genome.fa.s6691.2.7.7.80.10.50.1000.2.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: VEPZ01006691.1 Hibiscus syriacus cultivar Beakdansim tig00016637_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1195339

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 578 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)
304960--305058	28	3.6	29	77	14	93	5	15	0	79	0.89
306552--306587	10	3.7	10	88	7	56	61	0	22	16	1.35
306538--306601	19	3.3	19	82	8	67	56	1	20	21	1.51
318805--318838	16	2.1	16	88	0	50	23	8	41	26	1.83
325660--325966	80	3.8	80	88	5	440	32	25	20	20	1.97
331020--331393	80	4.7	80	89	0	498	30	25	20	23	1.99
335529--335555	14	1.9	14	100	0	54	44	14	7	33	1.73
336175--336296	42	2.9	42	89	3	176	43	8	10	37	1.69
339700--339752	3	17.3	3	84	11	72	33	0	0	66	0.92
339700--339759	26	2.3	27	91	5	97	35	0	0	65	0.93
339700--339759	12	4.9	12	80	11	68	35	0	0	65	0.93
345019--345057	20	2.0	20	84	0	51	41	33	10	15	1.81
345529--345564	18	2.0	18	100	0	72	22	33	16	27	1.95
346012--346059	2	24.0	2	83	8	53	45	4	2	47	1.33
350213--350279	27	2.4	27	72	2	62	26	10	4	58	1.50
350363--350387	13	1.9	13	100	0	50	24	0	0	76	0.80
352432--352489	29	1.9	31	86	6	84	17	17	8	56	1.64
354432--354473	5	8.8	5	80	19	54	80	0	19	0	0.70
354420--354472	9	5.9	9	84	8	72	79	3	16	0	0.88
355912--356028	55	2.1	55	93	1	198	31	20	11	35	1.89
356047--356371	39	8.4	39	88	1	438	31	17	15	36	1.91
356216--356276	19	3.0	21	63	28	51	39	13	14	32	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
358254--358285	13	2.5	13	94	0	55	25	0	0	75	0.81
360239--360264	9	2.9	9	100	0	52	80	0	0	19	0.71
360327--360406	40	2.0	40	86	9	112	55	8	5	31	1.52
360577--360629	2	26.5	2	100	0	106	50	0	0	49	1.00
360884--360926	18	2.5	17	81	7	52	69	2	2	25	1.12
360804--360927	62	2.0	62	81	12	148	61	2	4	32	1.28
360804--360934	65	2.1	64	80	11	146	60	3	3	32	1.33
361314--361415	34	2.9	36	89	7	172	27	14	13	44	1.83
361963--362728	105	7.3	105	92	2	1132	22	18	26	33	1.96
363305--363711	65	5.9	67	74	13	228	39	11	19	29	1.87
363451--363731	36	8.0	35	76	12	247	40	13	19	26	1.89
363399--363711	138	2.3	135	83	4	412	39	12	19	27	1.88
363487--363674	102	1.9	100	87	2	277	39	13	18	27	1.89
363593--363777	72	2.6	72	85	4	223	38	14	20	26	1.91
363601--363781	36	5.1	35	78	7	177	40	14	19	25	1.89
364211--364246	18	2.0	18	88	0	54	41	30	8	19	1.81
364663--364733	22	3.2	22	95	0	124	28	14	23	33	1.94
365384--365467	17	5.1	15	72	19	55	0	14	8	77	0.99
365400--365468	16	4.8	14	73	20	54	0	13	10	76	1.01
368499--368542	4	10.2	4	83	11	52	79	0	0	20	0.73
368499--368542	9	5.1	9	91	8	74	79	0	0	20	0.73
368497--368542	13	3.6	12	86	13	65	80	0	0	19	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
368592--368671	40	2.0	40	86	9	112	55	8	5	31	1.52
368841--368881	2	20.5	2	100	0	82	51	0	0	48	1.00
369136--369178	18	2.5	17	81	7	52	69	2	2	25	1.12
369060--369179	60	2.0	60	81	12	140	61	2	4	31	1.28
369060--369186	63	2.1	62	80	11	138	60	3	3	31	1.33
369566--369667	34	2.9	36	89	7	172	28	13	13	44	1.82
370785--370841	27	2.1	27	83	6	71	33	12	8	45	1.72
371554--371588	17	2.1	17	94	0	61	60	0	2	37	1.12
372750--372790	18	2.3	18	91	0	64	24	48	14	12	1.78
372736--372796	31	2.0	31	86	0	86	22	45	14	16	1.84
375280--375352	24	3.1	24	88	2	112	26	17	20	35	1.95
376132--376204	24	3.0	24	88	4	94	49	16	12	21	1.78
376132--376218	24	3.6	24	80	11	81	48	16	13	21	1.80
382043--382083	18	2.3	18	86	0	55	21	48	17	12	1.79
382067--382108	13	3.2	13	90	6	50	19	40	19	21	1.92
384614--384704	24	3.8	24	82	2	103	25	15	20	38	1.92
386838--386880	18	2.4	18	84	7	52	18	44	18	18	1.87
389388--389469	24	3.5	24	86	3	112	29	15	19	35	1.93
389682--389728	2	23.5	2	95	0	85	46	0	2	51	1.13
394114--394199	24	3.6	24	82	3	102	26	17	18	37	1.93
395662--395721	31	1.9	31	89	0	93	16	43	16	23	1.87
395662--395697	13	2.8	13	95	0	63	16	47	16	19	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
398236--398317	24	3.5	24	81	3	103	26	15	19	37	1.92
400444--400479	13	2.8	13	100	0	72	16	50	16	16	1.79
400457--400494	18	2.1	18	90	0	58	18	47	18	15	1.83
400444--400505	31	2.0	31	90	0	97	16	45	17	20	1.86
403018--403099	24	3.5	24	81	3	103	26	15	19	37	1.92
405221--405268	18	2.7	18	83	0	69	20	43	16	18	1.88
406627--406661	18	1.9	18	88	0	52	48	2	20	28	1.63
407793--407883	47	1.9	48	86	2	130	25	16	19	38	1.92
407793--407883	24	3.8	24	82	2	112	25	16	19	38	1.92
408693--408718	3	8.7	3	100	0	52	69	0	30	0	0.89
409283--409348	28	2.4	28	84	5	89	42	27	0	30	1.56
409589--411676	6	352.8	6	96	3	3882	33	0	16	50	1.46
414728--414906	29	6.2	29	87	1	243	45	18	4	31	1.69
421984--422027	21	2.1	21	91	4	72	40	18	2	38	1.63
426547--426574	2	14.0	2	100	0	56	50	0	0	50	1.00
429660--429688	14	2.0	15	93	6	51	41	20	6	31	1.79
432852--432891	21	1.9	21	90	10	64	20	30	30	20	1.97
433442--433472	16	2.0	16	93	6	55	51	12	0	35	1.40
433659--433700	15	2.6	16	81	11	50	42	9	11	35	1.74
448979--449035	27	2.1	27	93	0	96	29	21	7	42	1.79
449275--449338	6	10.7	6	100	0	128	50	17	0	32	1.46
450765--450827	30	2.1	31	88	8	94	39	14	3	42	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
452380--452436	25	2.3	23	80	19	62	45	3	1	49	1.29
456991--457036	21	2.2	21	96	0	83	36	10	10	41	1.75
488912--489018	24	4.5	24	75	0	106	47	16	14	20	1.82
488912--489020	48	2.3	48	78	0	128	47	16	15	20	1.82
490102--490137	18	2.0	18	88	0	54	30	16	0	52	1.44
491473--491548	18	4.5	18	76	15	90	11	21	51	15	1.75
491467--491543	31	2.5	31	95	0	136	14	19	49	16	1.80
491452--491491	8	5.5	8	77	22	52	20	25	40	15	1.90
491491--491526	13	2.8	13	91	0	54	13	16	50	19	1.79
491452--491496	13	3.3	13	90	6	63	17	24	42	15	1.88
505616--505648	16	2.0	17	94	5	59	69	0	0	30	0.88
505617--505659	17	2.6	16	85	7	50	65	2	0	32	1.06
506515--506547	16	2.1	16	100	0	66	57	24	12	6	1.57
506613--506687	10	7.7	10	69	21	61	57	21	12	9	1.62
506617--506681	16	4.1	16	95	0	121	56	23	12	7	1.61
508673--508714	22	1.9	22	95	0	75	9	26	45	19	1.80
508683--508732	17	2.9	17	100	0	100	10	24	48	18	1.78
508730--508807	19	4.1	19	79	14	88	26	28	26	17	1.98
508737--508806	10	7.3	9	82	7	77	27	28	28	15	1.96
508742--508806	29	2.3	27	84	7	67	27	29	27	15	1.96
516017--516066	17	2.9	17	100	0	100	10	24	48	18	1.78
516006--516048	22	2.0	22	95	0	77	9	25	46	18	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
516064--516141	19	4.1	19	79	14	88	26	28	26	17	1.98
516064--516112	10	5.1	10	78	11	50	24	30	26	18	1.98
516068--516161	9	9.7	10	76	11	81	28	25	26	19	1.98
516063--516160	29	3.4	28	80	8	90	28	25	27	18	1.98
517169--517199	14	2.2	14	94	0	53	54	22	12	9	1.67
517149--517225	24	3.2	24	87	3	93	57	20	9	12	1.63
519707--519740	17	1.9	18	94	5	61	70	0	0	29	0.87
521048--521087	2	20.0	2	100	0	80	50	0	0	50	1.00
523164--523251	24	3.7	23	80	7	88	47	18	13	20	1.82
523184--523248	12	5.5	11	74	18	60	46	18	18	16	1.85

Tables:   1   2   3   4   5