genome.fa.s125.2.7.7.80.10.50.1000.2.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: Scaffold125
Parameters: 2 7 7 80 10 50 1000
Length:  3608436

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  2  of  18  ( 2131 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)
183831--183869	17	2.3	17	90	0	60	30	2	0	66	1.05
186057--186117	3	20.3	3	93	0	104	63	0	36	0	0.94
187519--187567	19	2.6	18	81	15	55	34	0	4	61	1.15
187569--187643	32	2.4	31	89	8	109	48	0	0	52	1.00
187526--187626	16	6.2	17	68	20	65	43	0	0	55	1.06
187583--187642	23	2.6	24	76	12	63	50	0	0	50	1.00
187572--187635	16	3.9	16	76	10	67	50	0	0	50	1.00
187815--187885	29	2.5	29	74	19	69	56	0	0	43	0.99
189039--189080	21	2.0	20	86	13	59	59	0	0	40	0.97
189040--189080	22	2.0	20	90	9	64	60	0	0	39	0.96
189282--189352	25	3.0	24	80	17	69	50	0	1	47	1.09
189301--189348	25	1.9	25	87	8	71	50	0	0	50	1.00
191592--191650	5	11.8	5	76	7	57	5	35	0	59	1.20
191589--191650	25	2.5	25	89	2	90	4	33	0	61	1.17
191895--191932	17	2.2	17	86	9	51	10	7	26	55	1.61
197436--197470	18	1.9	18	100	0	70	28	8	28	34	1.87
201924--201979	15	3.7	15	77	15	62	48	3	0	48	1.19
203483--203535	16	3.3	16	71	10	54	41	0	0	58	0.98
203484--203581	32	3.2	31	83	9	105	39	1	0	59	1.04
205108--205142	18	1.9	18	88	0	52	34	5	0	60	1.21
208776--208810	2	17.5	2	100	0	70	51	0	0	48	1.00
209447--209477	2	15.5	2	100	0	62	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)
211814--211845	15	2.1	15	94	0	55	50	9	12	28	1.71
214137--214170	2	17.5	2	90	6	52	44	0	0	55	0.99
214245--214280	2	18.0	2	100	0	72	50	0	50	0	1.00
218560--218614	22	2.5	22	77	19	60	47	0	0	52	1.00
218578--218659	21	3.7	22	78	14	71	56	0	0	43	0.99
219802--219858	16	3.6	15	78	7	51	45	1	1	50	1.22
220308--220349	22	1.9	22	85	9	59	54	2	2	40	1.26
220417--220464	19	2.6	19	76	3	53	47	2	0	50	1.12
220566--220608	21	2.0	21	91	8	70	34	4	0	60	1.17
221079--221107	2	14.5	2	100	0	58	51	0	48	0	1.00
221271--221309	12	3.2	12	92	0	60	25	33	7	33	1.84
221275--221309	3	11.7	3	87	0	52	25	34	5	34	1.80
224781--224820	21	1.9	20	85	10	53	40	5	2	52	1.37
228347--228396	24	2.1	24	85	7	66	28	2	6	64	1.28
228347--228397	23	2.2	24	83	10	63	29	1	5	62	1.29
229432--229463	2	16.0	2	100	0	64	50	0	0	50	1.00
229527--229577	21	2.5	20	74	22	52	49	0	0	50	1.00
229558--229603	6	7.8	6	80	9	51	47	0	0	52	1.00
229536--229603	12	6.0	12	72	19	56	47	0	0	52	1.00
229537--229597	23	2.8	21	85	5	77	47	0	0	52	1.00
230393--230436	17	2.5	19	76	23	51	34	2	0	63	1.07
230421--230461	18	2.4	17	81	18	50	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
231736--231760	2	12.5	2	100	0	50	48	0	0	52	1.00
233852--233880	2	14.5	2	100	0	58	51	0	0	48	1.00
234119--234162	15	2.9	16	83	12	58	45	0	0	54	0.99
236434--236484	21	2.3	23	86	10	70	60	3	1	33	1.26
236518--236585	33	2.1	33	86	5	93	47	2	0	50	1.16
237797--237824	2	14.0	2	100	0	56	50	0	0	50	1.00
238364--238388	2	12.5	2	100	0	50	0	52	0	48	1.00
240232--240269	2	19.0	2	100	0	76	50	0	0	50	1.00
241467--241557	38	2.4	35	76	16	92	45	0	0	54	0.99
241482--241565	41	2.0	43	80	17	97	47	1	0	51	1.08
243059--243108	25	2.0	25	85	14	68	54	0	2	44	1.11
243067--243156	21	4.4	22	70	28	74	52	2	0	45	1.13
243102--243163	23	2.7	23	82	9	74	48	3	0	48	1.17
244127--244172	24	1.9	24	95	0	83	36	0	0	63	0.95
244127--244182	24	2.3	24	87	3	76	39	0	0	60	0.97
244187--244257	5	15.8	5	72	21	59	36	1	1	60	1.14
244187--244242	23	2.5	23	85	5	71	33	1	1	62	1.16
244210--244257	18	2.7	17	87	6	60	41	0	2	56	1.11
244227--244284	22	2.7	22	79	10	59	46	0	0	53	1.00
244682--244711	2	15.0	2	92	0	51	46	0	0	53	1.00
245220--245265	22	2.0	24	87	8	69	50	0	0	50	1.00
245200--245306	34	3.1	34	74	20	96	51	0	0	47	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
245205--245287	38	2.2	38	79	12	91	50	0	0	49	1.00
245230--245310	37	2.2	38	80	6	94	54	0	0	45	0.99
245692--245736	6	6.7	7	78	17	51	0	13	2	84	0.72
245700--245737	19	2.0	19	90	10	60	0	15	0	84	0.63
245701--245736	13	2.8	13	87	4	56	0	11	0	88	0.50
246717--246770	5	11.0	5	74	18	51	37	1	1	59	1.19
246734--246799	27	2.3	30	82	12	77	36	4	3	56	1.35
249622--249652	6	5.2	6	92	0	53	64	0	3	32	1.09
250185--250237	19	2.7	20	80	14	65	47	0	3	49	1.19
252540--252577	2	19.0	2	100	0	76	0	50	0	50	1.00
255986--256017	16	2.0	16	93	0	55	65	0	0	34	0.93
255989--256024	14	2.6	14	86	0	54	63	0	0	36	0.94
258224--258277	2	27.5	2	78	10	58	44	3	0	51	1.19
258239--258283	16	2.8	17	86	6	58	44	0	0	55	0.99
258243--258316	26	2.7	28	79	10	82	39	0	0	60	0.97
258728--258767	2	20.0	2	89	0	62	50	5	0	45	1.23
265079--265111	17	2.0	16	94	5	57	84	0	0	15	0.61
270195--270239	23	1.9	24	82	13	58	31	17	17	33	1.94
276790--276967	54	3.3	54	97	0	329	20	11	27	41	1.86
283661--283727	33	2.0	33	97	0	125	47	11	17	22	1.80
288565--288693	37	3.5	34	75	17	109	63	0	1	34	1.04
288611--288698	11	8.6	11	73	19	68	63	0	2	34	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
288629--288701	5	13.8	5	74	16	58	61	0	1	36	1.05
288634--288698	26	2.8	22	75	24	78	64	0	0	35	0.94
288585--288694	37	3.1	35	76	17	111	62	0	1	35	1.06
288933--289047	9	13.3	9	68	20	68	64	0	0	35	0.94
288950--289045	36	2.5	39	78	13	101	64	0	0	35	0.94
288994--289045	13	3.8	13	74	18	52	63	0	0	36	0.95
288937--289038	33	3.1	32	78	14	102	63	0	0	36	0.94
288934--289047	17	6.6	17	69	19	67	64	0	0	35	0.94
289285--289366	32	2.6	32	81	7	87	40	3	2	53	1.32
294182--294268	29	3.0	27	75	9	84	52	2	0	44	1.13
294851--294892	16	2.6	16	84	3	57	9	14	0	76	1.02
297829--297861	2	16.5	2	100	0	66	0	51	0	48	1.00
303263--303305	16	2.9	15	82	6	52	51	0	0	48	1.00
304347--304468	24	5.6	21	71	19	90	24	10	45	19	1.82
304340--304670	63	5.3	63	91	0	493	23	10	45	19	1.82
304720--304809	30	3.0	30	100	0	180	33	13	36	16	1.88
306843--306907	25	2.6	25	97	0	121	36	6	6	50	1.52
308988--309013	2	13.0	2	100	0	52	50	0	0	50	1.00
313612--313711	23	4.3	23	78	12	89	34	4	8	54	1.49
313614--313696	22	3.6	23	78	12	98	31	4	7	56	1.47
313905--313943	2	19.5	2	100	0	78	51	0	0	48	1.00
316683--317282	318	1.9	312	79	11	668	41	5	9	43	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
317661--317715	17	3.1	18	82	17	62	61	0	0	38	0.96
317669--317715	19	2.5	19	80	13	60	61	0	0	38	0.96
317667--317721	18	2.9	18	82	15	58	56	0	1	41	1.10
320325--320424	52	1.9	52	93	0	173	38	14	17	31	1.89
335790--335851	32	1.9	33	86	3	90	54	0	0	45	0.99
335828--335895	28	2.3	30	85	5	86	63	1	0	35	1.04
335845--335892	17	2.8	17	84	15	64	66	2	0	31	1.03
337232--337256	2	12.5	2	100	0	50	52	0	0	48	1.00
337879--337929	24	2.1	24	85	7	68	33	1	9	54	1.44
338406--338543	30	4.7	29	85	8	172	55	2	2	39	1.27

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18