genome.fa.s436.2.7.7.80.10.50.1000.4.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: Scaffold436
Parameters: 2 7 7 80 10 50 1000
Length:  700632

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 580 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)
417178--417215	13	2.9	13	92	0	67	84	0	15	0	0.63
418527--419203	155	4.4	155	83	5	751	23	18	19	38	1.93
418527--419211	310	2.2	309	84	4	873	23	17	19	38	1.93
421133--421163	16	1.9	16	93	0	53	83	0	12	3	0.75
420932--421482	272	2.0	272	99	0	1084	39	16	19	24	1.92
421405--421435	16	1.9	16	93	0	53	83	0	12	3	0.75
422414--422600	68	2.6	68	81	12	200	24	22	13	39	1.90
426682--426707	13	2.0	13	100	0	52	38	15	15	30	1.88
426664--426727	32	2.0	33	90	3	103	39	18	14	28	1.90
430858--430913	26	2.2	25	93	6	103	60	0	16	23	1.35
434329--435050	167	4.4	164	80	8	718	48	7	11	32	1.66
434329--435050	330	2.2	330	82	5	856	48	7	11	32	1.66
435994--436241	83	3.0	83	77	6	250	39	14	29	16	1.88
436740--436803	32	2.0	32	100	0	128	43	12	18	25	1.85
436776--437263	44	11.1	43	73	9	333	42	12	22	22	1.87
436612--436933	164	2.0	163	84	0	419	40	12	24	22	1.88
436768--437300	132	4.0	132	82	1	629	42	13	22	22	1.88
437657--437902	90	2.7	89	83	7	318	30	15	23	29	1.96
439115--439433	88	3.6	87	74	9	243	42	16	17	22	1.89
439398--439469	20	3.5	20	76	10	72	44	15	15	25	1.85
444491--444821	153	2.2	153	84	8	417	38	20	16	24	1.92
446089--446395	130	2.4	130	81	4	379	34	11	25	28	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
446118--446264	79	1.9	79	88	2	224	33	12	25	27	1.93
446250--446423	80	2.2	80	83	7	212	31	13	26	28	1.94
446379--446449	28	2.5	29	88	6	110	23	19	33	22	1.97
446250--446606	187	1.9	185	83	4	459	30	13	26	29	1.94
446406--446797	79	5.0	79	86	4	472	31	11	26	29	1.91
446408--446797	157	2.5	159	84	4	497	32	11	26	30	1.91
451812--451906	20	4.7	20	82	7	111	44	11	15	28	1.82
451832--452002	93	1.8	93	89	0	270	40	12	14	32	1.83
451925--451999	20	3.6	21	79	15	75	40	10	14	34	1.81
451793--452001	113	1.8	113	83	6	280	41	11	15	30	1.84
452713--452841	62	2.2	57	83	6	159	43	11	22	22	1.85
452983--453195	52	3.9	52	72	11	158	40	15	18	25	1.90
453060--453292	52	4.5	52	74	4	166	36	16	22	24	1.94
453433--453583	32	4.7	32	79	4	151	19	19	32	27	1.97
454193--454279	28	3.1	27	75	12	86	22	16	19	41	1.90
455186--455226	12	3.5	12	80	16	50	9	0	7	82	0.83
455191--455216	10	2.6	10	100	0	52	7	0	7	84	0.77
460697--460753	13	3.9	13	74	24	51	33	14	19	33	1.91
460676--460772	19	5.7	19	71	27	83	34	12	17	36	1.87
460677--460777	32	3.1	32	94	1	166	34	11	17	35	1.87
460815--460839	13	1.9	13	100	0	50	32	16	16	36	1.90
460729--460912	86	2.2	84	81	10	205	35	16	15	32	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
460848--460976	52	2.5	52	96	0	231	35	17	17	28	1.93
467697--467753	11	5.0	11	79	12	62	85	12	0	1	0.66
467697--467746	15	3.4	14	86	8	73	88	12	0	0	0.53
469092--469209	34	3.4	34	82	7	141	20	36	11	32	1.88
469201--469590	33	11.9	32	90	4	609	28	33	18	19	1.96
469201--469590	98	4.0	96	93	3	620	28	33	18	19	1.96
469201--469590	131	3.0	130	90	3	631	28	33	18	19	1.96
469590--470336	49	15.7	49	84	10	912	25	25	17	31	1.97
469590--470291	92	7.5	94	85	9	877	24	26	17	31	1.97
469591--470290	141	5.0	141	91	5	1059	25	26	17	31	1.97
470007--470336	101	3.4	100	89	5	471	24	24	17	33	1.96
470970--471066	13	5.7	19	70	27	74	34	11	17	37	1.86
470971--471071	32	3.1	32	92	1	157	34	10	17	36	1.85
471109--471133	13	1.9	13	100	0	50	32	16	16	36	1.90
471142--471270	52	2.5	52	96	0	231	34	17	18	29	1.94
477427--477456	6	5.0	6	91	0	51	80	0	0	20	0.72
477875--477993	55	2.2	55	96	1	222	47	12	8	31	1.71
478098--478404	159	1.9	159	91	0	497	40	14	11	33	1.82
485277--485332	23	2.5	23	79	20	66	33	0	1	64	1.04
487997--488031	2	17.5	2	100	0	70	51	0	0	48	1.00
491625--492052	166	2.6	163	83	5	549	27	10	8	52	1.65
492542--492580	14	3.0	13	82	10	53	82	0	12	5	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
492690--492732	12	3.6	12	90	0	68	72	0	25	2	0.97
493006--493063	30	1.9	30	100	0	116	12	5	34	48	1.63
494481--494801	156	2.1	155	85	1	428	23	18	21	37	1.94
498030--498055	13	2.0	13	100	0	52	30	15	15	38	1.88
500429--500475	21	2.3	21	76	23	55	42	4	19	34	1.70
500596--500634	13	3.0	13	96	0	69	35	15	17	30	1.91
500620--500698	20	3.7	20	78	15	77	44	15	15	25	1.85
502712--502742	15	2.1	15	93	0	53	12	22	16	48	1.80
506812--506837	13	2.0	13	100	0	52	30	15	15	38	1.88
508138--508163	13	2.0	13	100	0	52	38	15	15	30	1.88
510379--510423	21	2.1	21	84	8	56	53	4	20	22	1.63
512223--512253	15	2.1	15	93	0	53	48	16	22	12	1.80
514268--514347	20	3.8	20	75	15	79	26	15	15	43	1.85
514333--514371	13	3.0	13	96	0	69	30	17	15	35	1.91
516915--516940	13	2.0	13	100	0	52	38	15	15	30	1.88
519935--519974	20	2.0	21	95	5	73	37	10	20	32	1.85
519931--519981	20	2.5	21	81	15	70	37	7	19	35	1.81
520041--520160	52	2.3	52	82	5	136	34	13	10	42	1.77
521454--521543	32	2.8	32	84	1	108	44	26	12	16	1.83
521460--521544	16	5.2	16	76	7	73	43	27	12	16	1.84
522390--522449	16	3.7	17	78	10	63	46	31	10	11	1.73
522366--522454	32	2.8	32	78	1	97	49	28	8	13	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
522409--522459	16	3.1	16	82	2	57	52	33	5	7	1.54
527294--527422	52	2.5	52	96	0	240	34	18	17	28	1.94
533917--533942	13	2.0	13	100	0	52	38	15	15	30	1.88
536161--536205	21	2.1	21	84	8	56	53	4	20	22	1.63
540053--540132	20	3.8	20	75	15	79	26	15	15	43	1.85
540118--540156	13	3.0	13	96	0	69	30	17	15	35	1.91
542675--542700	13	2.0	13	100	0	52	38	15	15	30	1.88
543689--543934	61	4.0	60	81	5	237	35	11	28	24	1.91
543699--543930	122	1.9	122	81	3	279	35	12	28	23	1.91
551170--551225	19	2.8	20	78	5	69	35	14	14	35	1.86
551270--551300	13	2.4	13	94	0	53	35	16	12	35	1.87
551254--551320	33	2.0	32	83	11	82	38	13	16	31	1.87
557089--557139	20	2.5	20	83	0	75	31	13	13	41	1.84
557103--557240	51	2.7	52	81	5	158	30	18	11	39	1.86
560995--561359	154	2.3	155	82	6	400	38	17	14	29	1.90
561481--562000	167	3.1	164	85	4	654	42	12	11	34	1.78
562464--562758	149	2.0	150	97	0	565	45	12	9	31	1.75
564004--564029	2	13.0	2	100	0	52	50	0	0	50	1.00
569901--569977	20	3.8	20	77	6	66	41	14	11	32	1.82
570897--571355	56	8.0	56	81	6	492	22	17	30	29	1.97
570943--571340	144	2.8	141	82	6	471	22	17	31	29	1.96
570897--571327	201	2.1	203	83	5	552	22	17	30	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
570911--571360	28	15.7	28	82	6	447	22	16	31	29	1.96
572596--572645	6	8.8	6	78	12	61	0	0	16	84	0.63
572595--572646	16	3.2	16	89	7	79	0	0	15	84	0.62
572595--572648	22	2.3	24	84	9	76	0	0	18	81	0.69
580749--580814	33	2.0	33	85	5	89	39	12	18	30	1.87
590536--590650	36	3.1	35	79	14	110	20	22	15	41	1.89
590752--590938	81	2.3	81	83	3	232	22	26	12	37	1.90
590869--591056	44	4.6	44	71	16	131	22	28	12	36	1.90
590842--591056	117	1.8	116	91	4	351	23	28	13	34	1.93
590919--591034	36	3.2	37	71	9	103	23	28	13	34	1.93

Tables:   1   2   3   4   5