genome.fa.s8661.2.7.7.80.10.50.1000.2.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: VEPZ01008661.1 Hibiscus syriacus cultivar Beakdansim tig00111659_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1762280

Tables:   1   2   3   4   5   6   7   

This is table  2  of  7  ( 822 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)
243485--243625	69	2.1	68	86	4	194	47	4	14	34	1.63
243485--243672	69	2.8	68	79	13	192	46	4	12	36	1.62
243677--243727	17	2.9	17	82	8	59	56	0	3	39	1.18
257753--257791	21	1.9	20	84	5	51	25	12	23	38	1.90
266570--266608	16	2.4	16	91	0	69	17	23	17	41	1.91
267510--267601	43	2.1	43	91	2	148	34	14	4	46	1.64
275553--275579	13	2.1	13	100	0	54	25	22	14	37	1.93
278015--278068	25	2.3	23	87	6	72	22	48	20	9	1.78
280177--280294	24	5.0	24	91	2	166	24	18	20	36	1.95
284447--284555	24	4.6	24	88	2	148	26	17	21	34	1.95
284445--284547	47	2.2	48	87	5	156	28	16	20	34	1.94
297603--297721	23	5.3	23	79	2	125	28	22	24	24	1.99
297619--297721	46	2.2	46	98	0	197	26	23	26	24	2.00
297725--297948	101	2.2	102	95	3	398	36	22	13	27	1.92
299376--299419	21	2.1	21	86	0	61	15	27	27	29	1.96
303159--303277	23	5.3	23	81	2	143	28	22	24	24	1.99
303167--303277	46	2.4	46	95	0	195	26	23	26	24	2.00
303289--303504	101	2.1	102	96	1	398	37	22	13	26	1.91
304942--304985	21	2.1	21	86	0	61	15	27	27	29	1.96
306422--306455	2	17.0	2	93	0	59	0	47	0	52	1.00
307370--307511	55	2.6	55	80	4	169	24	23	20	31	1.98
307542--307650	37	2.9	37	90	5	159	22	18	20	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
308887--309030	7	19.7	7	73	17	91	4	19	0	75	1.03
308882--309022	15	9.4	15	74	16	69	5	18	0	75	1.04
308944--309033	31	3.0	30	90	4	130	5	22	0	72	1.05
316535--316575	18	2.3	18	95	0	73	19	26	12	41	1.87
318561--318647	45	1.9	45	90	0	138	34	21	12	31	1.91
323584--323613	3	10.0	3	100	0	60	66	0	0	33	0.92
342183--342244	1	62.0	1	73	0	52	87	0	8	4	0.68
342184--342245	7	9.0	7	92	3	90	85	0	9	4	0.73
342973--343696	44	16.4	44	68	8	324	29	21	20	28	1.98
342968--343696	133	5.5	133	90	4	1130	29	20	20	29	1.98
352692--352732	8	5.2	8	82	5	57	34	0	29	36	1.58
354437--354511	33	2.2	34	80	13	84	64	5	0	30	1.16
355071--355118	23	2.1	23	88	0	69	35	12	18	33	1.89
355545--355607	23	2.7	23	92	0	99	38	20	4	36	1.74
355971--356033	23	2.7	23	87	0	90	38	19	4	38	1.73
356398--356460	23	2.7	23	92	0	99	38	20	4	36	1.74
356833--356891	23	2.6	23	88	0	82	40	16	5	37	1.71
357250--357312	23	2.7	23	92	0	99	38	20	4	36	1.74
355185--358295	852	3.6	859	97	1	5813	38	12	7	40	1.72
355185--358295	430	7.3	430	97	1	5833	38	12	7	40	1.72
357680--357742	23	2.7	23	92	0	99	38	20	4	36	1.74
358114--358172	23	2.6	23	88	0	82	40	16	5	37	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
358517--358602	39	2.2	39	91	0	136	18	13	17	50	1.79
359326--359388	23	2.7	23	92	0	99	38	20	4	36	1.74
359733--359798	25	2.6	25	75	0	78	43	12	9	34	1.73
360809--360854	24	2.0	23	88	12	69	43	32	2	21	1.65
362264--362746	179	2.7	181	91	3	780	32	16	14	35	1.90
362785--362828	22	2.0	22	86	4	63	40	11	9	38	1.73
365452--366996	200	7.9	200	92	5	2576	31	17	15	36	1.90
366591--366959	179	2.1	177	96	1	684	31	18	15	35	1.91
367115--367160	18	2.5	17	86	13	65	58	10	2	28	1.43
367115--367162	19	2.6	19	93	3	80	58	10	2	29	1.43
368928--368992	33	2.0	32	90	3	103	23	46	0	30	1.53
369025--369068	21	2.1	21	91	0	70	15	31	11	40	1.83
371263--371305	20	2.3	18	85	14	61	20	16	11	51	1.75
371449--371508	20	3.1	18	81	13	66	15	15	15	55	1.71
372840--372884	19	2.4	19	88	0	72	46	13	4	35	1.63
373104--373187	36	2.3	38	87	4	118	54	3	2	39	1.31
374999--375031	3	11.0	3	93	0	57	0	36	0	63	0.95
375836--376284	229	2.0	227	94	2	785	44	7	7	39	1.62
376349--376394	20	2.3	19	89	10	74	54	10	17	17	1.70
376516--376562	20	2.3	20	75	7	51	53	8	19	19	1.70
378852--378917	33	2.0	33	87	0	96	28	1	45	24	1.62
380705--380748	19	2.4	19	92	3	72	31	2	9	56	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
380830--381987	198	5.8	199	96	1	2096	37	15	14	31	1.88
382953--383020	21	3.4	18	69	21	55	36	8	35	19	1.83
382953--383050	6	16.3	6	80	0	70	36	7	34	21	1.81
382968--383054	3	29.0	3	77	0	84	35	5	34	24	1.79
382956--383046	42	2.2	42	91	0	146	35	7	35	21	1.83
382953--383050	18	5.4	18	78	0	88	36	7	34	21	1.81
384519--385188	184	3.7	184	97	0	1254	35	14	15	34	1.89
387743--387806	23	2.8	23	87	0	92	35	6	20	37	1.78
387743--387815	23	3.2	23	82	7	85	34	5	20	39	1.76
388174--388237	23	2.8	23	87	0	92	35	6	20	37	1.78
388174--388246	23	3.2	23	82	7	85	34	5	20	39	1.76
387644--388667	431	2.4	431	99	0	2003	40	8	13	37	1.75
388605--388669	23	2.8	23	90	0	94	35	7	18	38	1.80
388873--388909	18	2.1	18	89	0	56	32	5	10	51	1.60
388865--388911	24	2.0	24	86	0	67	34	4	14	46	1.64
394244--394273	13	2.3	13	94	0	51	40	33	16	10	1.82
395701--396060	91	4.0	90	88	2	506	25	21	15	38	1.92
405150--405179	15	2.1	15	93	6	53	20	20	33	26	1.97
408126--408188	19	3.5	17	77	14	54	69	4	1	23	1.16
409351--409391	21	2.0	20	85	4	55	58	0	9	31	1.31
423866--423919	21	2.5	22	77	17	60	48	3	1	46	1.30
428580--428615	8	4.5	8	100	0	72	11	0	0	88	0.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
439577--439681	48	2.2	48	81	6	115	20	17	14	47	1.82
439617--439685	24	2.9	24	87	6	104	18	14	15	50	1.78
439618--439685	12	5.7	11	75	14	55	17	14	16	51	1.77
439845--439873	2	14.5	2	100	0	58	48	0	0	51	1.00
442806--442845	16	2.5	16	88	8	55	80	5	2	12	0.98
442806--442854	11	4.5	11	80	16	50	77	6	2	14	1.05
444110--444159	16	3.5	15	75	24	54	76	8	2	14	1.10
445438--445859	41	10.1	41	72	12	236	30	17	18	33	1.94
445623--445859	82	2.9	82	87	3	323	28	18	16	35	1.93
445617--445889	41	6.6	41	75	3	206	31	19	15	34	1.93
450002--450371	43	8.7	42	83	2	400	24	21	19	34	1.96
450002--450371	127	2.9	127	81	5	424	24	21	19	34	1.96
450414--450469	27	2.1	27	86	0	76	14	26	16	42	1.86
455326--455450	58	2.2	58	83	2	153	36	5	22	35	1.78
455339--455476	29	4.7	29	76	5	118	39	4	21	34	1.73
464709--464748	21	1.9	21	89	0	62	25	40	25	10	1.86
470629--470697	23	3.0	23	84	0	66	28	27	23	20	1.99
470713--471033	103	3.1	103	96	0	581	36	23	13	26	1.92
472617--472661	21	2.1	21	87	0	63	13	22	31	33	1.92
475852--475912	23	2.6	24	79	7	72	24	26	27	21	1.99
475935--476248	103	3.0	103	94	0	540	36	23	13	27	1.92
477830--477874	21	2.1	21	83	0	54	13	24	31	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
484389--484436	2	24.0	2	100	0	96	50	0	0	50	1.00
489872--489932	28	2.1	30	87	6	90	59	9	0	31	1.30
489875--489957	28	3.1	27	80	11	82	56	12	0	31	1.36
490562--490681	29	4.1	29	98	0	231	17	35	31	15	1.91
493827--493871	20	2.2	20	92	0	72	33	0	28	37	1.58
493985--494977	4	251.8	4	94	3	1687	24	1	25	48	1.59
495418--495483	32	2.1	30	83	10	80	48	10	3	37	1.53
504588--504654	33	2.0	33	100	0	134	49	8	8	32	1.65
511641--511695	13	4.2	13	85	0	65	27	21	14	36	1.93
519862--519914	2	27.0	2	96	3	99	50	0	0	49	1.00

Tables:   1   2   3   4   5   6   7