genome.fa.s8240.2.7.7.80.10.50.1000.3.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: VEPZ01008240.1 Hibiscus syriacus cultivar Beakdansim tig00110888_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  893855

Tables:   1   2   3   4   5   

This is table  3  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)
343724--343753	16	1.9	15	93	6	51	20	40	26	13	1.89
344541--344665	9	14.0	9	66	18	57	21	4	0	72	1.08
344535--344709	23	7.8	23	67	20	79	22	4	1	71	1.13
344591--344631	15	2.7	15	92	3	64	19	7	0	73	1.07
344564--344697	37	3.6	36	77	15	103	23	5	1	69	1.19
355200--355238	21	1.9	20	89	5	60	41	0	10	48	1.37
356469--356501	16	1.9	18	88	11	52	60	3	0	36	1.12
365980--366023	22	2.0	22	95	0	79	34	0	2	63	1.07
366951--367019	24	2.8	25	86	6	97	28	15	7	47	1.72
370789--370822	2	17.0	2	100	0	68	50	0	0	50	1.00
373138--373175	18	2.1	18	100	0	76	26	23	15	34	1.95
373290--373320	9	3.4	9	100	0	62	32	48	0	19	1.49
376005--376115	50	2.2	50	93	3	188	25	12	31	30	1.93
376267--376298	9	3.6	9	100	0	64	71	18	0	9	1.12
385112--385154	15	2.9	15	82	6	52	69	2	13	13	1.28
389453--389570	59	2.0	59	96	0	218	42	6	16	33	1.75
392348--392482	35	3.8	35	86	3	166	39	18	20	21	1.93
392339--392482	71	2.0	71	86	5	202	40	17	20	21	1.91
394892--394924	6	5.5	6	100	0	66	18	48	0	33	1.48
411342--411864	157	3.3	157	97	1	962	43	20	13	22	1.87
413903--413959	23	2.5	24	70	18	57	63	3	0	33	1.12
421494--421586	49	1.9	48	88	2	141	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)
421543--421712	39	4.4	39	83	7	211	38	14	7	40	1.73
421455--421626	88	2.0	88	84	2	229	41	15	7	35	1.75
421543--421712	78	2.2	78	87	6	238	38	14	7	40	1.73
421776--421883	39	2.8	37	79	13	119	40	14	10	34	1.80
421796--421883	39	2.3	39	88	5	126	39	13	6	39	1.71
421948--422050	53	1.9	53	98	0	197	42	10	7	38	1.69
421911--422084	96	1.8	92	83	9	226	43	10	6	39	1.67
422047--422436	58	6.8	58	79	8	370	43	13	7	35	1.73
425302--425347	22	2.2	21	88	7	67	23	36	21	17	1.94
425335--425474	54	2.6	53	84	7	167	27	24	19	28	1.98
425443--425517	22	3.5	22	80	12	77	28	32	16	24	1.96
431618--431694	24	3.3	24	80	10	97	29	23	19	27	1.98
432234--432277	22	2.1	22	87	8	65	29	31	18	20	1.96
432265--432405	53	2.6	53	81	8	144	26	20	21	31	1.98
432300--432404	54	2.0	53	84	5	140	24	19	21	34	1.96
432369--432426	22	2.7	22	84	7	75	27	25	17	29	1.97
432374--432448	22	3.5	20	79	13	71	28	28	16	28	1.97
441472--441512	21	2.0	21	90	0	64	26	24	24	24	2.00
445460--445582	64	1.9	63	81	4	149	36	4	6	52	1.46
445519--445769	76	3.5	72	79	8	269	36	3	4	54	1.40
445519--445765	75	3.4	73	78	12	231	36	4	4	54	1.41
445803--445847	18	2.4	18	85	10	56	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
451311--451380	31	2.3	31	84	0	86	35	17	15	31	1.91
451464--451509	23	2.0	23	87	4	67	69	4	8	17	1.31
453798--454668	435	2.0	434	96	2	1626	37	18	14	30	1.90
460882--461252	134	2.8	134	81	2	440	31	23	15	28	1.96
462941--463012	23	3.3	22	81	13	78	31	25	16	26	1.96
463699--463735	16	2.3	16	95	0	65	24	35	8	32	1.85
465037--465072	17	2.1	17	89	0	54	36	16	5	41	1.72
466296--466375	30	2.7	30	98	0	151	28	16	15	40	1.88
466782--466855	28	2.6	28	89	4	96	18	5	12	63	1.47
468900--469025	2	63.0	2	100	0	252	50	50	0	0	1.00
469544--469620	20	3.7	20	74	17	59	28	23	16	31	1.96
469544--469601	20	2.7	20	81	10	62	27	20	18	32	1.97
473593--473670	21	3.7	21	70	13	61	25	14	20	39	1.90
473676--473719	21	2.1	21	82	0	52	18	13	29	38	1.89
475508--476773	639	2.0	640	88	1	1894	39	17	18	25	1.92
476708--476818	45	2.5	45	84	0	132	39	23	18	18	1.92
479001--479047	23	2.0	23	100	0	94	51	12	8	27	1.69
492266--492326	28	2.2	28	88	5	88	19	24	27	27	1.99
492270--492377	46	2.3	46	93	0	180	22	22	29	25	1.99
492298--492333	18	2.0	18	100	0	72	22	22	33	22	1.97
497638--497834	98	2.0	98	98	0	385	36	15	19	28	1.92
498289--498394	3	34.7	3	84	3	140	37	0	0	61	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
498738--498813	28	2.7	30	78	11	90	69	7	22	0	1.14
500507--500544	16	2.2	18	86	9	53	28	2	2	65	1.19
505130--505187	16	3.7	15	77	15	55	82	6	8	1	0.90
507168--507393	114	2.0	114	94	0	398	32	15	21	30	1.94
510715--510907	76	2.6	75	90	4	302	21	21	22	34	1.97
510842--510988	45	3.3	45	96	0	260	21	24	22	31	1.98
510931--511437	76	6.7	76	92	0	786	23	20	22	33	1.97
511571--511675	3	35.7	3	89	3	142	38	0	0	60	1.03
512018--512091	28	2.7	27	81	10	87	68	8	22	0	1.15
512758--512805	21	2.4	19	79	6	51	37	2	4	56	1.30
528460--528498	18	2.1	19	85	4	53	41	7	7	43	1.62
531525--531567	18	2.4	18	92	7	70	20	4	0	74	1.00
531587--531689	35	2.9	35	81	12	106	22	8	0	68	1.16
537086--537178	5	18.8	5	67	14	50	20	8	1	69	1.20
537086--537136	11	4.8	11	79	11	54	17	9	0	72	1.11
538989--539180	76	2.6	76	80	9	225	31	1	9	57	1.41
539794--539835	17	2.4	18	84	11	52	21	7	0	71	1.09
539900--539958	15	4.1	15	72	10	61	30	0	0	69	0.89
553427--553585	82	2.0	81	98	1	309	25	24	10	38	1.88
557137--557252	3	38.7	3	79	13	114	61	0	0	37	1.02
557383--557778	76	5.3	76	96	2	728	35	21	21	21	1.96
558439--558483	21	2.1	22	87	4	65	40	15	11	33	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
560240--560289	25	2.0	26	96	4	93	24	24	8	44	1.80
561040--561328	91	3.2	91	91	1	452	34	20	15	29	1.94
563587--563620	12	2.9	12	91	4	52	0	17	0	82	0.67
568212--568262	18	2.9	17	75	16	50	72	1	0	25	0.95
570501--570628	3	41.7	3	84	7	132	59	0	0	39	1.03
573237--573343	40	2.7	40	79	7	101	63	4	4	27	1.34
574618--574705	45	1.9	46	88	2	133	29	19	22	28	1.98
580725--580765	3	13.3	3	85	14	57	63	0	0	36	0.95
581087--581548	113	4.0	112	81	8	541	28	18	14	39	1.89
587918--588010	46	2.0	46	100	0	186	24	15	15	45	1.84
593881--593927	3	15.3	3	82	12	60	63	2	0	34	1.06
595282--595322	20	2.0	20	95	0	73	43	7	26	21	1.79
595568--595620	22	2.4	21	84	9	61	47	0	1	50	1.12
596060--596102	21	2.0	21	86	0	59	44	6	2	46	1.43
598319--598411	46	2.0	47	85	10	129	52	15	5	26	1.63
598331--598411	23	3.5	23	86	6	110	54	12	6	27	1.61
601273--601375	45	2.3	45	81	5	111	33	18	21	27	1.96
602226--602295	18	3.9	18	92	0	113	17	24	34	24	1.96
614181--614356	64	2.8	63	73	9	169	33	25	20	20	1.97
614433--614475	16	2.7	16	89	7	61	27	18	6	46	1.75
614971--615022	21	2.5	21	81	6	61	23	0	25	51	1.48
615106--615173	2	34.0	2	80	11	68	41	1	4	52	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
615097--615173	17	4.2	17	82	17	93	40	1	5	53	1.32
615097--615184	19	4.7	19	83	9	101	38	2	6	52	1.41
615543--615609	28	2.4	27	80	9	73	25	0	25	49	1.51
615152--616132	489	2.0	480	92	1	1620	35	9	12	43	1.74
616036--616095	21	2.9	21	82	9	70	18	0	28	53	1.45
616844--616898	2	26.0	2	78	10	56	43	1	5	49	1.36
617259--617317	7	8.4	7	84	0	73	18	0	32	49	1.48
617259--617311	21	2.5	21	93	0	88	20	0	30	49	1.50
617403--617448	2	24.0	2	82	8	60	47	0	4	47	1.21
617646--617690	23	2.0	23	81	0	54	42	4	4	48	1.43

Tables:   1   2   3   4   5