genome.fa.s354.2.7.7.80.10.50.1000.3.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: Scaffold354
Parameters: 2 7 7 80 10 50 1000
Length:  564417

Tables:   1   2   3   4   

This is table  3  of  4  ( 368 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)
351761--351816	19	2.9	19	84	10	78	35	16	14	33	1.88
351800--351826	13	2.1	13	100	0	54	40	14	14	29	1.86
352419--352468	24	2.1	24	100	0	100	36	24	12	28	1.91
360548--360605	19	3.1	18	88	11	89	32	17	15	34	1.91
360589--360615	13	2.1	13	100	0	54	40	14	14	29	1.86
360570--360634	32	2.0	32	90	3	103	40	15	15	29	1.88
364317--364342	13	2.0	13	100	0	52	30	15	15	38	1.88
365040--365083	21	2.1	21	83	8	54	25	31	4	38	1.76
366887--366938	13	4.0	13	94	0	95	38	13	15	32	1.86
369016--369046	15	2.1	15	93	0	53	12	22	16	48	1.80
370850--370894	21	2.1	21	84	8	56	22	20	4	53	1.63
373112--373137	13	2.0	13	100	0	52	30	15	15	38	1.88
374485--374546	17	3.6	17	80	6	72	77	1	11	9	1.06
374492--374546	16	3.4	16	78	14	67	78	1	10	9	1.05
378575--378681	53	2.0	53	96	0	196	45	17	12	24	1.82
381402--381710	56	5.5	56	77	7	229	39	14	21	24	1.91
381408--381615	57	3.7	56	83	6	235	39	14	23	22	1.90
385211--385357	30	4.9	30	80	11	165	4	18	34	43	1.69
385295--385350	18	3.4	18	70	27	61	3	19	37	39	1.69
385275--385355	15	5.4	15	70	11	67	4	17	35	41	1.71
385682--385718	16	2.3	16	90	0	56	16	29	18	35	1.93
385975--386017	19	2.3	19	92	4	70	48	11	20	18	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
386219--386270	22	2.3	23	86	3	70	19	0	5	75	1.01
386249--386286	18	2.1	18	90	9	60	28	2	0	68	1.03
386747--387172	127	3.4	127	78	5	414	35	18	27	18	1.94
386988--387270	84	3.4	83	84	2	343	33	19	29	17	1.95
386747--387272	42	12.5	42	73	7	242	35	18	28	18	1.94
387306--387449	42	3.4	42	70	14	107	38	19	25	16	1.92
387138--387416	150	1.9	150	83	1	371	36	19	27	16	1.93
387276--387498	84	2.6	84	78	3	207	39	18	24	17	1.92
387042--387506	234	2.0	235	84	1	610	36	18	26	17	1.93
387428--387508	43	1.9	42	82	7	101	38	16	22	23	1.93
395430--395455	13	2.0	13	100	0	52	38	15	15	30	1.88
395412--395475	33	2.0	33	90	3	103	42	17	14	26	1.87
399279--399343	21	3.6	19	73	26	70	43	15	12	29	1.83
399297--399322	13	2.0	13	100	0	52	38	15	15	30	1.88
399279--399343	34	2.0	33	93	6	114	43	15	12	29	1.83
401306--401355	21	2.3	21	80	10	57	56	4	18	22	1.58
403153--403183	15	2.1	15	93	0	53	48	16	22	12	1.80
405262--405299	13	2.9	13	92	0	58	36	15	15	31	1.90
411284--411359	20	3.5	21	73	16	66	28	14	15	40	1.87
413893--413918	13	2.0	13	100	0	52	38	15	15	30	1.88
413875--413938	33	2.0	33	90	3	103	42	17	14	26	1.87
418544--418576	17	1.9	17	93	0	57	57	9	15	18	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
419533--419682	30	5.1	29	75	5	106	9	17	30	43	1.80
419537--419687	60	2.5	59	83	1	185	8	17	31	43	1.79
420283--420325	19	2.3	19	92	4	70	48	11	20	18	1.79
420548--420589	16	2.7	16	85	3	50	14	0	4	80	0.86
420566--420616	12	4.1	12	78	14	50	23	1	0	74	0.92
421248--421285	20	1.9	20	94	0	67	34	18	7	39	1.80
424879--424912	9	3.8	9	88	11	52	82	0	17	0	0.67
425598--425802	57	3.6	56	79	10	213	25	14	14	45	1.83
426148--426290	76	1.9	76	84	5	191	32	16	18	32	1.93
430763--430840	40	2.0	40	86	0	111	35	10	10	43	1.73
432327--432371	13	2.9	17	75	25	62	42	13	13	31	1.82
432342--432396	13	3.8	13	75	25	56	36	12	18	32	1.88
432325--432419	19	5.8	18	70	25	68	35	13	15	34	1.87
432327--432424	32	3.1	32	91	2	146	36	13	16	33	1.87
432462--432486	13	1.9	13	100	0	50	32	16	16	36	1.90
432495--432623	52	2.5	52	92	0	213	37	17	17	28	1.92
439443--439543	43	2.3	43	98	0	193	31	17	21	28	1.96
439529--439584	19	2.9	19	86	2	76	37	17	14	30	1.90
439569--439595	13	2.1	13	100	0	54	40	14	14	29	1.86
439550--439614	32	2.0	33	87	3	96	44	13	13	27	1.82
445385--445929	79	7.1	78	76	8	454	28	23	10	37	1.88
445420--445875	150	3.0	151	81	7	424	29	23	9	37	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
445934--446655	79	9.2	79	80	5	732	28	24	12	35	1.91
445980--446655	157	4.3	155	82	6	756	28	24	11	35	1.90
445934--446658	236	3.1	235	83	5	853	28	24	12	35	1.91
446592--446703	50	2.3	50	84	4	138	27	25	10	36	1.89
457790--457842	13	4.5	13	71	26	55	33	13	16	35	1.88
457774--457842	33	2.1	33	86	5	95	33	13	17	36	1.88
463788--464044	129	2.0	129	94	0	451	27	7	19	46	1.76
465985--466031	22	2.1	22	88	0	67	31	6	31	29	1.83
465992--466047	22	2.5	22	91	0	85	39	3	33	23	1.72
466592--466616	13	1.9	13	100	0	50	32	20	16	32	1.94
466668--466720	20	2.7	20	88	5	72	33	13	18	33	1.90
470580--471129	166	3.3	163	78	8	465	49	9	11	30	1.69
473063--473121	20	3.1	19	78	7	66	81	1	15	1	0.86
473065--473122	27	2.2	26	87	6	82	81	1	15	1	0.86
473884--474307	57	7.4	57	72	12	264	25	11	14	48	1.77
473998--474329	172	1.9	172	79	8	372	25	9	15	49	1.74
474202--474296	28	3.3	28	68	8	66	25	12	13	48	1.78
474398--474485	29	3.0	29	69	12	90	22	11	20	45	1.83
474395--474541	29	5.1	29	66	18	81	24	9	21	44	1.81
474313--474563	58	4.3	57	79	2	234	26	7	19	46	1.77
480926--481092	92	1.8	91	81	3	210	36	8	14	40	1.76
483255--483291	18	2.1	18	90	5	58	40	18	2	37	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
483426--483451	10	2.6	10	100	0	52	26	11	7	53	1.63
483898--484025	58	2.2	58	83	2	150	23	9	17	49	1.76
484212--484396	58	3.2	58	82	3	203	26	9	17	46	1.79
484212--484432	116	1.9	116	80	5	259	27	10	15	47	1.78
485712--485767	21	2.8	20	81	5	69	37	12	17	32	1.88
499110--499509	198	2.0	198	99	0	791	30	26	18	24	1.98
499952--500109	8	19.0	8	74	17	119	82	13	3	0	0.78
499952--500092	4	36.0	4	79	13	100	82	13	3	0	0.78
499953--500097	1	145.0	1	68	0	83	84	12	3	0	0.75
499953--500100	34	4.3	34	84	10	169	83	12	3	0	0.76
501612--501682	29	2.4	29	92	0	115	33	30	15	19	1.93
501612--501714	29	3.5	29	86	5	109	33	31	15	20	1.94
501903--502337	52	8.6	51	76	9	412	23	26	17	32	1.97
501820--502337	101	5.2	100	85	5	605	23	26	17	31	1.97
507547--507586	18	2.2	18	100	0	80	20	15	35	30	1.93
508698--508736	20	2.1	19	85	9	53	43	10	23	23	1.84
509622--509697	31	2.5	31	88	0	116	46	5	19	28	1.72
514743--514855	45	2.5	46	84	7	140	5	32	2	59	1.34
516619--516682	20	3.2	20	68	18	53	54	1	0	43	1.09
516707--516791	23	3.8	22	77	11	91	64	2	0	32	1.06
516708--516816	46	2.3	47	87	4	150	63	3	0	33	1.12
517144--517176	17	2.0	17	88	5	50	33	3	9	54	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
520021--520071	15	3.2	16	80	8	59	25	1	1	70	1.08
520021--520070	20	2.8	18	79	11	50	24	2	2	72	1.06
523451--523477	2	13.5	2	100	0	54	0	51	0	48	1.00
533732--533793	31	2.0	31	93	0	106	19	29	6	45	1.75
534669--534697	2	14.5	2	100	0	58	51	0	0	48	1.00
536342--536687	78	4.4	78	78	5	340	36	15	21	26	1.93
536360--536691	79	4.2	79	80	3	353	37	15	20	26	1.93
539719--539936	42	5.3	42	76	8	198	39	12	24	23	1.89
539728--539936	83	2.5	83	78	9	196	40	11	24	23	1.87
539923--540491	61	9.4	61	81	6	586	27	18	27	27	1.98

Tables:   1   2   3   4