	2.9	10	100	0	58	62	0	0	37	0.96
321523--321552	2	15.0	2	100	0	60	50	0	0	50	1.00
321880--321919	2	20.0	2	100	0	80	50	0	0	50	1.00
322856--322898	2	22.0	2	95	4	79	51	0	0	48	1.00
323442--323474	2	16.5	2	100	0	66	48	0	0	51	1.00
324151--324185	17	2.1	17	88	0	52	42	0	0	57	0.99
324541--324571	15	2.0	16	93	6	55	70	0	0	29	0.87
328590--328625	2	18.0	2	100	0	72	50	0	0	50	1.00
330456--330509	24	2.6	21	77	22	60	38	0	0	61	0.96
331155--331217	28	2.2	28	85	2	81	66	0	3	30	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
331168--331206	10	3.9	10	83	9	53	69	0	2	28	1.02
331582--331626	19	2.4	19	88	0	63	37	4	6	51	1.49
331622--331660	20	2.0	20	84	0	51	43	0	2	53	1.14
332990--333024	18	1.9	18	100	0	70	40	20	11	28	1.87
333823--333860	19	2.0	20	84	5	51	31	13	2	52	1.54
335247--335299	21	2.6	21	85	11	74	39	0	0	60	0.97
335430--335505	28	2.7	28	83	6	91	63	1	1	34	1.11
335430--335518	28	3.2	26	73	10	70	62	1	3	32	1.19
335947--335992	16	3.1	14	82	14	56	52	0	0	47	1.00
336637--337226	292	2.0	294	99	0	1166	38	12	8	40	1.74

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14