genome.fa.s7800.2.7.7.80.10.50.1000.2.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: VEPZ01007800.1 Hibiscus syriacus cultivar Beakdansim tig00110114_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4652821

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

This is table  2  of  23  ( 2671 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)
266749--266842	21	4.5	21	77	5	91	46	28	0	24	1.53
266763--266850	35	2.5	35	78	7	90	46	28	0	25	1.53
266789--266863	35	2.1	35	85	9	100	44	28	0	28	1.55
267117--267158	11	3.1	14	77	22	54	40	0	4	54	1.21
268524--268567	13	2.9	17	68	31	53	43	0	0	56	0.99
272713--272765	16	3.2	15	78	19	52	60	0	1	37	1.08
273314--273471	21	7.8	20	72	7	86	38	25	17	18	1.92
273438--273707	20	13.5	20	81	6	269	37	25	17	20	1.94
274390--274436	24	2.0	24	87	8	69	25	14	21	38	1.92
276933--277166	72	3.3	72	80	8	277	46	16	22	14	1.84
276919--277188	105	2.6	103	90	7	368	45	17	22	14	1.84
276919--277188	53	5.1	52	87	8	388	45	17	22	14	1.84
276900--277193	72	4.2	68	77	13	258	44	17	22	14	1.85
277165--277280	53	2.2	52	86	3	160	18	23	18	38	1.93
277203--277290	19	4.8	19	82	14	123	13	22	15	47	1.81
277381--277417	14	2.6	14	91	0	65	45	21	0	32	1.52
279342--279462	19	6.6	19	81	10	135	45	23	19	11	1.83
279458--279586	19	7.3	19	75	17	125	8	17	28	45	1.77
279458--279549	33	2.8	33	93	3	150	7	18	28	45	1.76
279634--280288	93	7.1	93	99	0	1294	46	19	12	21	1.83
281995--282084	14	5.7	14	72	23	72	43	23	24	8	1.82
281987--282101	33	3.5	33	97	0	221	46	20	23	9	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
282009--282106	19	5.7	19	71	22	90	43	22	23	10	1.83
282125--282202	41	1.9	41	97	0	147	12	25	16	44	1.83
282126--282201	21	3.7	21	83	3	109	11	25	17	46	1.82
282281--282351	33	2.2	33	92	0	115	47	18	22	11	1.80
282533--282587	22	2.5	22	81	0	74	20	16	40	23	1.91
282734--282848	20	5.7	20	83	6	160	20	18	26	33	1.96
282736--282891	40	3.9	40	84	6	183	19	17	26	37	1.93
282736--282867	20	6.6	20	81	6	142	19	17	26	36	1.94
282835--282888	20	2.7	19	82	5	63	12	18	24	44	1.85
282874--282956	21	4.0	21	73	6	78	25	16	24	33	1.96
283145--283432	144	2.0	144	90	0	450	42	17	7	32	1.77
285710--285757	18	2.8	17	84	6	62	37	2	31	29	1.69
286300--286402	33	3.1	34	88	7	165	46	31	8	13	1.74
286310--286417	33	3.3	31	84	10	144	42	33	9	14	1.78
286594--286724	64	2.1	63	83	9	160	35	19	19	25	1.95
286594--286724	63	2.1	64	83	9	162	35	19	19	25	1.95
287998--288031	17	2.0	17	94	0	59	38	0	0	61	0.96
295136--295177	18	2.3	18	80	8	50	23	0	2	73	0.94
295779--295822	21	2.0	23	82	8	56	36	4	6	52	1.49
299209--299316	36	3.0	36	86	5	148	37	19	21	21	1.94
319528--319567	21	1.9	21	85	10	55	32	2	0	65	1.06
335091--335137	3	16.0	3	95	4	87	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
340379--340796	208	2.0	210	99	0	822	29	24	22	23	1.99
362307--362340	12	2.8	12	90	0	59	26	2	0	70	1.01
374114--374153	17	2.4	17	86	0	53	7	7	5	80	1.03
384114--384406	152	1.9	152	96	0	541	33	24	15	26	1.95
386245--386273	12	2.3	13	94	5	51	31	0	0	68	0.89
388041--388083	18	2.2	20	88	8	63	20	44	23	11	1.84
388063--388092	15	2.0	15	93	0	51	16	33	26	23	1.96
390520--390591	24	3.0	23	78	13	74	23	11	15	50	1.76
395079--395170	12	7.8	12	74	11	73	19	15	18	46	1.84
395065--395174	24	4.6	23	75	10	96	20	15	17	47	1.83
397550--397675	43	2.9	43	98	0	243	25	11	7	55	1.62
431419--431510	7	13.4	7	73	11	75	45	34	0	19	1.51
431419--431515	14	7.1	14	77	14	105	46	32	0	20	1.51
431419--431510	28	3.4	28	86	7	136	45	34	0	19	1.51
434102--434141	20	2.0	20	100	0	80	30	30	0	40	1.57
437019--437062	21	2.2	20	84	12	54	47	4	2	45	1.35
440437--440498	31	2.2	28	81	16	74	17	24	29	29	1.97
443341--443392	24	2.2	24	86	3	79	40	0	0	59	0.97
444367--444417	18	2.7	20	77	17	54	45	3	3	47	1.40
448629--448656	2	14.0	2	100	0	56	50	0	0	50	1.00
448871--448901	14	2.1	15	94	5	55	29	6	3	61	1.37
452333--452365	3	11.0	3	100	0	66	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
452894--452936	15	2.9	15	89	0	68	30	11	23	34	1.90
452993--453021	15	1.9	15	100	0	58	34	24	13	27	1.93
453246--453350	56	1.9	55	92	2	174	35	11	18	35	1.86
461112--461229	60	2.0	61	93	1	202	32	11	8	48	1.69
465570--465614	21	2.1	21	83	0	54	33	28	22	15	1.95
467291--467606	103	3.1	103	94	0	542	26	12	23	37	1.91
467623--467666	23	1.9	23	90	0	70	22	29	22	25	1.99
467624--467685	23	2.7	23	79	0	61	24	27	20	27	1.99
470033--470057	2	12.5	2	100	0	50	52	0	0	48	1.00
470928--470972	21	2.1	21	87	0	63	31	28	24	15	1.96
474213--474283	33	2.2	33	80	12	83	47	7	15	29	1.71
478144--478204	22	2.8	22	78	9	63	27	32	22	16	1.96
478190--478229	19	2.1	19	85	0	53	20	37	30	12	1.89
481730--482045	103	3.1	103	96	0	569	26	13	23	36	1.92
482062--482129	23	3.0	23	86	0	91	20	26	26	26	1.99
487450--487685	81	2.9	81	77	5	235	31	13	21	33	1.92
488509--488549	22	1.9	21	90	5	64	24	0	4	70	1.06
488824--488857	17	2.0	17	100	0	68	47	23	11	17	1.81
490991--491055	22	3.0	22	65	17	62	21	12	30	35	1.90
496010--496052	20	2.1	20	86	4	59	41	23	18	16	1.89
498546--498599	24	2.2	24	90	0	81	40	20	16	22	1.91
499493--499580	20	4.4	21	77	9	94	36	13	22	27	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
499493--499580	40	2.2	40	89	0	131	36	13	22	27	1.92
500176--500244	20	3.5	19	76	7	66	39	1	2	56	1.23
501986--502022	2	18.5	2	100	0	74	48	0	0	51	1.00
502084--502133	2	25.0	2	100	0	100	50	0	0	50	1.00
505310--505533	36	6.2	36	88	0	331	33	22	25	18	1.97
505310--505533	72	3.1	72	92	0	367	33	22	25	18	1.97
506503--506532	14	2.1	14	93	0	51	40	26	6	26	1.81
509979--510067	18	4.9	18	76	0	97	35	17	23	22	1.95
509968--510067	36	2.8	36	81	0	119	36	17	23	24	1.95
511118--511147	14	2.1	14	100	0	60	40	30	6	23	1.80
514012--514080	30	2.3	31	84	5	95	47	13	4	34	1.62
514024--514081	30	1.9	30	92	0	98	55	12	3	29	1.53
514612--514659	23	2.1	23	88	0	69	35	12	18	33	1.89
515034--515073	21	2.0	21	85	5	55	47	7	15	30	1.72
515076--515125	23	2.2	23	88	0	73	38	24	4	34	1.74
515465--515530	25	2.6	25	80	0	87	42	13	9	34	1.76
517995--518486	183	2.7	182	95	1	878	33	17	15	33	1.91
518526--518617	25	3.8	25	81	7	100	31	9	10	47	1.71
518535--518593	25	2.4	25	97	0	109	27	10	6	55	1.58
518541--518620	22	3.5	22	84	5	79	32	8	8	50	1.64
520036--520116	3	27.0	3	73	0	63	23	33	6	37	1.80
520040--520128	12	7.4	12	81	0	79	21	33	7	37	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
520036--520116	18	4.3	18	75	9	72	23	33	6	37	1.80
520052--520128	36	2.1	36	87	0	109	20	33	9	36	1.85
520070--520131	18	3.4	18	77	0	70	17	33	9	38	1.83
520040--520131	6	15.3	6	77	4	60	20	33	7	38	1.81
521711--522289	185	3.1	184	88	8	769	32	16	14	36	1.89
521895--522546	198	3.3	199	96	1	1173	30	16	15	37	1.90
522665--522713	19	2.6	19	86	0	71	55	10	4	30	1.52
524445--524491	23	2.0	23	100	0	94	34	48	0	17	1.47
524525--524590	33	2.0	33	90	0	105	22	48	0	28	1.51
524624--524688	21	3.1	21	79	0	76	16	30	13	38	1.88

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