genome.fa.s5836.2.7.7.80.10.50.1000.3.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: VEPZ01005836.1 Hibiscus syriacus cultivar Beakdansim tig00013680_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  991970

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 705 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)
287597--287748	40	3.8	42	78	10	142	38	23	15	23	1.92
287671--287743	19	3.7	19	88	5	92	34	23	13	28	1.93
287878--287916	16	2.5	15	84	8	51	28	5	0	66	1.12
288659--288712	24	2.2	24	93	0	90	20	18	20	40	1.91
290972--291007	18	2.0	18	88	0	54	55	22	2	19	1.56
293334--293373	20	2.0	20	90	0	62	17	22	22	37	1.94
293376--293463	20	4.3	20	71	2	77	28	18	20	32	1.96
304767--304795	12	2.4	12	100	0	58	0	62	13	24	1.32
305239--305276	10	3.7	10	83	16	51	39	13	0	47	1.42
306658--306717	24	2.5	24	78	8	68	48	3	1	46	1.28
307167--307210	23	1.9	23	86	9	63	36	6	2	54	1.40
307573--307644	21	3.4	21	94	0	126	38	6	13	40	1.72
316338--316385	24	2.0	24	95	0	87	31	29	6	33	1.82
316730--316788	29	2.2	26	76	21	68	25	11	8	54	1.65
316886--316948	23	3.0	20	71	15	63	26	4	15	52	1.63
319118--319175	21	2.8	21	86	0	80	43	15	39	1	1.57
319513--319649	44	3.1	42	91	4	202	32	23	17	26	1.96
319670--319758	43	2.1	43	82	0	106	33	23	17	24	1.96
324696--324735	12	3.2	13	86	10	57	47	0	0	52	1.00
324697--324730	2	18.0	2	88	11	54	47	0	0	52	1.00
326613--326645	16	1.9	18	88	11	52	36	0	3	60	1.12
333568--333602	17	2.1	17	88	0	52	42	0	17	40	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
333881--333934	20	2.7	20	80	11	74	33	29	9	27	1.88
333944--333984	20	2.0	20	86	9	57	41	19	19	19	1.91
333936--334028	47	2.0	47	89	0	141	44	20	13	21	1.86
336651--336750	42	2.4	42	83	9	132	26	35	17	22	1.95
336651--336750	21	4.8	21	71	9	87	26	35	17	22	1.95
338114--338254	66	2.2	66	81	8	168	31	1	16	50	1.54
338565--338651	39	2.2	39	97	0	165	17	14	20	47	1.83
338955--338991	18	2.1	18	89	0	56	51	10	5	32	1.60
339378--339426	25	2.0	25	88	4	73	46	20	6	26	1.73
339487--339528	20	2.1	20	95	0	75	45	19	21	14	1.85
340616--340686	19	3.7	19	84	5	81	26	14	22	36	1.92
340634--340708	20	3.8	20	89	3	107	24	14	21	40	1.90
340699--340778	21	3.9	21	93	1	126	35	17	22	25	1.95
342360--342400	3	13.7	3	94	0	73	63	0	2	34	1.08
344056--344219	31	5.1	31	68	15	91	40	10	16	32	1.82
352151--352205	22	2.5	22	88	8	78	20	18	32	29	1.96
353238--354210	361	2.7	364	89	2	1437	40	13	17	27	1.88
353238--354210	182	5.4	182	89	2	1388	40	13	17	27	1.88
356655--356721	33	2.0	33	97	0	125	26	0	47	25	1.52
356907--356980	18	4.1	18	91	0	121	56	0	40	2	1.13
358519--358566	19	2.5	19	96	0	87	33	2	10	54	1.46
358831--360215	200	6.9	200	90	1	2121	38	11	14	35	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
360064--360350	149	1.9	148	82	6	357	37	12	15	34	1.85
359861--360513	347	1.9	348	82	5	820	39	12	14	33	1.84
362013--362065	6	8.8	6	89	0	61	39	1	30	28	1.67
363045--363107	11	5.5	11	80	10	72	36	9	9	44	1.70
363047--363121	36	2.1	36	97	0	141	36	6	10	46	1.65
363379--363417	15	2.6	15	87	0	51	38	17	7	35	1.79
363418--364183	199	3.8	198	81	4	921	37	13	16	31	1.88
363416--364183	400	1.9	400	92	2	1283	37	13	16	31	1.88
364821--365030	65	3.2	64	77	9	212	31	24	18	25	1.98
365008--365050	19	2.4	19	84	7	54	23	27	20	27	1.99
364908--365050	64	2.2	63	80	10	157	27	24	20	27	1.99
367840--367872	11	3.0	11	95	0	57	24	12	18	45	1.83
370666--370712	23	2.0	25	83	8	62	40	4	10	44	1.59
370852--370932	23	3.7	23	75	11	89	27	24	24	23	2.00
370833--370927	44	2.2	42	85	7	120	28	25	22	24	1.99
370851--370950	43	2.3	42	78	8	103	28	25	25	22	1.99
372126--372279	65	2.4	63	82	6	175	29	23	20	26	1.99
372267--372318	19	2.7	19	93	0	95	21	30	21	26	1.98
372157--372301	64	2.3	63	78	10	143	26	24	20	28	1.99
376028--376066	20	2.0	19	85	5	51	46	5	15	33	1.68
376199--376232	14	2.4	14	85	0	50	41	14	14	29	1.86
376451--376498	23	2.1	23	88	0	69	37	16	8	37	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
376451--376612	87	1.9	87	92	0	270	32	12	10	43	1.77
376730--376776	3	15.7	3	95	0	67	27	0	6	65	1.16
381905--382005	46	2.2	46	92	0	166	34	13	22	28	1.93
385626--385671	14	3.3	14	84	0	65	50	28	2	19	1.60
390187--390256	32	2.2	32	89	5	106	28	31	0	40	1.57
391008--391045	20	1.9	19	94	5	67	36	0	0	63	0.95
392382--392421	18	2.3	17	91	4	62	45	0	2	52	1.14
394860--394892	3	11.0	3	93	0	57	36	0	0	63	0.95
395551--395586	16	2.2	17	90	5	56	27	0	16	55	1.42
396812--396874	11	5.9	11	79	7	67	38	1	1	58	1.17
407700--407800	36	2.8	37	85	7	136	48	15	15	19	1.81
412977--413184	65	3.0	66	85	10	274	37	6	5	50	1.51
413050--413199	77	1.9	77	93	0	255	41	6	5	47	1.51
415370--415430	2	30.5	2	100	0	122	49	0	0	50	1.00
416628--416767	37	3.8	37	84	1	174	25	20	20	33	1.97
416630--416767	73	1.9	73	86	0	195	26	20	21	32	1.97
416814--416900	41	2.1	42	86	4	122	34	17	19	28	1.94
416873--416943	22	3.3	22	67	15	67	36	21	15	26	1.93
416878--417074	42	4.8	42	70	13	167	31	21	16	29	1.95
416978--417085	42	2.6	42	93	0	180	35	21	19	24	1.96
417017--417088	20	3.5	20	67	14	56	31	22	22	23	1.98
416992--417509	216	2.4	214	82	7	586	32	18	17	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
417451--417662	80	2.6	80	84	0	280	30	18	18	31	1.96
417899--417969	26	2.8	25	83	12	85	46	0	1	52	1.09
417876--418027	63	2.4	64	94	4	265	42	0	1	55	1.11
417857--418072	63	3.4	61	83	12	196	41	0	1	56	1.11
418537--418597	31	2.0	31	90	0	95	44	8	6	40	1.60
418921--419105	42	4.5	41	76	2	190	30	22	20	26	1.98
418921--419105	83	2.2	83	96	0	334	30	22	20	26	1.98
419251--419444	36	5.4	36	81	7	182	24	19	20	36	1.95
419251--419442	71	2.7	72	79	8	201	25	19	19	35	1.95
420206--420488	125	2.3	125	88	1	415	24	27	16	31	1.96
423607--423643	18	2.1	18	100	0	74	5	10	10	72	1.25
428423--428472	2	25.0	2	100	0	100	50	0	0	50	1.00
429369--429416	18	2.7	18	86	0	69	25	2	25	47	1.62
432506--432545	20	2.0	20	95	0	71	57	20	10	12	1.63
432531--432581	23	2.2	23	85	0	66	41	17	17	23	1.90
432542--432616	23	3.2	23	83	3	87	41	14	17	26	1.88
442125--442171	21	2.2	21	88	0	76	19	4	12	63	1.44
465467--465494	10	2.8	10	100	0	56	82	0	7	10	0.85
465506--465582	6	12.2	6	79	17	61	79	0	5	15	0.91
465509--465582	7	10.4	7	75	15	64	79	0	5	14	0.90
465559--465583	13	1.9	13	100	0	50	72	0	12	16	1.13
465642--465697	26	2.2	24	81	12	60	75	5	7	12	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
465835--465886	17	2.9	18	72	16	54	82	3	3	9	0.91
465847--465871	13	1.9	13	100	0	50	80	0	4	16	0.87
465837--465908	23	3.1	22	78	13	74	79	6	4	9	1.05
465821--465899	41	1.9	41	85	10	108	79	5	3	11	1.01
467522--468544	85	12.1	85	89	1	1441	25	19	21	34	1.96
472140--472173	17	2.0	17	88	0	50	64	0	17	17	1.29
473144--473184	6	6.7	6	97	2	73	68	0	0	31	0.90
473274--473319	19	2.3	20	81	3	58	73	4	6	15	1.19
473279--473319	20	2.0	20	86	9	57	78	4	4	12	1.07
473491--473537	18	2.7	18	83	3	60	78	0	12	8	0.95

Tables:   1   2   3   4   5   6