genome.fa.s27.2.7.7.80.10.50.1000.2.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: Scaffold27
Parameters: 2 7 7 80 10 50 1000
Length:  2789374

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

This is table  2  of  16  ( 1898 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)
171359--171392	13	2.6	14	86	13	54	76	0	23	0	0.79
171359--171393	16	2.1	17	89	5	54	74	0	25	0	0.82
175517--175552	8	4.6	8	93	6	65	27	0	0	72	0.85
176167--176200	6	5.7	6	92	0	59	2	35	29	32	1.73
176161--176201	18	2.3	18	91	0	73	4	39	26	29	1.77
177191--177265	26	2.7	26	76	19	73	54	0	0	45	0.99
185821--185874	13	3.9	14	79	15	58	53	1	0	44	1.11
185815--185874	29	2.1	29	87	0	84	50	1	0	48	1.11
185807--185881	29	2.5	32	73	22	81	46	1	0	52	1.09
186008--186074	13	4.8	14	77	14	66	50	1	2	44	1.26
186006--186074	29	2.5	28	85	4	86	52	1	2	43	1.25
187626--187660	2	17.5	2	100	0	70	0	51	0	48	1.00
192873--192925	20	2.7	20	91	5	81	43	15	13	28	1.84
198073--198422	156	2.2	156	80	2	416	39	16	15	28	1.89
199417--199874	79	5.8	77	75	7	334	35	10	23	29	1.89
199452--199874	158	2.7	156	80	8	446	36	10	22	29	1.88
199811--199927	52	2.3	52	89	1	173	34	7	25	32	1.84
199729--200007	131	2.1	130	81	3	310	36	8	22	32	1.85
199651--200067	210	2.0	209	82	5	511	36	8	22	31	1.85
202897--203026	50	2.6	52	83	4	167	44	13	15	26	1.84
203609--203912	167	1.8	167	82	2	396	46	11	9	32	1.72
203766--204056	147	2.0	147	81	2	343	44	11	10	33	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
205547--205820	146	1.9	146	86	2	388	50	8	9	32	1.63
211336--211360	13	1.9	13	100	0	50	32	20	0	48	1.50
212982--213619	67	9.5	67	79	3	534	40	12	22	24	1.89
213022--213630	134	4.6	134	80	4	620	40	13	22	23	1.89
212979--213620	267	2.4	267	80	3	718	40	12	22	24	1.89
213619--213674	27	2.1	27	86	6	78	39	16	26	17	1.91
213666--213899	66	3.5	67	85	4	305	40	15	24	19	1.90
219355--219434	38	2.1	38	92	0	133	16	18	10	55	1.69
225358--225435	32	2.5	30	91	4	120	25	15	10	48	1.76
228803--228866	33	2.0	32	87	9	94	26	10	21	40	1.86
228897--228951	20	2.7	21	83	8	69	29	16	14	40	1.88
235027--235078	19	2.7	20	88	8	72	26	15	15	42	1.87
240770--240808	13	3.0	13	96	0	69	35	15	17	30	1.91
240794--240872	20	3.7	20	78	15	77	44	15	15	25	1.85
244666--244710	21	2.1	21	84	8	56	22	20	4	53	1.63
246928--246953	13	2.0	13	100	0	52	30	15	15	38	1.88
248160--248233	19	3.7	19	85	8	87	28	16	18	36	1.93
252320--252344	13	1.9	13	100	0	50	36	16	16	32	1.90
252297--252364	33	2.1	33	91	2	111	33	14	16	35	1.89
252419--252468	20	2.5	20	86	0	64	38	16	16	30	1.90
254774--254812	13	3.0	13	96	0	69	35	15	17	30	1.91
261000--261024	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
260977--261044	33	2.1	33	91	2	111	33	14	16	35	1.89
261097--261146	20	2.5	20	86	0	64	38	16	16	30	1.90
266658--266685	13	2.2	13	100	0	56	28	14	14	42	1.84
266639--266703	32	2.0	32	90	3	103	26	18	15	40	1.90
266777--266833	13	4.8	13	68	24	54	40	14	12	33	1.83
266773--266853	33	2.5	31	100	0	126	41	12	14	30	1.83
266790--266853	20	3.5	20	68	27	70	42	12	15	29	1.84
274380--274460	21	3.8	21	84	9	119	30	24	0	44	1.54
275804--275870	33	2.0	33	88	0	98	22	23	20	32	1.98
276845--276964	20	6.7	20	73	24	124	33	17	18	30	1.94
276885--276943	13	5.0	13	74	19	58	32	15	15	37	1.88
276865--276963	33	3.0	33	93	0	180	33	17	17	32	1.93
276845--276964	53	2.3	53	80	2	134	33	17	18	30	1.94
282897--283351	85	5.4	85	79	9	341	28	16	28	26	1.97
282897--283324	28	15.2	28	84	6	333	27	16	29	26	1.97
283119--283448	27	12.0	27	84	8	355	30	14	30	24	1.95
284771--284821	18	2.6	19	81	12	59	1	9	11	76	1.10
287973--288018	24	1.9	24	90	0	74	39	8	19	32	1.82
292746--292863	59	2.0	59	86	6	168	43	14	20	22	1.87
297430--297487	20	2.9	20	84	0	71	37	13	15	32	1.87
297593--297618	13	2.0	13	100	0	52	30	15	15	38	1.88
301738--301763	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
301718--301782	33	2.0	32	87	3	94	36	16	13	32	1.89
307722--307779	20	2.9	20	84	0	71	37	13	15	32	1.87
307885--307910	13	2.0	13	100	0	52	30	15	15	38	1.88
312030--312055	13	2.0	13	100	0	52	30	15	15	38	1.88
312010--312074	33	2.0	32	87	3	94	36	16	13	32	1.89
318014--318071	20	2.9	20	84	0	71	37	13	15	32	1.87
318177--318202	13	2.0	13	100	0	52	30	15	15	38	1.88
322320--322345	13	2.0	13	100	0	52	30	15	15	38	1.88
322300--322364	33	2.0	32	87	3	94	36	16	13	32	1.89
327834--327858	13	1.9	13	100	0	50	32	20	16	32	1.94
330062--330090	13	2.2	13	100	0	58	31	17	13	37	1.89
330078--330130	20	2.6	21	84	3	72	39	15	16	28	1.89
330992--331089	32	3.1	32	87	0	124	15	15	33	35	1.89
331126--331459	29	11.2	29	73	7	159	29	15	25	29	1.96
331091--331322	29	7.5	31	76	8	138	29	15	25	29	1.95
331126--331322	60	3.3	60	80	5	218	28	15	26	29	1.96
331160--331524	29	12.3	29	72	7	194	28	15	26	29	1.96
331360--331521	61	2.7	60	81	3	180	29	15	24	31	1.95
338918--338952	15	2.3	15	95	0	61	28	28	0	42	1.56
340630--340684	19	2.8	19	86	10	76	34	14	16	34	1.89
343041--344877	917	2.0	917	95	0	3307	32	13	18	35	1.89
347753--347778	13	2.0	13	100	0	52	84	0	7	7	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
348437--348561	52	2.4	52	95	0	223	28	17	18	36	1.94
348437--348581	52	2.8	51	89	4	211	29	17	18	34	1.94
348570--348594	13	1.9	13	100	0	50	36	16	16	32	1.90
348660--348684	13	1.9	13	100	0	50	32	16	16	36	1.90
348638--348704	33	2.0	33	88	0	98	40	13	11	34	1.81
349460--349586	67	1.9	68	85	1	175	37	12	25	24	1.90
349599--350390	49	16.7	49	85	7	989	31	17	24	26	1.97
349599--350390	92	8.4	92	89	5	1115	31	17	24	26	1.97
350390--350461	33	2.2	33	92	0	117	23	15	36	25	1.94
350444--350799	34	10.3	34	80	8	371	33	11	33	21	1.89
350463--350768	105	3.0	98	82	8	341	34	11	33	20	1.89
350444--350799	71	5.1	71	82	9	366	33	11	33	21	1.89
351834--351887	26	2.1	26	82	6	65	0	5	11	83	0.80
358416--358442	13	2.1	13	100	0	54	85	0	7	7	0.75
359101--359225	52	2.4	52	95	0	223	28	17	18	36	1.94
359101--359245	52	2.8	51	89	4	211	29	17	18	34	1.94
359234--359258	13	1.9	13	100	0	50	36	16	16	32	1.90
359325--359349	13	1.9	13	100	0	50	32	16	16	36	1.90
359303--359369	33	2.0	33	88	0	98	40	13	11	34	1.81
372599--372637	10	3.5	11	89	10	62	84	15	0	0	0.62
372592--372637	11	4.0	12	83	11	60	84	15	0	0	0.62
373327--373380	19	2.7	19	79	17	65	37	14	14	33	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
373417--373471	20	2.8	20	91	0	83	34	14	10	40	1.81
377570--378428	28	30.0	28	79	5	747	28	28	17	24	1.98
377565--379432	141	12.9	142	74	11	1273	28	29	17	25	1.98
377569--379431	113	16.3	113	76	11	1305	28	29	17	24	1.98
378607--379431	28	28.6	28	80	6	769	27	30	18	23	1.97
380213--380312	20	4.9	20	87	3	121	33	15	13	39	1.85
380434--380464	15	2.1	15	100	0	62	16	19	25	38	1.92
380480--381819	55	24.2	55	91	4	2010	28	30	20	20	1.97
382415--382456	1	42.0	1	85	0	57	92	0	2	4	0.44
382461--382516	21	2.7	21	91	2	87	32	8	17	41	1.81

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