genome.fa.s168.2.7.7.80.10.50.1000.3.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: Scaffold168
Parameters: 2 7 7 80 10 50 1000
Length:  2098754

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

This is table  3  of  16  ( 1854 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)
224062--224133	36	2.1	34	84	7	92	63	0	0	36	0.94
224102--224171	26	2.7	25	78	13	70	54	0	0	45	0.99
224192--224222	13	2.4	13	100	0	62	61	12	0	25	1.32
224317--224367	23	2.2	23	85	0	66	58	5	0	35	1.22
224351--224387	2	18.5	2	100	0	74	51	0	0	48	1.00
225925--225994	37	1.9	35	82	8	86	58	0	0	41	0.98
225991--226025	10	3.4	10	92	4	52	57	0	2	40	1.14
225948--226008	26	2.3	27	72	5	63	57	0	1	40	1.08
226005--226070	7	10.8	6	73	20	57	50	0	0	50	1.00
225999--226055	18	3.2	18	72	18	57	50	0	0	49	1.00
226009--226070	25	2.5	25	100	0	124	48	0	0	51	1.00
226005--226070	12	5.4	13	77	8	68	50	0	0	50	1.00
229102--229128	2	13.5	2	100	0	54	48	0	0	51	1.00
229012--229210	110	1.8	110	95	0	362	26	13	21	39	1.90
229435--229472	11	3.6	11	86	10	53	44	0	2	52	1.14
231828--231861	2	17.0	2	100	0	68	50	0	0	50	1.00
233868--234088	107	2.1	107	86	0	316	43	8	14	34	1.74
234679--234731	9	6.2	8	84	6	61	28	1	0	69	0.99
234679--234727	25	1.9	26	91	4	82	26	2	0	71	0.97
235435--235480	15	3.1	15	79	14	51	43	2	0	54	1.12
235450--235494	18	2.4	19	81	7	65	46	0	0	53	1.00
239275--239336	10	6.5	10	75	12	51	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
239277--239329	20	2.8	20	81	16	67	62	0	0	37	0.96
244361--244452	20	4.9	20	68	21	65	42	2	0	55	1.12
244406--244473	25	2.9	24	81	12	70	38	0	1	60	1.06
244435--244489	17	3.2	17	76	20	60	30	0	1	67	1.01
244928--244979	17	3.4	14	75	15	50	50	0	0	50	1.00
244924--244989	18	3.9	18	74	23	72	53	0	0	46	1.00
245915--245950	2	18.0	2	100	0	72	50	50	0	0	1.00
247791--247825	17	2.1	17	89	10	54	42	20	2	34	1.66
248698--248772	11	7.1	10	78	17	55	30	0	2	66	1.05
248708--248771	24	2.8	23	83	6	69	29	0	3	67	1.06
251008--251044	2	18.5	2	100	0	74	51	0	0	48	1.00
251081--251156	38	2.0	38	92	0	125	43	21	18	17	1.88
252253--252303	26	2.0	26	84	7	68	41	0	0	58	0.98
254366--254400	11	3.2	11	91	0	52	48	0	0	51	1.00
254431--254479	14	3.4	14	83	5	71	65	0	0	34	0.93
256398--256433	2	18.5	2	94	5	65	47	0	0	52	1.00
257441--257488	16	2.8	18	76	20	50	50	0	0	50	1.00
257441--257510	32	2.2	32	84	7	88	50	0	0	50	1.00
258698--258741	21	2.0	22	91	4	72	70	2	0	27	0.99
258778--258802	7	3.6	7	100	0	50	48	0	0	52	1.00
259439--259486	3	16.3	3	89	4	71	2	31	0	66	1.03
260147--260217	27	2.6	28	84	6	92	53	4	4	38	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
263015--263041	6	4.5	6	100	0	54	70	0	0	29	0.88
266977--267004	2	14.0	2	100	0	56	50	0	0	50	1.00
267479--267577	20	5.7	20	69	30	100	35	12	18	34	1.88
267500--267590	13	5.9	13	69	30	56	36	13	17	32	1.88
267480--267614	33	4.1	33	98	0	254	35	11	17	34	1.87
267652--267676	13	1.9	13	100	0	50	32	16	16	36	1.90
267566--267749	86	2.2	84	82	8	212	35	17	15	31	1.91
271560--271620	30	2.3	27	81	16	65	36	4	0	59	1.19
275084--275110	6	4.5	6	100	0	54	70	0	0	29	0.88
279474--279572	20	5.7	20	69	30	100	35	12	18	34	1.88
279495--279585	13	5.9	13	69	30	56	36	13	17	32	1.88
279475--279606	33	4.0	33	98	1	248	35	12	17	34	1.87
283502--283549	3	16.3	3	89	4	71	2	31	0	66	1.03
284210--284294	28	3.1	28	83	5	93	56	3	3	36	1.34
287077--287103	6	4.5	6	100	0	54	70	0	0	29	0.88
291034--291111	30	2.6	30	79	4	77	37	2	0	60	1.11
291069--291129	30	2.3	27	81	16	65	36	4	0	59	1.19
295437--295498	18	3.4	18	75	4	63	38	0	0	61	0.96
302248--302286	20	2.0	19	85	5	51	23	12	41	23	1.88
302640--302733	5	18.8	5	87	0	107	50	7	21	21	1.73
302628--302733	15	7.2	15	84	6	128	49	8	21	20	1.76
302742--302861	22	5.5	22	64	25	76	45	9	19	25	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
302767--302839	21	3.4	21	66	23	62	46	9	19	24	1.79
302745--302886	43	3.3	43	99	1	277	47	9	18	25	1.78
302701--302893	86	2.2	87	87	7	277	45	8	19	25	1.79
302975--303043	16	4.3	15	73	12	57	21	1	1	75	0.96
303063--303089	14	1.9	14	100	0	54	88	0	0	11	0.50
303825--303877	20	2.6	21	84	3	72	60	3	0	35	1.15
304036--304060	13	1.9	13	100	0	50	56	0	0	44	0.99
304542--304594	20	2.7	20	79	5	54	33	3	5	56	1.41
304655--304697	16	2.7	16	85	10	61	44	0	0	55	0.99
305664--305700	19	1.9	19	89	10	58	35	5	0	59	1.20
307077--307102	11	2.4	11	100	0	52	46	0	0	53	1.00
307101--307185	27	3.0	28	70	21	68	37	2	0	60	1.10
307084--307157	19	4.1	19	72	19	68	39	0	0	60	0.97
307372--307420	23	2.2	22	85	3	62	51	2	0	46	1.12
308037--308061	5	5.0	5	100	0	50	60	0	0	40	0.97
308042--308085	15	2.8	15	86	6	52	63	0	2	34	1.07
309088--309127	20	2.0	20	85	0	53	45	7	0	47	1.31
309322--309395	27	2.7	29	73	12	75	41	0	1	56	1.07
309794--309834	19	2.2	18	91	4	64	48	2	0	48	1.14
318037--318082	22	2.1	22	88	4	67	19	13	13	54	1.71
325257--325308	27	2.0	27	85	7	72	57	1	0	40	1.10
329792--329857	32	2.0	33	82	2	80	59	7	3	30	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
331099--331171	35	2.2	35	85	7	98	36	0	1	61	1.05
331265--331306	21	2.0	21	86	9	59	52	0	0	47	1.00
335548--335577	2	15.0	2	92	0	51	0	46	3	50	1.18
338772--338796	6	4.2	6	100	0	50	16	16	0	68	1.22
339202--339232	16	1.9	16	93	0	53	29	3	0	67	1.06
343796--343843	18	2.7	18	74	9	53	41	0	0	58	0.98
344677--344722	20	2.4	19	86	13	60	52	0	0	47	1.00
344977--345071	49	1.9	49	80	16	108	52	0	0	47	1.00
349931--350337	139	2.9	139	91	1	663	25	17	18	38	1.92
354232--354296	6	10.3	6	74	9	58	58	0	0	41	0.98
354209--354301	26	3.7	26	80	12	79	53	0	0	46	1.00
355036--355077	21	2.0	21	86	13	61	42	0	0	57	0.99
354998--355124	48	2.7	46	80	16	134	48	0	0	50	1.06
355525--355569	13	3.7	13	80	17	51	53	0	0	46	1.00
355527--355587	23	2.7	23	77	10	54	57	0	0	42	0.98
355920--355968	20	2.5	19	76	23	57	57	0	0	42	0.99
357009--357039	2	15.5	2	100	0	62	48	0	0	51	1.00
357153--357235	32	2.4	36	82	9	104	43	2	1	53	1.21
357703--357750	23	2.0	24	84	4	62	47	0	2	50	1.12
358330--358457	15	8.5	15	72	14	86	33	0	0	65	0.98
358340--358439	5	19.8	5	72	13	55	34	0	1	65	1.00
358329--358457	26	5.1	25	71	20	99	34	0	0	65	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
358339--358457	10	12.8	10	70	21	66	32	0	0	66	0.98
358329--358457	24	5.5	24	69	17	69	34	0	0	65	0.99
358899--358927	2	14.5	2	100	0	58	48	0	0	51	1.00
359524--360050	253	2.1	260	84	9	692	48	4	4	42	1.42
359932--359979	19	2.5	19	77	19	55	56	2	0	41	1.11
359949--360046	17	5.4	17	69	28	53	56	2	2	39	1.23
361405--361443	20	2.0	20	85	10	53	35	0	2	61	1.10
361407--361459	24	2.2	24	83	6	63	35	0	1	62	1.06
361436--361471	17	2.2	16	90	5	54	50	0	0	50	1.00
361957--362009	23	2.3	21	73	17	52	45	0	0	54	0.99

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