genome.fa.s311.2.7.7.80.10.50.1000.3.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: Scaffold311
Parameters: 2 7 7 80 10 50 1000
Length:  800152

Tables:   1   2   3   4   5   6   7   

This is table  3  of  7  ( 745 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)
301297--301855	135	4.0	136	82	10	641	25	25	17	31	1.97
301727--301918	107	1.8	104	83	5	251	25	23	16	34	1.95
301762--302119	169	2.1	173	81	6	424	24	25	13	36	1.91
302805--302922	52	2.3	52	92	0	200	33	17	17	30	1.94
312459--312486	2	14.0	2	100	0	56	50	0	0	50	1.00
316042--316124	39	2.1	39	82	4	105	38	16	13	31	1.87
316129--316310	78	2.3	78	74	6	188	32	14	18	33	1.92
316268--316421	78	2.0	79	80	3	177	31	16	17	34	1.93
331029--331054	2	13.0	2	100	0	52	50	0	0	50	1.00
331054--331085	2	16.0	2	100	0	64	50	0	50	0	1.00
331387--331428	20	2.2	19	91	4	66	52	0	2	45	1.13
331776--331831	18	3.1	18	82	7	60	26	3	1	67	1.16
331826--331913	34	2.5	35	83	9	92	45	0	0	54	0.99
331858--331913	17	3.4	17	82	2	78	44	0	0	55	0.99
331837--331901	28	2.4	28	76	7	71	43	0	0	56	0.99
336631--336672	18	2.4	17	84	7	57	30	2	0	66	1.04
338299--338330	14	2.1	16	88	11	50	43	3	0	53	1.16
339019--339062	2	22.0	2	100	0	88	50	0	0	50	1.00
339478--339516	18	2.2	17	86	13	53	25	5	0	69	1.09
339787--339823	18	2.1	17	90	10	56	54	0	2	43	1.14
342997--343035	2	19.5	2	100	0	78	51	0	0	48	1.00
343807--343864	2	29.0	2	92	0	62	50	10	0	39	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
344440--344474	18	2.0	17	88	5	52	20	0	0	80	0.72
345858--346014	77	2.0	77	90	2	244	36	11	15	36	1.83
346332--346369	2	19.0	2	94	0	67	50	0	2	47	1.15
347180--347210	2	15.5	2	100	0	62	48	0	0	51	1.00
353344--353378	2	18.0	2	88	5	54	45	2	0	51	1.16
353401--353488	27	3.3	26	76	23	69	56	1	1	40	1.14
353444--353487	21	2.0	22	82	4	54	54	0	0	45	0.99
354575--354627	25	2.1	26	82	3	63	60	0	0	39	0.97
357029--357072	16	2.8	16	78	0	52	52	2	2	43	1.26
357720--357770	16	3.2	16	72	10	50	21	11	19	47	1.81
362273--362345	31	2.4	30	82	10	87	42	1	0	56	1.08
362333--362366	14	2.2	16	90	10	54	50	0	0	50	1.00
362277--362340	34	2.0	33	85	14	89	42	1	0	56	1.09
362775--362838	25	2.5	25	76	2	65	45	3	0	51	1.17
363103--363154	19	2.5	20	81	15	61	34	1	0	63	1.06
363100--363159	18	3.2	19	85	4	68	33	1	0	65	1.03
363139--363179	21	2.0	21	85	0	55	41	0	0	58	0.98
363417--363453	3	12.3	3	100	0	74	32	0	0	67	0.91
366645--366678	17	1.9	18	94	5	61	50	0	0	50	1.00
366650--366688	17	2.3	17	81	0	51	53	0	0	46	1.00
366676--366717	17	2.4	17	84	11	50	50	0	4	45	1.23
367021--367098	29	2.7	29	86	9	97	48	0	7	43	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
367465--367506	19	2.2	20	82	4	50	57	2	0	40	1.12
369132--369195	26	2.4	27	82	12	71	40	4	3	51	1.38
369233--369265	18	1.9	17	88	11	50	30	9	0	60	1.27
369270--369333	34	2.0	34	87	9	98	35	3	4	56	1.36
369874--369922	23	2.1	23	84	0	62	44	0	4	51	1.20
370142--370188	21	2.3	21	83	16	64	40	0	0	59	0.97
370197--370250	10	5.4	10	76	8	56	50	1	0	48	1.11
370847--370874	2	14.0	2	100	0	56	50	0	0	50	1.00
373447--373486	21	2.0	21	95	5	73	25	10	27	37	1.88
374284--374338	17	3.2	16	83	16	67	38	0	0	61	0.96
374284--374346	34	1.9	32	84	12	83	41	0	0	58	0.98
375163--375201	20	2.0	20	89	0	60	43	0	0	56	0.99
376970--377025	21	2.7	21	64	10	51	42	5	1	50	1.35
377004--377072	16	4.1	16	67	17	50	42	1	0	56	1.08
377468--377519	25	2.2	23	86	6	68	40	0	0	59	0.97
377479--377525	13	3.7	13	81	18	55	46	0	0	53	1.00
377567--377634	31	2.2	32	84	7	86	36	0	0	63	0.95
378506--378532	10	2.7	10	100	0	54	29	7	0	62	1.22
379896--379944	25	2.0	25	88	4	73	57	0	0	42	0.99
381830--381882	22	2.4	22	87	0	70	33	5	22	37	1.78
381848--381893	22	2.1	22	83	0	56	43	6	15	34	1.72
382070--382106	16	2.3	16	95	0	65	5	16	37	40	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
382085--382188	53	2.0	53	88	3	156	18	13	31	36	1.89
383184--383234	16	3.2	16	82	0	66	11	17	31	39	1.86
383179--383266	32	2.8	32	82	0	104	17	15	27	39	1.90
383213--383275	16	3.9	16	73	8	56	17	14	25	42	1.87
385441--385487	25	1.9	25	82	4	60	38	0	0	61	0.96
385470--385501	14	2.3	15	84	15	50	53	0	0	46	1.00
385475--385545	15	4.4	16	72	18	58	56	0	1	42	1.08
386350--386392	21	2.0	22	86	4	61	32	2	0	65	1.06
387232--387261	15	1.9	15	93	6	51	23	0	0	76	0.78
387263--387300	2	19.5	2	94	5	69	50	0	0	50	1.00
388714--388766	16	3.3	16	81	5	63	35	0	1	62	1.06
388966--389010	16	2.8	16	89	0	63	37	4	8	48	1.55
391742--391810	16	4.6	16	68	18	58	68	0	1	30	0.99
391737--391810	30	2.5	30	82	10	89	67	0	1	31	0.99
392338--392382	21	2.1	22	87	4	65	42	0	0	57	0.98
392339--392382	11	4.0	11	82	8	54	40	0	0	59	0.98
392445--392503	22	2.7	22	76	5	66	33	0	0	66	0.92
392463--392517	27	2.0	27	82	10	67	41	0	1	56	1.10
392934--392982	19	2.5	20	80	6	57	69	2	0	28	1.00
393032--393088	27	2.1	27	84	12	73	50	0	0	49	1.00
393029--393066	19	2.0	20	89	5	60	47	0	0	52	1.00
393057--393094	20	1.9	20	88	0	58	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
393557--393588	2	16.5	2	93	6	57	50	0	0	50	1.00
396537--396567	2	15.5	2	93	0	53	51	0	0	48	1.00
397385--397460	37	2.1	37	87	5	109	35	14	11	38	1.83
397436--397526	31	3.0	30	84	6	112	37	12	13	37	1.82
397468--397533	30	2.2	31	86	2	89	37	10	12	39	1.77
402048--402091	21	2.1	21	83	8	54	13	27	20	38	1.90
403651--403746	44	2.2	44	87	12	146	34	13	12	39	1.82
404223--404289	11	6.5	11	73	22	65	43	0	0	56	0.99
404224--404287	29	2.2	31	86	11	98	42	0	0	57	0.98
404224--404304	29	2.9	28	82	15	96	44	0	0	55	0.99
406384--406417	16	2.1	16	94	0	59	35	14	2	47	1.60
409795--410211	102	4.1	102	85	4	536	47	7	14	30	1.72
410339--410370	5	6.4	5	100	0	64	81	0	0	18	0.70
410815--410930	14	8.4	14	64	31	56	55	0	0	43	1.05
410856--410903	23	2.0	23	84	4	60	54	2	0	43	1.12
411038--411127	48	1.9	47	84	10	123	45	0	0	54	0.99
411379--411448	26	2.7	26	72	16	65	51	0	0	48	1.00
411439--411510	29	2.5	31	84	8	89	58	4	0	37	1.18
417359--417396	13	3.2	12	89	10	53	34	0	0	65	0.93
417995--418024	6	5.0	6	95	0	51	20	0	13	66	1.24
418591--418643	25	2.1	25	82	6	63	5	26	0	67	1.12
418606--418644	20	2.0	20	89	0	60	5	23	0	71	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
418819--419038	111	2.0	111	87	3	318	35	9	11	43	1.73
419047--419089	16	2.7	16	85	0	50	44	4	4	46	1.45
419282--419335	22	2.3	25	81	15	78	42	3	1	51	1.30
419292--419334	22	1.9	23	95	4	79	37	4	2	55	1.33
419293--419343	23	2.3	22	86	3	66	35	1	1	60	1.19
421597--421677	39	2.1	39	97	0	153	39	14	12	33	1.84
423262--423291	11	2.6	11	94	5	51	46	10	10	33	1.71
423680--423729	25	2.0	25	100	0	100	28	16	28	28	1.97
423842--423892	2	26.0	2	96	4	95	0	49	0	50	1.00
427440--427506	23	2.9	23	73	6	64	43	4	1	50	1.31

Tables:   1   2   3   4   5   6   7