genome.fa.s2890.2.7.7.80.10.50.1000.2.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: VEPZ01002890.1 Hibiscus syriacus cultivar Beakdansim tig00005974_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5046466

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

This is table  2  of  21  ( 2516 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)
383716--383845	20	6.5	20	93	2	217	24	27	10	36	1.89
385363--385454	46	2.0	47	95	2	168	22	27	11	38	1.89
387247--387279	15	2.2	15	100	0	66	27	12	6	54	1.60
389918--390409	54	9.3	53	80	10	526	35	16	15	33	1.90
389995--390408	153	2.6	156	85	6	541	34	16	15	33	1.90
389940--390410	207	2.2	207	84	9	589	35	16	14	33	1.90
389918--390397	261	1.8	261	86	2	705	35	16	15	33	1.90
393940--393973	17	1.9	17	88	5	50	32	5	8	52	1.56
399150--399219	34	2.1	32	86	5	95	22	31	14	31	1.94
399584--399658	20	3.7	20	90	1	105	25	21	33	20	1.97
399721--399778	21	2.8	21	97	0	107	25	18	34	20	1.96
399860--399917	30	1.9	30	96	0	107	46	18	3	31	1.66
401170--401217	19	2.5	20	82	3	62	29	12	6	52	1.63
402076--402145	34	2.1	32	86	5	95	21	30	15	32	1.94
402669--402728	30	2.0	30	93	0	102	43	16	5	35	1.70
407068--407123	2	28.0	2	96	0	103	48	0	1	50	1.11
409398--409428	16	1.9	16	93	0	53	29	12	9	48	1.73
411091--411130	18	2.2	19	86	13	57	35	2	12	50	1.54
412221--412251	14	2.1	15	94	5	55	41	0	19	38	1.51
413632--413892	49	5.3	49	87	3	380	38	16	19	25	1.92
419803--419852	14	3.6	14	83	0	64	30	30	16	24	1.96
445432--445487	13	4.7	11	74	21	51	0	19	1	78	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
445432--445487	18	3.1	18	82	17	71	0	19	1	78	0.84
447301--447357	26	2.1	27	84	9	73	54	14	10	21	1.69
448713--448807	41	2.3	41	85	3	129	34	21	17	26	1.95
448820--448983	83	2.0	83	82	2	204	34	15	17	32	1.91
448828--449004	83	2.1	83	79	5	187	35	14	16	33	1.89
452345--452569	64	3.5	63	90	4	310	34	18	20	26	1.96
453161--453223	23	2.7	22	83	9	81	22	23	26	26	2.00
459327--459551	64	3.5	63	89	4	292	34	17	20	27	1.95
460143--460210	23	3.0	23	79	12	77	23	22	26	27	1.99
464509--464609	45	2.2	45	80	5	114	32	17	7	41	1.79
464614--464867	46	5.6	46	86	2	316	24	23	6	45	1.77
464620--464867	135	1.8	137	87	3	376	25	23	6	44	1.77
465272--465545	110	2.5	110	87	1	381	28	21	16	33	1.95
465537--466389	54	15.9	54	88	1	1142	31	19	19	29	1.97
482235--482298	25	2.6	25	97	2	121	25	35	3	35	1.72
489699--489746	25	1.9	25	86	0	69	35	27	10	27	1.89
490706--490811	45	2.3	44	84	9	133	29	19	21	29	1.98
498943--498980	19	2.0	19	94	0	67	42	0	18	39	1.50
499410--499442	17	1.9	17	93	0	57	27	39	18	15	1.90
499429--499534	45	2.3	46	88	7	155	31	19	20	28	1.97
500537--500578	20	2.1	20	86	0	57	52	21	0	26	1.47
500839--500884	21	2.2	21	84	7	58	41	28	2	28	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
501393--501432	20	2.1	19	90	4	62	40	0	0	60	0.97
503543--503638	31	3.1	30	82	10	115	41	20	14	22	1.89
503765--503823	14	4.1	15	81	16	72	42	5	16	35	1.71
504169--504241	23	3.1	23	76	5	76	46	1	1	50	1.18
504178--504233	11	4.9	11	75	14	51	48	1	1	48	1.22
504386--504445	30	1.9	32	86	6	88	50	3	0	46	1.18
504353--504471	53	2.2	53	81	11	127	47	3	0	48	1.24
504635--504724	42	2.1	42	83	4	119	50	14	12	23	1.76
507773--507848	28	2.8	27	90	5	118	27	10	3	57	1.50
515144--515186	21	2.0	21	95	0	77	13	27	41	16	1.86
515533--515598	24	2.8	24	97	0	123	22	43	0	33	1.54
516628--516675	19	2.5	20	82	3	62	29	12	6	52	1.63
517921--518019	21	4.9	21	86	6	141	15	30	35	19	1.92
518539--518569	16	1.9	16	93	0	53	25	6	16	51	1.68
518674--518716	20	2.1	21	83	12	54	18	2	9	69	1.26
524103--524162	23	2.6	23	86	2	84	8	16	11	63	1.51
528186--528463	54	5.2	54	92	1	443	37	17	12	32	1.88
528661--528711	25	2.0	25	100	0	102	33	15	7	43	1.76
528815--529002	94	2.0	95	89	3	290	24	26	12	37	1.90
531419--531600	96	1.9	96	84	6	244	40	13	17	28	1.87
531975--532368	45	8.8	45	89	0	590	44	11	21	22	1.84
532159--532228	21	3.2	21	70	18	61	45	10	22	21	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
536500--536684	96	1.9	96	85	6	259	39	12	21	26	1.89
537062--537365	45	6.8	45	90	1	441	45	12	20	21	1.84
542244--542311	33	2.1	33	83	8	86	51	1	1	45	1.19
543778--543850	25	2.8	24	82	15	76	53	1	0	45	1.09
543794--543841	16	3.0	16	80	17	55	58	0	0	41	0.98
543778--543844	19	3.5	19	75	21	61	55	0	0	44	0.99
543974--544871	76	11.9	76	96	1	1617	34	22	18	24	1.96
543974--544871	151	5.9	152	95	1	1617	34	22	18	24	1.96
543974--544871	227	4.0	227	96	1	1613	34	22	18	24	1.96
545715--545769	22	2.5	22	93	0	101	40	14	10	34	1.81
547009--547182	77	2.3	77	83	6	210	32	22	13	31	1.92
553340--553429	36	2.5	36	78	7	94	55	10	16	17	1.68
555752--555808	11	4.5	13	74	26	52	71	0	1	26	0.95
555755--555798	11	3.8	11	81	18	54	72	0	0	27	0.85
555752--555808	25	2.3	25	90	6	89	71	0	1	26	0.95
556406--556467	33	1.9	33	83	6	83	56	1	0	41	1.09
557937--558002	16	3.9	16	76	11	62	56	0	0	43	0.99
557967--558012	22	2.1	22	88	8	67	52	0	0	47	1.00
557968--558026	24	2.6	23	79	17	61	54	0	1	44	1.10
559060--559094	3	11.3	3	93	6	61	2	31	0	65	1.07
560189--560263	22	3.5	22	76	10	93	40	25	16	18	1.91
560252--560315	21	3.1	21	70	4	67	37	25	18	18	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
561131--561164	17	2.0	17	100	0	68	29	17	5	47	1.71
567452--567578	2	67.5	2	66	27	57	53	3	3	39	1.35
567446--567578	18	7.2	18	69	19	78	54	3	3	39	1.34
570195--570432	81	3.0	80	88	3	334	35	11	22	31	1.89
572135--572172	18	2.1	18	95	0	67	21	15	18	44	1.86
579934--580107	5	35.6	5	70	25	83	54	3	1	40	1.27
579949--580107	2	85.5	2	68	27	77	54	3	1	40	1.29
581395--581419	2	12.5	2	100	0	50	48	0	0	52	1.00
581642--581751	53	2.0	56	89	10	172	34	6	14	44	1.71
582486--582558	29	2.5	29	90	2	110	32	9	6	50	1.61
583985--584033	16	2.9	17	72	6	55	38	4	10	46	1.57
584020--584304	37	7.6	38	83	10	315	44	2	8	43	1.49
584020--584304	76	3.8	74	83	9	330	44	2	8	43	1.49
584321--584366	18	2.6	18	82	0	56	28	0	0	71	0.86
584302--584366	18	3.9	16	72	20	53	30	1	0	67	1.00
585688--585736	12	3.9	12	80	17	55	16	4	0	79	0.88
585685--585737	22	2.5	20	80	16	63	18	3	0	77	0.92
585681--585738	21	2.8	21	82	14	68	20	3	0	75	0.94
585695--585738	22	2.0	22	87	12	65	20	4	0	75	0.98
592599--592647	17	3.0	17	75	19	59	38	6	10	44	1.63
592634--592962	39	8.8	39	86	6	425	44	3	7	44	1.50
592634--592994	76	4.8	76	84	7	440	45	3	6	44	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
592707--592760	28	1.9	28	85	7	74	48	3	5	42	1.44
592820--592874	28	2.0	28	85	7	76	43	5	7	43	1.55
592633--592993	37	9.6	34	81	12	106	45	3	6	44	1.49
599040--599337	46	6.5	46	81	0	362	21	22	13	41	1.88
599175--599304	26	5.5	25	65	20	82	21	23	13	41	1.88
599245--599324	20	3.7	20	71	20	63	18	26	15	40	1.90
599041--599337	92	3.2	92	86	0	425	21	22	13	42	1.88
608061--608111	23	2.3	23	83	6	70	19	19	41	19	1.91
614479--614525	22	2.1	22	84	7	60	29	12	8	48	1.71
614502--614836	46	7.3	46	83	1	393	22	21	14	42	1.89

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