genome.fa.s313.2.7.7.80.10.50.1000.4.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: Scaffold313
Parameters: 2 7 7 80 10 50 1000
Length:  790584

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 630 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)
370439--371379	228	4.2	227	84	5	1138	20	31	12	35	1.90
371578--371645	21	3.2	21	63	19	50	25	29	17	27	1.97
371540--372094	48	12.2	47	73	14	414	25	26	19	29	1.98
371703--371954	39	6.0	39	74	15	198	26	24	21	27	1.99
371656--372002	87	4.0	87	95	0	595	25	25	20	28	1.99
372449--372523	20	3.8	20	80	0	96	33	13	12	41	1.81
372449--372526	40	2.0	39	89	2	120	33	12	12	41	1.82
379559--379606	15	2.8	17	84	15	64	75	8	10	6	1.20
383909--384026	52	2.3	52	94	2	202	29	17	16	35	1.93
384856--385091	107	2.2	107	84	3	318	35	17	24	22	1.95
384849--385329	52	9.8	54	80	10	342	32	17	25	24	1.97
385059--385334	43	6.1	43	83	9	318	30	18	26	25	1.98
385060--385127	21	3.2	20	66	25	50	29	16	27	26	1.97
385009--385316	92	3.3	92	88	6	403	30	18	26	25	1.98
385061--385331	135	2.0	135	94	0	479	29	18	26	25	1.98
385329--385561	33	7.2	33	91	4	384	18	18	35	27	1.94
385322--385561	64	3.7	64	92	3	394	18	18	35	27	1.94
385566--386087	34	16.6	32	70	19	307	33	13	33	19	1.91
385602--386095	61	7.9	60	76	14	375	31	13	34	20	1.91
386009--386068	27	2.2	27	91	5	95	31	13	35	20	1.91
386050--386164	31	3.6	31	77	9	88	31	12	32	24	1.92
385566--386164	34	19.0	30	68	17	195	32	13	33	20	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
385571--386095	157	3.3	157	92	2	833	32	13	33	20	1.91
386264--386309	8	5.6	8	92	5	65	26	6	23	43	1.78
394330--394454	52	2.4	52	94	0	214	28	16	19	36	1.93
394330--394473	52	2.8	51	88	4	200	29	16	19	34	1.94
394526--394560	18	1.9	18	100	0	70	54	11	11	22	1.68
394895--395244	27	12.8	27	84	3	405	26	31	14	28	1.94
395244--396518	28	44.3	28	80	9	1164	28	29	18	24	1.98
396595--396703	45	2.3	47	84	6	132	20	27	19	33	1.96
397091--397167	20	3.9	19	73	9	66	32	11	12	42	1.80
397091--397167	39	2.0	38	85	10	102	32	11	12	42	1.80
400982--401034	19	2.7	19	79	5	61	43	13	13	30	1.82
410159--410239	7	11.7	7	76	10	60	81	13	3	1	0.89
410157--410239	15	6.0	14	69	17	57	81	13	3	1	0.87
410155--410229	26	3.0	25	77	13	73	80	14	4	1	0.93
410160--410241	28	3.0	28	81	10	89	79	13	6	1	0.98
411378--411673	28	10.2	28	82	7	317	29	33	16	20	1.95
411378--411888	86	5.7	86	78	12	369	29	33	16	20	1.94
411378--411888	115	4.3	114	81	10	587	29	33	16	20	1.94
411605--411803	60	3.0	71	77	14	201	31	35	14	18	1.91
411676--411918	28	8.4	28	84	8	281	30	33	16	20	1.94
411575--411832	100	2.7	97	86	7	354	31	34	15	18	1.92
411906--411954	24	2.0	25	88	4	73	30	24	22	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
412066--412235	48	3.5	48	94	0	295	19	27	17	35	1.94
412852--413235	154	2.5	153	77	8	379	38	18	17	25	1.93
413553--413577	13	1.9	13	100	0	50	32	16	16	36	1.90
415926--415950	13	1.9	13	100	0	50	32	16	16	36	1.90
418289--418313	13	1.9	13	100	0	50	32	16	16	36	1.90
418301--418353	20	2.6	21	82	8	65	37	16	16	28	1.91
425029--425073	20	2.1	22	88	8	67	17	48	28	4	1.66
426014--426039	13	2.0	13	100	0	52	30	15	15	38	1.88
425994--426057	32	2.0	33	90	3	103	28	14	18	39	1.90
425994--426064	19	4.0	18	72	25	62	26	12	21	39	1.89
426813--426870	29	2.0	29	100	0	116	37	20	3	37	1.70
428157--428199	20	2.1	20	86	4	59	9	30	44	16	1.79
428641--428679	13	3.0	13	96	0	69	35	15	17	30	1.91
434752--434777	13	2.0	13	100	0	52	30	15	15	38	1.88
434732--434795	32	2.0	33	84	3	85	28	12	17	42	1.85
435239--435299	19	3.5	19	75	25	80	40	19	14	24	1.89
435255--435312	13	4.0	13	76	23	62	39	17	15	27	1.90
435239--435331	32	2.9	32	93	4	152	38	20	13	26	1.90
436199--436265	36	1.9	35	88	11	102	32	13	25	28	1.93
440594--441358	158	4.9	158	83	4	839	45	17	9	26	1.80
441109--441152	22	2.0	23	82	13	56	65	18	4	11	1.40
440594--441370	315	2.5	315	82	4	908	46	17	9	26	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
444490--444562	34	2.1	35	85	7	96	54	12	16	16	1.70
447567--447616	13	3.8	13	86	0	73	36	18	16	30	1.92
451664--451708	21	2.0	24	83	12	60	20	13	13	53	1.72
453766--453835	33	2.1	33	86	0	95	38	20	10	31	1.85
455943--456033	29	3.1	29	69	17	80	50	18	8	21	1.74
455927--456115	58	3.2	58	82	7	204	46	18	10	24	1.80
456955--457005	20	2.5	20	77	0	57	1	11	3	82	0.89
458374--458635	131	2.0	131	99	0	515	30	16	12	39	1.86
458721--458869	46	3.2	45	72	11	149	30	16	11	40	1.84
458604--458914	93	3.4	92	86	3	396	31	18	9	39	1.84
458659--458926	47	5.8	46	70	9	177	30	19	10	39	1.86
465215--465923	156	4.5	155	79	5	675	37	19	16	26	1.93
465215--465923	312	2.3	311	81	5	774	37	19	16	26	1.93
467899--468203	165	1.8	165	81	9	381	47	7	11	33	1.68
468399--468443	21	2.1	21	84	8	56	71	2	4	22	1.15
469524--469968	40	11.0	41	69	13	244	43	15	23	18	1.88
469524--469968	81	5.5	81	82	5	463	43	15	23	18	1.88
470019--470252	35	6.8	35	79	10	232	40	8	24	26	1.84
470008--470252	100	2.4	101	81	7	273	40	8	24	26	1.84
470865--471093	91	2.5	91	83	7	257	29	13	27	29	1.94
470865--471334	90	5.2	88	75	10	312	30	15	25	28	1.96
471683--471837	80	1.9	81	86	1	222	41	10	20	27	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
473202--473235	16	2.1	16	88	0	50	11	8	0	79	0.94
476644--476993	153	2.3	155	79	9	376	36	22	16	24	1.94
482662--482696	18	1.9	18	94	0	61	25	14	31	28	1.95
483363--483436	36	2.0	37	97	2	141	32	16	5	45	1.70
485915--485940	13	2.0	13	100	0	52	30	15	15	38	1.88
493413--493437	13	1.9	13	100	0	50	36	16	16	32	1.90
493390--493457	33	2.1	32	86	8	93	33	14	17	33	1.91
493390--493457	32	2.1	33	86	8	95	33	14	17	33	1.91
496918--497008	36	2.7	34	80	14	109	28	23	14	34	1.93
497475--497546	24	3.0	24	82	8	92	41	9	22	26	1.84
499544--499573	13	2.3	13	100	0	60	33	16	13	36	1.88
499561--499610	20	2.5	20	86	0	64	34	10	24	32	1.88
505706--505789	33	2.5	33	90	0	123	26	16	14	42	1.86
505744--505768	13	1.9	13	100	0	50	28	16	16	40	1.89
510933--510958	13	2.0	13	100	0	52	38	15	15	30	1.88
512806--512837	16	2.0	16	100	0	64	62	0	31	6	1.20
513576--513601	13	2.0	13	100	0	52	30	15	15	38	1.88
518494--519006	166	3.1	162	82	4	586	42	13	9	33	1.77
519616--519649	16	2.1	16	100	0	68	64	5	5	23	1.38
521042--521095	20	2.8	20	82	2	65	37	14	9	38	1.79
521973--521999	13	2.1	13	100	0	54	7	48	0	44	1.31
521991--522058	33	2.1	33	88	0	100	36	25	2	35	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
523910--523951	13	3.2	13	83	12	59	40	11	16	30	1.85
530610--530654	21	2.1	21	84	8	56	53	4	20	22	1.63
532458--532488	15	2.1	15	93	0	53	48	16	22	12	1.80
534567--534592	13	2.0	13	100	0	52	30	15	15	38	1.88
534713--534758	21	2.2	20	81	11	58	32	17	6	43	1.75
540039--540068	13	2.3	13	94	0	51	33	13	16	36	1.88
540016--540084	33	2.1	33	86	5	95	34	18	14	31	1.91
540113--540167	20	2.8	20	88	2	76	38	18	10	32	1.85
541465--541496	16	2.0	17	88	11	50	9	18	18	53	1.71
543918--543951	9	3.8	9	100	0	68	32	23	0	44	1.54

Tables:   1   2   3   4   5   6