genome.fa.s458.2.7.7.80.10.50.1000.2.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: Scaffold458
Parameters: 2 7 7 80 10 50 1000
Length:  516756

Tables:   1   2   3   

This is table  2  of  3  ( 307 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)
156888--157184	56	5.2	57	82	4	348	25	17	27	29	1.97
160436--160510	20	3.8	20	80	3	80	40	12	13	34	1.81
160433--160510	40	2.0	39	87	2	111	39	12	12	34	1.82
161038--161698	32	21.2	32	92	2	910	16	17	35	30	1.92
162931--162967	13	2.8	13	91	0	65	0	0	8	91	0.41
165594--165660	33	2.0	33	88	0	98	34	11	13	40	1.81
165614--165638	13	1.9	13	100	0	50	36	16	16	32	1.90
165701--165725	13	1.9	13	100	0	50	32	16	16	36	1.90
165614--165794	87	2.1	83	81	9	195	33	16	14	35	1.88
165734--165857	52	2.4	52	90	4	198	34	17	17	29	1.94
179431--179486	20	3.1	18	73	16	53	46	3	3	46	1.37
187461--187532	21	3.5	21	73	17	71	45	0	1	52	1.09
187461--187532	7	10.6	7	73	18	55	45	0	1	52	1.09
191371--191431	19	3.4	19	77	13	83	19	8	0	72	1.10
191353--191431	35	2.3	35	97	0	149	18	7	1	72	1.16
193436--193682	130	1.9	130	87	0	359	38	4	23	33	1.76
193576--193724	57	2.6	55	79	12	165	36	3	22	37	1.71
193564--193724	28	5.6	28	79	9	155	36	3	22	38	1.70
198964--199137	79	2.2	80	83	5	210	33	8	27	30	1.86
200929--200981	21	2.6	21	79	5	65	37	11	15	35	1.83
201021--201079	20	2.8	21	84	5	75	38	13	11	35	1.82
205986--207392	31	45.0	31	72	10	477	42	14	18	25	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
205986--207392	62	22.5	63	74	9	693	42	14	18	25	1.87
206138--207019	152	5.7	154	73	9	435	43	13	17	24	1.86
212415--212488	37	2.0	37	100	0	148	40	10	24	24	1.87
213736--213845	43	2.5	42	78	5	114	36	13	15	34	1.87
227946--227993	19	2.6	18	90	6	78	33	2	18	45	1.61
230178--230226	20	2.7	18	80	20	57	48	2	2	46	1.25
231075--231102	2	14.0	2	100	0	56	50	0	0	50	1.00
233739--233783	22	2.0	23	87	12	67	55	0	0	44	0.99
234149--234176	2	14.0	2	100	0	56	50	0	0	50	1.00
234233--234259	2	13.5	2	100	0	54	51	0	0	48	1.00
237193--237292	50	2.0	50	96	0	182	44	5	17	34	1.70
239864--239895	2	16.0	2	100	0	64	50	0	0	50	1.00
241141--241215	27	2.7	28	87	6	100	22	6	24	46	1.75
241452--241521	24	2.8	25	87	10	92	45	24	8	21	1.79
246019--246088	24	2.8	25	89	6	99	44	25	8	21	1.80
246073--246143	27	2.6	27	86	6	90	46	22	7	23	1.76
252384--252442	16	3.6	16	75	4	55	61	20	0	18	1.35
254043--254085	2	21.5	2	85	0	59	44	0	6	48	1.29
255579--255640	26	2.5	26	79	7	67	61	0	0	38	0.96
255881--255906	2	13.0	2	100	0	52	50	0	0	50	1.00
256347--256375	2	14.5	2	100	0	58	51	0	0	48	1.00
265961--266059	1	99.0	1	77	0	81	86	6	7	0	0.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
265959--266046	30	2.9	30	98	0	167	84	5	10	0	0.78
269890--269950	30	2.0	30	93	6	106	37	16	9	36	1.82
271570--271641	37	1.9	37	85	0	99	41	6	12	38	1.70
274681--274988	155	2.0	154	89	3	476	45	8	11	35	1.69
275976--276011	3	12.0	3	100	0	72	66	0	0	33	0.92
278042--278086	23	1.9	24	86	4	65	62	2	0	35	1.08
278846--278886	18	2.2	19	86	4	57	58	17	2	21	1.50
279094--279142	24	2.0	24	100	0	98	24	4	30	40	1.74
279267--279315	17	2.8	16	77	22	53	46	0	2	51	1.12
280283--280346	32	2.1	32	82	5	78	48	7	6	37	1.57
280567--280625	18	3.2	18	77	13	66	49	1	3	45	1.28
280986--281022	16	2.4	16	90	4	58	51	21	8	18	1.72
281506--281539	2	17.0	2	93	0	50	50	5	0	44	1.26
282634--282669	2	18.0	2	100	0	72	50	0	0	50	1.00
284330--284363	14	2.5	14	90	4	52	38	5	11	44	1.65
284809--284890	16	5.4	16	68	18	52	54	0	0	45	0.99
285320--285371	26	2.0	27	85	11	72	48	0	0	51	1.00
285556--285590	2	17.5	2	100	0	70	48	0	0	51	1.00
285601--285752	77	2.0	77	92	2	252	46	6	15	31	1.72
285730--285764	2	17.5	2	100	0	70	51	0	0	48	1.00
287265--287300	2	18.0	2	100	0	72	50	0	0	50	1.00
287763--287808	24	1.9	24	90	0	74	23	2	2	71	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
288705--288732	2	14.0	2	100	0	56	50	0	0	50	1.00
288868--288914	19	2.5	20	72	10	53	53	8	0	38	1.32
289673--289705	2	16.5	2	100	0	66	51	0	0	48	1.00
290683--290734	13	3.9	13	78	9	52	48	0	1	50	1.12
290728--290792	26	2.5	25	82	9	69	46	1	4	47	1.32
290977--291037	30	2.0	30	87	6	88	37	14	8	39	1.76
292358--292438	39	2.1	39	92	0	135	37	28	8	25	1.86
295755--295832	20	3.8	20	75	12	77	37	12	12	37	1.82
300779--300844	23	3.2	23	64	28	65	39	27	9	24	1.85
300764--300844	39	2.1	39	97	0	153	37	30	8	23	1.85
305397--305429	12	2.8	12	86	4	50	39	3	0	57	1.14
305398--305441	18	2.5	17	85	3	52	36	4	2	56	1.32
308321--308373	19	2.8	20	81	16	60	18	5	0	75	0.99
309217--309306	37	2.5	37	85	1	110	30	32	5	32	1.81
311175--311229	17	3.4	17	76	19	62	56	1	0	41	1.10
311182--311271	15	5.9	15	68	19	60	55	1	1	42	1.14
311216--311285	29	2.4	29	82	13	83	58	2	1	37	1.22
311789--311828	21	1.9	21	90	10	64	40	0	0	60	0.97
314902--314928	14	1.9	14	100	0	54	74	7	7	11	1.23
318979--319055	16	4.7	16	80	6	91	49	1	3	45	1.28
319714--319777	20	3.4	19	79	12	69	46	0	0	53	1.00
322980--323024	2	22.5	2	95	0	81	48	0	51	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
323961--323985	2	12.5	2	100	0	50	48	0	0	52	1.00
324203--324273	16	4.4	17	68	10	51	46	1	14	38	1.53
325346--325409	32	2.0	32	96	0	119	37	4	17	40	1.70
325698--325757	13	4.8	13	69	8	52	58	0	0	41	0.98
325694--325762	18	3.6	21	75	20	87	57	0	0	42	0.98
325695--325786	14	6.5	15	67	18	54	57	0	0	42	0.98
325694--325776	21	4.0	21	76	14	66	56	0	0	43	0.99
326594--326627	12	2.7	13	86	9	52	41	0	0	58	0.98
327280--327333	16	3.5	15	80	16	65	77	0	0	22	0.76
327282--327334	15	3.3	16	80	17	65	79	0	0	20	0.74
327910--327939	2	15.0	2	100	0	60	0	50	0	50	1.00
334316--334363	24	2.0	24	88	11	73	60	0	0	39	0.97
334316--334363	23	2.0	23	88	11	71	60	0	0	39	0.97
335009--335056	24	1.9	25	83	8	62	68	0	4	27	1.07
335431--335465	17	2.0	18	88	5	54	60	0	0	40	0.97
336747--336782	3	12.0	3	93	0	63	33	2	0	63	1.08
337798--338475	219	3.1	219	82	3	842	25	15	19	39	1.91
340612--340671	30	2.0	30	90	6	95	40	3	0	56	1.16
342169--342202	14	2.5	14	90	4	52	41	0	0	58	0.98
344788--344835	26	2.0	24	84	12	62	20	0	10	68	1.18
345971--345999	14	2.1	14	100	0	58	41	0	13	44	1.44
351732--351763	12	2.7	12	90	0	55	50	9	0	40	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
352578--352606	2	14.5	2	100	0	58	51	0	0	48	1.00
353114--353138	13	1.9	13	100	0	50	28	0	0	72	0.86
353824--353861	14	2.8	14	88	4	51	50	0	0	50	1.00
354903--354937	2	17.5	2	100	0	70	51	0	0	48	1.00
355906--355949	2	22.0	2	90	0	70	45	0	4	50	1.22
361047--361087	17	2.4	17	83	0	55	70	2	4	21	1.18
362436--362469	16	2.1	17	88	5	52	41	0	0	58	0.98
362881--362932	26	2.0	26	100	0	104	30	15	30	23	1.95
370331--370365	18	2.0	17	94	5	61	65	11	5	17	1.43
376529--376577	16	3.0	16	72	3	53	24	8	18	48	1.75

Tables:   1   2   3