genome.fa.s9.2.7.7.80.10.50.1000.3.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: Scaffold9
Parameters: 2 7 7 80 10 50 1000
Length:  3883850

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   

This is table  3  of  24  ( 2830 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)
325644--325683	20	2.0	20	100	0	80	85	0	5	10	0.75
325691--325747	21	2.7	21	97	0	105	33	10	19	36	1.86
325803--325870	19	3.9	19	78	21	85	35	11	14	38	1.83
325824--325848	13	1.9	13	100	0	50	36	16	16	32	1.90
325805--325867	32	2.0	32	96	0	117	34	12	15	36	1.86
325910--325935	13	2.0	13	100	0	52	30	15	15	38	1.88
325890--325956	33	2.0	33	88	0	98	25	14	16	43	1.86
328355--328427	27	2.7	27	87	6	94	23	34	21	20	1.97
328410--328580	51	3.3	51	78	4	189	28	26	11	32	1.92
328563--328644	28	2.9	28	82	7	96	24	31	17	26	1.97
335793--335822	13	2.2	14	94	5	53	33	13	16	36	1.88
335773--335841	32	2.1	33	91	2	113	33	11	17	37	1.86
335879--335903	13	1.9	13	100	0	50	32	16	16	36	1.90
335793--335976	86	2.2	84	82	8	212	34	16	15	33	1.90
335912--336040	52	2.5	52	94	0	231	35	17	17	28	1.93
339462--339515	20	2.6	22	82	8	69	40	14	14	29	1.86
341288--341330	21	2.0	21	82	8	52	37	2	2	58	1.24
342010--342674	79	8.4	77	80	6	555	27	23	12	37	1.90
342010--342663	158	4.1	160	80	5	643	27	23	12	37	1.90
343605--343640	17	2.1	17	100	0	72	27	5	25	41	1.77
351443--351467	13	1.9	13	100	0	50	36	16	16	32	1.90
351422--351486	19	3.7	19	73	23	70	33	12	15	38	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
351424--351502	32	2.5	32	91	2	124	34	13	16	35	1.88
351559--351687	52	2.5	52	89	0	204	36	17	17	28	1.93
356394--356456	18	3.3	18	75	16	56	50	0	0	49	1.00
356698--356730	7	5.0	7	96	3	52	84	0	0	15	0.61
360738--360779	21	2.0	22	81	13	52	33	19	9	38	1.84
362020--362078	29	2.0	29	93	0	100	37	11	22	28	1.89
363299--363415	52	2.2	52	89	3	182	41	12	16	29	1.85
363368--363450	31	2.6	32	90	1	132	36	14	16	32	1.89
364406--364463	31	1.9	31	86	10	84	32	22	13	31	1.93
364699--364778	40	2.0	40	100	0	160	25	17	12	45	1.83
365006--365075	24	2.9	24	87	4	97	45	10	22	21	1.81
368477--368519	21	2.1	20	87	12	61	23	20	0	55	1.43
370074--370169	32	3.0	31	77	16	106	32	26	10	31	1.90
370079--370168	36	2.6	36	83	8	118	33	24	11	31	1.90
370628--370699	24	3.0	24	87	0	108	44	9	22	23	1.82
370824--370860	18	2.0	19	94	5	67	27	16	21	35	1.94
380630--380661	14	2.3	14	94	0	55	84	0	15	0	0.63
380629--380670	13	3.4	13	80	12	61	78	0	21	0	0.75
381513--381549	16	2.3	16	90	9	58	78	0	0	21	0.75
382065--382174	52	2.1	52	82	0	130	29	15	12	42	1.84
384626--384678	26	2.0	26	85	7	72	26	24	15	33	1.95
390674--390725	20	2.5	20	84	3	68	30	9	13	46	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
392098--392187	41	2.2	41	89	0	135	38	8	2	50	1.46
392519--392591	13	5.3	13	69	23	51	31	6	10	50	1.64
392532--392580	15	3.4	15	73	21	59	34	6	10	48	1.62
392515--392591	28	2.8	28	97	0	145	33	6	11	48	1.66
392515--392586	15	5.1	15	69	23	57	36	5	12	45	1.65
392622--392687	24	2.5	26	76	11	64	31	10	7	50	1.65
398013--398108	20	4.8	20	78	8	97	37	16	14	31	1.89
398168--398193	13	2.0	13	100	0	52	38	15	15	30	1.88
398150--398213	33	2.0	32	87	3	92	40	20	12	26	1.88
404352--404387	13	2.8	13	95	0	63	30	13	19	36	1.91
406193--406282	41	2.2	41	87	0	126	35	3	24	36	1.72
406206--406288	41	2.0	41	97	0	157	30	2	20	46	1.63
406940--407003	33	2.0	32	87	3	92	40	20	12	26	1.88
408223--408262	15	2.7	16	81	14	50	72	0	0	27	0.85
409685--409918	97	2.4	97	89	0	351	31	11	26	30	1.92
422872--422948	28	2.8	28	82	7	77	23	18	33	24	1.96
422931--423151	51	4.3	51	83	1	253	32	11	26	29	1.92
423137--423233	28	3.5	28	89	0	140	22	19	35	22	1.96
423222--423343	51	2.4	51	83	6	149	32	10	23	32	1.89
425779--425830	13	3.5	13	73	26	50	36	17	13	32	1.89
425787--425851	19	3.7	19	75	23	79	38	16	12	32	1.86
425779--425849	32	2.2	32	97	0	133	36	18	12	32	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
426587--427209	110	5.5	111	88	6	801	23	19	29	27	1.99
426587--427235	59	11.3	58	86	6	746	23	20	28	27	1.99
428221--428279	13	4.5	13	87	4	75	0	5	8	86	0.70
428220--428278	18	3.3	18	81	13	68	0	5	8	86	0.70
440278--440484	79	2.6	80	80	6	215	31	15	27	25	1.96
440439--440515	28	2.8	28	83	0	82	23	19	33	23	1.97
440498--440715	51	4.2	51	80	1	229	32	10	26	30	1.90
443048--443302	79	3.2	78	83	5	300	35	15	22	26	1.94
443236--443353	51	2.3	51	95	0	209	33	13	24	28	1.93
443157--443423	130	2.1	126	85	4	356	34	13	24	27	1.93
443287--443500	76	2.8	76	83	7	245	31	14	27	27	1.94
443442--443585	51	2.8	50	82	4	162	34	9	25	31	1.88
443080--443555	204	2.3	205	82	4	582	34	14	23	27	1.93
443471--443610	51	2.7	51	82	2	165	35	9	25	30	1.87
445910--445936	13	2.1	13	100	0	54	40	14	14	29	1.86
445990--446019	13	2.2	14	94	5	53	46	16	13	23	1.82
446735--446946	42	4.9	42	77	9	205	41	12	25	20	1.87
446917--447292	61	6.1	61	86	5	497	28	19	27	24	1.98
446932--447292	124	2.9	123	86	6	500	29	18	27	24	1.98
447354--447544	43	4.4	44	76	9	187	36	14	29	20	1.92
447297--447544	130	1.9	132	82	6	317	38	13	27	20	1.90
447531--448386	123	7.2	120	81	8	889	27	19	27	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
447591--448357	116	6.5	114	79	11	593	26	19	28	25	1.99
447884--448354	55	8.1	55	83	8	464	25	20	28	25	1.99
447520--448388	62	14.5	60	80	9	854	27	19	27	25	1.99
454474--454917	79	5.7	79	83	4	524	33	14	24	27	1.94
454893--455019	51	2.5	50	84	6	157	33	12	24	29	1.92
454462--454957	79	6.3	77	82	6	500	33	14	24	27	1.94
457362--457435	20	3.7	19	80	7	85	44	12	14	28	1.81
457454--457478	13	1.9	13	100	0	50	44	16	16	24	1.86
457910--457934	13	1.9	13	100	0	50	32	16	16	36	1.90
458016--458079	33	2.0	32	87	3	92	39	18	14	28	1.90
464653--464697	20	2.1	22	88	8	67	17	48	28	4	1.66
466723--466784	33	1.9	32	90	3	97	40	22	11	25	1.87
468065--468092	13	2.2	13	100	0	56	39	17	14	28	1.89
468047--468112	33	2.0	33	85	5	89	40	12	16	30	1.85
469691--469761	31	2.3	31	85	4	90	18	25	29	26	1.98
469750--470043	29	10.4	28	87	5	335	22	14	28	35	1.93
477165--477239	20	3.8	19	82	7	96	41	12	13	33	1.81
477162--477239	40	2.0	39	92	2	129	41	12	12	33	1.82
485459--485664	94	2.1	94	87	7	299	30	12	28	29	1.93
487359--487412	11	4.6	12	84	11	76	0	20	1	77	0.86
487358--487412	13	4.6	11	83	16	74	0	20	1	78	0.85
487359--487412	24	2.3	23	93	3	90	0	20	1	77	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
489999--490034	4	8.8	4	87	6	54	77	0	2	19	0.88
497005--497055	4	12.8	4	81	8	59	72	1	0	25	0.95
497011--497065	28	2.0	28	100	0	110	69	3	0	27	1.05
505408--505463	9	5.7	10	78	17	64	78	0	19	1	0.84
508964--509003	19	2.1	19	86	9	55	20	25	12	42	1.86
509050--509287	51	4.7	51	72	9	171	23	16	23	35	1.95
509205--509389	51	3.6	50	76	5	140	28	15	17	38	1.90
509050--509332	153	1.8	153	80	3	336	24	16	23	36	1.94
509414--509526	51	2.2	51	81	4	131	24	20	18	36	1.95
509451--509576	52	2.4	52	85	1	164	26	17	19	36	1.94

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24