genome.fa.s170.2.7.7.80.10.50.1000.2.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: Scaffold170
Parameters: 2 7 7 80 10 50 1000
Length:  1632119

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  2  of  11  ( 1308 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)
245808--245868	25	2.3	26	79	20	74	52	1	3	42	1.27
245866--245937	25	2.9	25	79	8	67	40	1	0	58	1.07
245895--245952	23	2.5	22	74	15	55	34	3	0	62	1.12
247089--247165	32	2.3	33	86	4	102	46	1	0	51	1.09
247095--247242	25	5.6	27	69	21	91	41	0	0	57	1.08
247147--247263	8	14.8	8	69	12	62	39	0	1	58	1.14
247126--247199	15	5.0	15	74	9	62	37	0	1	60	1.05
247227--247265	2	19.5	2	83	0	51	43	2	2	51	1.29
248513--248571	27	2.2	27	81	6	66	37	3	0	59	1.14
248530--248569	21	1.9	21	90	10	64	37	2	0	60	1.11
251301--251325	7	3.6	7	100	0	50	64	0	0	36	0.94
254249--254277	2	14.5	2	100	0	58	0	48	0	51	1.00
255177--255255	38	2.1	38	100	0	158	29	18	34	17	1.95
259201--259235	16	2.2	16	90	10	54	48	8	0	42	1.33
262810--262843	2	17.0	2	93	0	59	52	0	0	47	1.00
263053--263096	19	2.4	18	80	3	52	61	11	2	25	1.41
263806--263838	2	16.5	2	100	0	66	51	0	0	48	1.00
264758--264795	10	3.6	11	86	10	53	39	0	0	60	0.97
267650--267688	20	1.9	21	84	5	53	12	7	7	71	1.29
267954--267996	20	2.0	22	83	16	56	44	2	0	53	1.13
269026--269094	7	9.7	7	75	9	59	50	4	0	44	1.21
269026--269079	15	3.7	15	85	2	74	51	3	0	44	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
269025--269107	15	5.9	14	77	9	71	50	3	0	45	1.19
273848--273881	11	3.1	11	86	0	50	47	0	0	52	1.00
273845--273893	20	2.3	21	77	19	57	46	0	0	53	1.00
274962--275017	25	2.1	26	83	12	69	48	0	0	51	1.00
275154--275195	21	2.0	21	90	0	66	21	21	23	33	1.97
275336--275391	23	2.5	22	80	8	60	48	0	0	51	1.00
275747--275791	24	1.9	24	82	13	58	44	15	2	37	1.59
276118--276209	46	2.0	46	95	0	166	32	23	17	26	1.97
281867--281913	13	3.6	13	88	0	67	36	6	38	19	1.77
281997--282075	27	3.0	27	87	3	108	54	2	2	40	1.27
286745--286856	59	1.9	59	81	7	138	59	0	5	33	1.26
293772--294315	181	3.0	181	99	0	1063	47	25	7	19	1.76
294760--294854	13	6.4	15	70	20	58	41	0	0	58	0.98
294801--294862	11	5.2	12	71	21	51	45	0	0	54	0.99
294798--294862	24	2.7	23	79	11	69	46	0	0	53	1.00
294771--294865	31	3.0	31	74	20	90	45	0	0	54	0.99
301536--301575	2	20.0	2	89	0	62	47	2	0	50	1.14
302594--302634	2	20.5	2	89	0	64	51	2	0	46	1.14
303441--303476	13	2.8	13	86	0	54	38	16	13	30	1.88
306627--306684	21	2.8	21	82	15	75	20	25	1	51	1.57
308250--308309	31	2.0	31	83	9	79	31	26	13	28	1.94
308276--308344	36	1.9	35	85	8	95	27	27	13	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
308800--308841	13	3.2	13	82	0	57	38	14	14	33	1.86
308841--308890	24	2.1	24	92	0	82	44	6	20	30	1.75
308964--308990	13	2.1	13	100	0	54	40	14	14	29	1.86
308945--309008	32	2.0	32	90	6	103	40	17	15	26	1.89
310670--310698	3	9.7	3	100	0	58	68	0	31	0	0.89
311834--311877	17	2.6	17	85	7	63	36	2	0	61	1.09
311849--311897	20	2.3	20	86	6	62	36	0	0	63	0.95
315099--315144	21	2.2	21	88	7	67	47	0	0	52	1.00
315179--315219	20	2.0	20	100	0	82	39	0	0	60	0.96
315168--315204	14	2.5	15	86	8	58	37	0	0	62	0.96
315257--315339	33	2.5	32	81	9	87	49	0	0	50	1.00
315906--315941	3	12.0	3	93	0	63	0	36	0	63	0.94
322560--322594	6	5.8	6	93	0	61	34	51	0	14	1.42
328720--328750	16	1.9	16	93	0	53	22	48	12	16	1.80
347765--347791	2	13.5	2	100	0	54	51	0	48	0	1.00
348547--348585	19	2.0	19	85	5	51	48	2	0	48	1.15
357941--357983	14	2.8	15	83	13	52	25	2	0	72	0.97
360757--360798	17	2.5	17	84	3	50	45	9	0	45	1.36
362036--362072	2	18.5	2	100	0	74	51	48	0	0	1.00
372198--372241	20	2.2	20	87	4	61	27	0	0	72	0.85
375072--375230	50	3.2	48	79	5	165	30	12	18	37	1.88
379641--379872	50	4.6	50	88	4	317	31	18	19	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
381280--381318	19	2.0	20	85	9	55	56	0	0	43	0.99
381277--381332	16	3.2	16	73	24	51	51	0	0	48	1.00
381277--381333	18	3.2	18	78	14	64	50	0	0	49	1.00
381619--381652	16	2.0	18	88	11	54	41	0	0	58	0.98
382039--382088	12	4.2	12	82	7	57	26	0	0	74	0.83
382346--382435	47	1.9	47	80	13	105	54	0	3	42	1.17
382556--382596	19	2.2	19	86	0	55	56	0	0	43	0.99
382615--382682	33	2.0	36	85	8	97	55	1	0	42	1.08
382737--382764	14	2.0	14	100	0	56	57	0	0	42	0.99
382742--382811	21	3.3	21	72	7	61	64	0	0	35	0.94
382735--382871	15	9.2	16	69	22	68	60	0	0	38	1.02
382804--382914	28	4.0	27	70	21	88	56	2	0	40	1.13
383179--383241	31	2.0	31	81	6	74	38	4	0	57	1.20
383349--383396	21	2.1	24	88	11	75	58	0	0	41	0.98
386153--386206	28	2.1	26	83	13	67	44	0	0	55	0.99
386156--386208	24	2.0	25	86	13	72	43	0	0	56	0.99
386905--386943	20	2.0	20	85	10	53	56	5	2	35	1.35
446009--446065	28	2.0	29	86	6	82	59	0	1	38	1.08
446014--446080	16	4.5	15	85	9	75	58	0	2	38	1.14
446328--446431	37	3.0	34	78	8	118	27	1	29	40	1.67
450941--451045	34	3.0	34	82	8	138	25	1	33	39	1.67
451011--451052	22	1.9	22	95	0	75	28	4	30	35	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
451227--451265	6	6.5	6	85	8	53	33	0	0	66	0.92
451227--451265	17	2.2	17	86	9	51	33	0	0	66	0.92
452740--452775	2	18.0	2	94	0	63	52	0	0	47	1.00
453808--453848	21	1.9	22	85	5	57	46	0	0	53	1.00
453807--453858	18	3.0	18	76	15	56	48	0	0	51	1.00
453820--453858	9	4.3	9	87	9	53	43	0	0	56	0.99
453807--453855	25	1.9	25	83	4	62	48	0	0	51	1.00
454639--454708	30	2.3	31	82	7	90	54	0	1	44	1.09
455045--455093	19	2.5	19	80	3	53	55	2	2	40	1.23
459324--459380	24	2.3	25	82	14	66	49	0	1	49	1.11
460536--460564	3	9.7	3	100	0	58	31	0	0	68	0.89
460563--460612	3	16.7	3	91	0	82	2	2	32	64	1.16
466831--466865	2	17.5	2	100	0	70	48	51	0	0	1.00
467807--467858	26	2.0	26	88	0	77	42	3	9	44	1.55
470411--470444	2	17.5	2	87	6	52	0	44	0	55	0.99
473159--473209	25	2.0	25	96	0	93	66	1	0	31	1.03
473336--473377	20	2.1	20	90	0	66	57	2	2	38	1.25
473439--473473	2	18.0	2	88	5	54	48	0	0	51	1.00
473600--473684	44	1.9	44	81	9	102	58	0	0	41	0.98
474805--474902	38	2.6	38	85	0	115	34	21	7	36	1.81
479454--479598	38	3.8	38	75	10	109	30	25	11	32	1.91
486015--486049	18	2.0	17	88	5	52	57	0	0	42	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
485993--486049	17	3.5	17	75	24	59	52	1	0	45	1.11
492773--492825	16	3.2	17	75	17	58	41	0	0	58	0.98
492773--492851	33	2.4	32	83	10	88	41	1	1	55	1.16
493006--493051	6	7.7	6	100	0	92	0	0	65	34	0.93
493129--493161	2	16.0	2	93	6	57	48	3	0	48	1.17
493671--493766	46	2.1	46	98	1	185	53	15	18	12	1.73
494102--494143	18	2.3	19	91	4	68	66	16	16	0	1.25
494342--494394	24	2.2	24	89	0	79	37	11	16	33	1.85
496862--496895	2	17.0	2	100	0	68	50	0	0	50	1.00
497007--497041	2	17.5	2	100	0	70	48	0	0	51	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11