genome.fa.s105.2.7.7.80.10.50.1000.2.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: Scaffold105
Parameters: 2 7 7 80 10 50 1000
Length:  2918491

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

This is table  2  of  16  ( 1849 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)
224105--224138	12	2.8	12	86	4	50	0	11	0	88	0.52
224104--224138	17	2.2	15	90	10	52	0	11	0	88	0.51
224665--224691	3	9.0	3	100	0	54	33	33	0	33	1.58
225626--225660	3	11.7	3	100	0	70	34	0	0	65	0.93
227923--227985	3	21.0	3	85	0	63	42	33	22	1	1.63
228165--228208	2	22.0	2	95	0	79	47	0	0	52	1.00
229040--229084	14	3.5	13	85	14	58	51	0	2	46	1.13
229789--229836	19	2.5	20	87	12	66	75	0	25	0	0.81
229804--229835	5	6.4	5	92	0	55	78	0	21	0	0.76
229789--229836	10	5.0	10	80	14	57	75	0	25	0	0.81
231383--231415	5	6.6	5	100	0	66	39	0	0	60	0.97
234443--234610	83	2.0	83	95	0	300	28	24	10	36	1.88
237508--237551	15	2.9	15	80	10	54	43	0	0	56	0.99
237604--237630	2	13.5	2	100	0	54	48	0	0	51	1.00
237955--237979	2	12.5	2	100	0	50	48	0	0	52	1.00
239127--239160	16	2.1	17	88	5	52	44	0	0	55	0.99
239888--239997	23	5.0	22	72	23	83	57	0	0	40	1.11
239926--239989	11	5.6	11	77	17	60	59	1	0	39	1.07
239923--239999	28	2.7	26	77	16	82	58	1	0	40	1.06
239922--239994	34	2.1	34	82	5	85	57	1	0	41	1.07
245440--245481	22	2.0	21	85	4	57	57	7	0	35	1.26
247440--247473	14	2.4	15	85	14	54	61	2	0	35	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
256624--256679	22	2.5	23	97	2	105	62	8	10	17	1.52
257590--257664	20	3.8	20	80	3	80	41	12	12	34	1.79
257587--257664	40	2.0	39	84	2	102	41	12	11	34	1.80
261087--261124	18	2.1	18	85	9	51	36	23	18	21	1.95
261753--261822	30	2.4	28	82	15	88	40	0	0	60	0.97
261762--261821	32	1.9	32	90	6	97	40	0	0	60	0.97
261830--261863	14	2.4	14	95	0	59	47	0	0	52	1.00
262100--262145	14	3.0	14	77	22	56	43	0	0	56	0.99
262081--262155	20	4.3	18	73	25	63	44	0	2	53	1.14
262090--262168	32	2.4	31	79	14	79	39	0	3	56	1.17
262391--262451	19	2.7	23	73	23	67	39	0	1	59	1.08
263540--263584	18	2.5	19	86	10	60	55	0	0	44	0.99
268241--268330	22	4.0	24	69	20	77	58	0	0	41	0.98
268296--268344	18	2.9	18	70	29	54	55	0	0	44	0.99
272923--272958	3	12.0	3	100	0	72	66	0	0	33	0.92
273789--273878	24	3.9	24	73	5	71	54	2	2	41	1.25
273818--273869	20	2.5	21	71	9	52	55	1	1	40	1.22
274358--274399	18	2.3	18	87	0	57	52	0	2	45	1.13
274385--274426	22	2.0	21	86	13	59	40	0	2	57	1.12
274416--274487	16	4.3	17	68	21	53	56	1	0	41	1.07
276851--276910	14	3.9	14	76	18	57	51	0	0	48	1.00
276851--276910	16	3.8	16	74	10	61	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)
276855--276933	32	2.4	33	87	6	106	50	0	0	49	1.00
276885--276933	17	2.8	19	72	27	54	51	0	0	48	1.00
276866--276920	17	3.4	17	75	25	64	56	0	0	43	0.99
279396--279424	2	14.5	2	100	0	58	48	51	0	0	1.00
281779--281810	16	2.1	15	94	5	55	28	0	0	71	0.86
281779--281835	21	2.7	21	80	2	60	33	0	1	64	1.04
282397--282430	2	17.5	2	87	6	52	47	0	2	50	1.16
282504--282536	2	16.5	2	100	0	66	51	0	0	48	1.00
282320--282644	110	3.0	108	94	1	555	33	14	13	39	1.85
282614--282644	2	15.5	2	100	0	62	51	0	0	48	1.00
283045--283102	29	1.9	31	83	13	77	36	3	0	60	1.14
284830--284887	16	3.7	16	72	11	57	62	6	0	31	1.22
286526--286624	49	2.0	49	90	0	153	56	15	12	16	1.67
288900--288928	2	14.5	2	100	0	58	48	0	0	51	1.00
290242--290269	6	4.7	6	100	0	56	35	14	50	0	1.43
290695--290759	34	1.9	34	83	0	85	55	0	0	44	0.99
290832--290873	20	2.1	20	91	8	68	50	0	0	50	1.00
293464--293506	22	2.0	21	82	17	52	34	0	4	60	1.17
293657--293702	9	5.1	9	84	10	67	19	2	2	76	1.00
293960--294067	48	2.2	48	95	0	189	46	1	6	45	1.39
298183--298207	13	1.9	13	100	0	50	24	16	8	52	1.70
302153--302208	28	2.0	28	100	0	112	28	17	3	50	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
305354--305378	3	8.3	3	100	0	50	32	0	0	68	0.90
305573--305603	2	15.5	2	100	0	62	51	0	0	48	1.00
306269--306294	2	13.0	2	100	0	52	50	0	0	50	1.00
307622--307662	16	2.5	17	80	15	50	48	0	0	51	1.00
307630--307687	23	2.5	22	78	13	64	51	0	0	48	1.00
311718--311791	37	2.0	37	91	0	121	32	25	18	22	1.97
315954--315987	16	2.1	17	88	5	52	38	0	5	55	1.24
317133--317193	27	2.3	26	86	8	79	36	0	0	63	0.94
317132--317203	27	2.8	25	72	13	65	38	1	0	59	1.06
317306--317387	23	3.6	23	76	15	73	68	0	1	30	0.98
317302--317403	35	3.2	33	77	12	108	65	0	0	33	0.99
317314--317390	18	4.3	18	72	9	68	68	0	0	31	0.90
317844--317876	17	1.9	17	100	0	66	51	18	24	6	1.68
318800--318831	6	5.7	6	85	14	50	84	0	0	15	0.63
318800--318830	16	1.9	16	100	0	62	83	0	0	16	0.64
319392--319438	15	2.9	17	78	15	55	48	0	0	51	1.00
319702--319749	21	2.2	22	85	3	62	54	4	2	39	1.32
322067--322094	3	9.3	3	100	0	56	32	0	0	67	0.91
322269--322296	2	14.0	2	100	0	56	50	0	0	50	1.00
322879--322919	20	2.0	21	86	13	59	46	4	9	39	1.58
324081--324128	23	2.0	25	84	8	64	52	2	0	45	1.12
324377--324429	24	2.2	24	83	3	63	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
324372--324433	31	2.0	31	84	3	81	41	0	0	58	0.98
324777--324882	31	3.0	37	71	22	109	51	0	1	46	1.11
324724--324882	68	2.2	72	83	8	193	54	0	2	43	1.14
324801--324901	28	3.6	29	76	19	90	53	0	1	43	1.18
326040--326069	5	6.0	5	100	0	60	20	40	20	20	1.92
326196--326227	2	16.0	2	93	0	55	46	0	53	0	1.00
330423--330464	3	14.0	3	89	0	66	64	2	2	30	1.19
333760--333855	41	2.4	40	81	11	108	42	0	3	54	1.16
334418--334468	14	3.3	15	76	15	50	49	0	0	50	1.00
336867--336907	19	2.2	19	86	4	57	34	0	0	65	0.93
336860--336908	18	2.8	17	78	9	53	36	0	0	63	0.95
336880--336922	13	3.4	13	77	3	52	30	0	0	69	0.88
337801--337833	2	16.5	2	100	0	66	51	0	0	48	1.00
338376--338412	3	12.0	3	94	5	65	35	0	0	64	0.94
339808--339832	2	12.5	2	100	0	50	52	0	48	0	1.00
342648--342683	15	2.4	15	100	0	72	38	11	19	30	1.86
342648--342711	15	4.3	15	86	4	67	40	9	14	35	1.78
342914--342958	14	3.3	14	81	6	65	31	20	17	31	1.96
342923--343009	41	2.2	40	80	2	102	31	22	18	27	1.97
343751--343826	37	2.1	37	100	0	152	25	21	15	38	1.92
345571--345774	102	2.0	103	94	1	356	24	19	19	36	1.95
347347--347412	24	2.7	23	86	4	69	46	1	0	51	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
347315--347454	59	2.3	63	81	14	159	42	1	0	55	1.14
347308--347456	65	2.3	66	78	13	159	42	1	0	55	1.13
347534--347606	21	3.5	21	88	7	112	36	1	1	60	1.14
347521--347605	21	3.9	23	84	12	83	37	3	1	57	1.23
347536--347633	43	2.3	42	83	1	115	34	6	3	56	1.40
347879--347935	20	2.8	20	71	12	53	45	1	0	52	1.11
348120--348161	2	21.0	2	90	0	66	45	4	0	50	1.23
348706--348776	9	7.4	9	82	14	81	22	4	1	71	1.11
348705--348783	10	8.3	9	81	15	72	24	6	1	68	1.20
348706--348789	20	4.3	18	81	14	89	22	5	1	70	1.16

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