genome.fa.s180.2.7.7.80.10.50.1000.3.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: Scaffold180
Parameters: 2 7 7 80 10 50 1000
Length:  544442

Tables:   1   2   3   4   

This is table  3  of  4  ( 396 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)
375636--375661	13	2.0	13	100	0	52	84	15	0	0	0.62
376689--377336	27	23.7	27	91	3	985	23	34	14	28	1.93
376689--377336	55	11.9	54	90	3	985	23	34	14	28	1.93
376689--377336	82	7.9	81	91	2	1003	23	34	14	28	1.93
377322--377764	32	13.8	32	93	0	717	31	32	18	16	1.94
379007--379041	16	2.1	17	89	5	54	82	0	17	0	0.66
379013--379042	10	3.0	10	95	0	51	86	0	13	0	0.57
383434--383484	16	3.2	16	77	5	59	49	17	7	25	1.74
383426--383498	32	2.3	32	79	11	80	46	19	8	26	1.77
384256--384332	39	2.0	39	94	0	136	37	19	6	36	1.78
385842--386109	134	2.0	134	91	1	439	39	8	12	39	1.73
389428--389452	2	12.5	2	100	0	50	0	0	48	52	1.00
390283--390307	2	12.5	2	100	0	50	0	0	48	52	1.00
391141--391165	2	12.5	2	100	0	50	0	0	48	52	1.00
387744--391948	856	4.9	855	95	1	7430	32	15	19	32	1.93
393137--393195	17	3.5	17	76	13	59	64	0	0	35	0.94
393165--393193	9	3.2	9	100	0	58	68	0	0	31	0.89
393333--393436	28	3.7	28	72	15	72	45	0	1	52	1.11
393341--393430	28	3.0	31	72	20	82	42	0	2	55	1.12
393851--393906	22	2.5	22	82	0	67	44	14	3	37	1.62
393866--393917	22	2.2	25	80	16	65	42	15	7	34	1.75
394024--394056	2	16.5	2	100	0	66	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
394222--394316	22	4.3	22	75	10	95	51	11	3	33	1.54
394353--394413	21	2.9	21	87	0	86	39	16	1	42	1.58
394362--394422	21	2.9	21	80	9	70	40	13	3	42	1.60
394471--394510	21	1.9	21	89	0	62	45	5	7	42	1.54
394830--394893	22	2.9	22	74	4	56	53	15	1	29	1.52
395265--395289	12	2.1	12	100	0	50	60	16	8	16	1.58
397334--397390	18	3.2	18	76	11	55	19	12	3	64	1.40
397332--397398	19	3.6	19	75	11	59	22	10	2	64	1.39
397676--397931	124	2.1	124	93	1	435	33	13	14	38	1.85
398070--398215	39	3.7	39	72	12	127	32	12	12	43	1.79
399537--399586	21	2.4	21	83	10	66	36	0	6	58	1.23
399771--399824	21	2.7	20	80	5	54	55	3	0	40	1.17
399972--400030	21	2.8	21	75	17	68	28	6	10	54	1.59
400269--400314	24	2.0	23	83	12	58	58	6	0	34	1.24
400652--400685	17	2.1	16	94	5	59	47	0	0	52	1.00
400980--401038	21	2.8	21	74	23	61	49	5	6	38	1.52
401664--401730	19	3.4	19	78	10	64	58	0	1	40	1.07
401657--401705	18	2.8	17	78	9	62	67	0	0	32	0.91
401724--401753	15	2.0	15	100	0	60	60	0	0	40	0.97
401996--402033	10	3.8	10	83	10	51	78	5	0	15	0.91
401990--402033	21	2.2	20	87	4	61	75	6	0	18	1.02
402408--402454	14	3.4	14	87	0	67	59	2	0	38	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
402794--402827	17	2.1	17	94	5	61	52	0	0	47	1.00
405884--405959	2	38.5	2	84	7	102	47	0	3	48	1.20
406052--406200	73	2.1	75	83	8	193	45	4	9	40	1.55
406554--406587	17	1.9	17	88	5	50	55	8	0	35	1.31
407483--407517	5	7.0	5	100	0	70	40	0	0	60	0.97
415190--415231	18	2.2	20	83	8	52	40	2	0	57	1.12
418047--418077	13	2.3	14	94	5	55	64	0	0	35	0.94
418235--418331	48	2.0	48	84	2	124	46	1	8	44	1.40
424333--424371	2	19.5	2	94	0	69	53	0	0	46	1.00
424758--425056	146	2.0	146	92	0	490	28	19	12	39	1.88
425240--425269	15	1.9	16	93	6	53	10	3	0	86	0.67
425256--425307	23	2.4	22	87	6	70	13	5	0	80	0.88
425817--426012	53	3.7	53	76	7	175	36	13	22	28	1.92
432392--432431	18	2.2	19	86	4	55	45	0	0	55	0.99
432391--432450	22	2.7	22	71	0	57	48	0	1	50	1.11
433088--433130	19	2.3	18	81	18	52	32	0	0	67	0.91
433340--433395	24	2.2	26	87	6	80	53	1	7	37	1.39
433464--433493	14	2.1	15	93	6	53	30	0	6	63	1.20
435343--435378	2	18.0	2	100	0	72	50	0	0	50	1.00
435643--435683	14	2.8	15	85	10	50	60	2	0	36	1.10
435725--435815	40	2.2	40	83	13	105	59	1	0	39	1.05
435769--435801	17	2.0	17	88	5	50	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
435725--435815	39	2.2	41	84	9	114	59	1	0	39	1.05
436212--436250	3	13.0	3	100	0	78	66	0	0	33	0.92
439499--439549	19	2.6	20	93	3	86	49	1	0	49	1.12
439499--439549	20	2.6	19	87	9	68	49	1	0	49	1.12
441901--441945	24	1.9	23	81	4	54	48	4	0	46	1.22
442027--442070	21	2.2	20	84	12	54	54	0	0	45	0.99
443137--443180	20	2.1	21	87	4	63	59	4	0	36	1.18
443284--443340	25	2.2	27	81	9	73	50	0	0	49	1.00
445112--445182	16	4.5	15	78	8	70	59	12	1	26	1.42
445117--445168	15	3.3	15	89	5	68	61	13	0	25	1.32
445159--445244	32	2.7	32	85	1	100	53	6	5	33	1.52
446305--446355	17	2.9	17	77	13	59	35	0	1	62	1.06
447153--447177	2	12.5	2	100	0	50	52	0	0	48	1.00
448150--448217	25	2.9	22	75	14	64	48	2	0	48	1.16
448234--448285	10	5.1	10	75	13	52	30	1	0	67	1.02
448799--448841	16	2.5	17	85	7	52	41	0	2	55	1.12
449304--449358	28	2.0	27	82	6	67	50	1	0	47	1.11
449722--449769	17	2.6	19	83	9	64	54	0	0	45	0.99
450713--450744	15	2.1	15	100	0	64	0	40	0	59	0.97
454295--454335	21	2.0	22	90	9	68	53	0	0	46	1.00
454301--454395	42	2.3	41	77	12	97	45	2	1	51	1.20
456545--456578	3	11.3	3	100	0	68	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
462132--462174	20	2.1	21	82	4	52	51	0	0	48	1.00
469890--470018	66	1.9	69	80	4	156	41	13	26	18	1.87
472637--472683	23	2.0	23	91	4	76	48	0	0	51	1.00
472642--472711	32	2.2	33	82	12	83	45	1	0	52	1.09
475648--475690	3	14.3	3	100	0	86	67	0	0	32	0.91
477086--477131	22	2.0	23	87	4	67	36	0	0	63	0.95
477320--477349	15	2.1	15	93	6	53	63	0	6	30	1.20
478091--478128	15	2.5	15	87	12	60	57	0	0	42	0.98
478455--478497	21	2.0	21	82	8	52	62	2	4	30	1.28
482116--482141	12	2.2	12	100	0	52	42	0	0	57	0.98
482125--482196	29	2.4	30	82	17	89	41	0	0	58	0.98
482125--482182	28	2.0	29	87	12	84	41	0	0	58	0.98
482570--482596	2	13.5	2	100	0	54	48	0	0	51	1.00
492611--492666	17	3.0	20	72	20	57	48	0	0	51	1.00
492619--492654	17	2.1	18	94	5	65	50	0	0	50	1.00
494488--494520	2	16.5	2	100	0	66	48	0	0	51	1.00
503940--503978	20	2.0	20	94	0	69	61	5	17	15	1.51
504113--504137	3	8.3	3	100	0	50	64	0	0	36	0.94
504434--504501	25	2.9	24	78	10	61	57	0	1	41	1.08
504833--504865	2	16.5	2	100	0	66	0	51	0	48	1.00
504967--505000	12	2.9	12	86	4	52	79	0	0	20	0.73
504969--505002	11	3.0	11	83	8	50	76	0	0	23	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
505639--505673	1	35.0	1	88	0	52	0	5	0	94	0.32
505628--505672	23	2.0	23	81	0	54	2	11	2	84	0.80
509707--509762	24	2.3	23	82	17	69	48	3	0	48	1.19
512259--512379	5	24.4	5	69	11	79	39	0	0	60	0.97
512259--512377	16	6.9	17	71	23	72	40	0	0	59	0.97
512292--512366	32	2.4	31	89	8	109	40	0	0	60	0.97
512320--512415	24	3.8	24	73	25	67	40	0	1	58	1.05
512317--512417	15	7.3	14	70	22	54	41	0	0	57	1.05
512811--512853	17	2.4	18	85	14	54	58	0	0	41	0.98
512840--512877	15	2.5	15	86	0	58	68	0	0	31	0.90

Tables:   1   2   3   4