genome.fa.s7724.2.7.7.80.10.50.1000.3.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: VEPZ01007724.1 Hibiscus syriacus cultivar Beakdansim tig00109971_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1221931

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 706 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)
366769--366846	9	8.3	9	76	8	66	30	19	35	14	1.91
367060--367144	35	2.5	33	78	14	91	25	8	10	55	1.62
370557--370589	10	2.9	12	82	17	52	33	0	51	15	1.43
373477--373861	108	3.5	107	70	13	310	37	14	17	30	1.90
373158--373919	226	3.4	226	91	0	1148	38	13	16	31	1.87
373890--373942	23	2.3	23	96	0	97	30	5	28	35	1.80
375806--376214	199	2.1	198	88	2	597	33	14	13	39	1.84
378064--378126	24	2.6	24	89	0	99	50	9	9	30	1.66
380896--382222	200	6.6	200	83	6	1464	33	14	13	39	1.84
381495--381548	17	3.0	17	76	10	54	48	12	7	31	1.69
380923--382135	407	3.0	401	84	8	1461	32	14	13	39	1.85
389426--389457	3	10.7	3	100	0	64	31	0	0	68	0.90
391139--391163	11	2.3	11	100	0	50	56	20	8	16	1.65
391221--391260	21	1.9	21	89	0	62	47	22	0	30	1.52
396668--396695	13	2.2	13	100	0	56	35	17	10	35	1.85
399368--399876	127	4.0	127	91	2	833	23	23	19	33	1.97
400306--400406	34	3.0	34	78	5	123	40	3	2	52	1.35
405818--405908	2	46.5	2	95	4	168	48	0	0	51	1.00
406332--406463	30	4.4	30	91	1	212	28	11	13	46	1.77
407817--407917	30	3.4	30	91	0	157	39	15	14	29	1.88
411718--411758	2	20.5	2	100	0	82	48	0	0	51	1.00
412073--412102	4	7.5	4	100	0	60	23	0	0	76	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
412750--412783	16	2.1	17	94	5	61	41	0	0	58	0.98
416987--417013	3	9.0	3	100	0	54	33	0	33	33	1.58
421841--421870	15	2.0	15	93	0	51	23	0	56	20	1.42
423682--423737	27	2.1	27	93	0	94	46	17	7	28	1.75
424064--424101	14	2.6	14	87	4	58	52	5	0	42	1.24
424171--424228	21	2.8	21	94	0	98	22	0	27	50	1.50
424171--424244	7	10.6	7	74	0	58	20	1	31	47	1.59
424211--424256	14	3.3	14	93	0	74	17	4	30	47	1.67
424172--424242	21	3.4	21	88	0	79	21	1	29	47	1.59
424537--424573	19	2.1	18	85	14	51	62	16	5	16	1.51
428788--428817	14	2.1	14	93	0	51	50	6	0	43	1.28
429335--429445	21	5.3	21	78	1	98	48	28	0	22	1.51
429335--429471	7	19.6	7	72	3	78	48	29	0	21	1.50
430093--430124	11	2.9	11	100	0	64	28	15	37	18	1.92
430141--430227	31	2.6	33	80	12	90	20	2	19	57	1.51
431164--431205	20	2.0	20	86	4	57	69	2	0	28	1.01
432050--432090	21	2.0	21	85	9	57	29	0	2	68	1.03
437622--437659	17	2.2	17	100	0	76	42	13	34	10	1.78
438182--438545	42	8.6	40	73	12	171	24	17	8	49	1.73
445106--445145	18	2.2	18	95	0	71	22	22	32	22	1.98
446781--446821	18	2.3	18	91	4	66	63	2	4	29	1.28
447440--447533	39	2.3	41	82	10	106	40	6	0	53	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
447508--447610	40	2.6	41	83	6	113	32	3	0	63	1.19
448862--448907	20	2.2	21	84	3	58	34	8	19	36	1.83
449423--450031	55	11.1	55	87	2	859	29	19	19	31	1.96
453118--453161	17	2.6	17	77	0	52	59	0	0	40	0.98
458825--458873	24	2.0	24	96	0	89	26	12	16	44	1.82
459084--459127	21	2.0	21	86	4	61	4	11	4	79	1.02
459848--459896	20	2.5	20	89	0	80	30	16	18	34	1.93
460124--460177	27	2.0	27	85	7	74	64	7	12	14	1.47
460927--460975	20	2.4	21	76	10	57	30	4	32	32	1.77
461861--461924	29	2.2	29	88	0	92	45	4	18	31	1.70
465605--465629	13	1.9	13	100	0	50	32	0	4	64	1.12
467465--467508	21	2.1	21	82	0	52	27	25	22	25	2.00
471070--471128	16	3.7	16	93	0	100	57	20	13	8	1.62
472220--472299	14	6.3	13	71	21	64	55	21	13	10	1.67
472214--472292	24	3.3	24	94	3	133	58	18	11	11	1.62
486168--486245	41	1.9	41	89	0	120	43	15	26	14	1.85
498631--498709	6	13.8	6	89	10	130	34	0	0	65	0.93
498631--498709	11	6.9	12	91	8	130	34	0	0	65	0.93
498631--498708	17	4.6	17	96	3	140	34	0	0	65	0.93
508727--508781	18	3.2	18	77	15	62	76	0	0	23	0.79
509332--509493	84	1.9	86	82	3	202	33	12	11	41	1.79
522399--522433	17	2.1	17	94	0	61	40	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
525140--525185	6	7.5	6	81	13	58	82	0	2	15	0.76
529676--529718	21	2.0	21	86	8	61	25	25	11	37	1.90
539344--539392	20	2.6	18	84	12	62	67	0	12	20	1.22
539808--539865	13	4.5	13	80	2	64	86	1	0	12	0.65
539799--539848	21	2.2	24	86	10	70	84	0	0	16	0.63
539797--539864	28	2.5	26	84	15	84	82	1	0	16	0.75
540188--540231	20	2.2	20	87	0	61	43	15	0	40	1.47
550236--550297	26	2.3	26	81	10	72	66	3	1	29	1.17
550443--550502	9	6.6	9	72	11	50	71	0	3	25	1.01
550443--550490	17	2.9	17	84	3	53	72	0	0	27	0.84
562653--562702	19	2.7	18	75	6	55	52	0	0	48	1.00
569801--569838	16	2.4	16	100	0	76	21	23	26	28	1.99
572704--572741	16	2.4	16	100	0	76	21	23	26	28	1.99
576408--576536	67	1.9	67	87	0	186	23	18	19	38	1.93
577388--577598	36	5.8	36	68	6	111	36	12	20	30	1.90
577348--577678	146	2.3	147	89	4	499	38	12	18	31	1.88
577348--577680	73	4.5	73	87	3	447	37	12	18	31	1.88
578339--578410	35	2.1	35	100	0	144	27	16	11	44	1.82
578438--578500	22	2.9	22	95	0	108	38	12	19	30	1.89
586992--587082	26	3.6	25	76	17	73	64	1	4	29	1.20
587234--587263	16	1.9	15	93	6	51	43	0	13	43	1.43
587592--587617	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
587736--587766	16	1.9	16	93	0	53	61	0	0	38	0.96
588947--589031	2	42.5	2	100	0	170	50	0	0	49	1.00
598538--598580	16	2.6	17	82	17	56	65	2	2	30	1.18
600948--600972	5	5.0	5	100	0	50	40	0	20	40	1.52
605339--605394	17	3.2	16	75	25	51	53	26	12	7	1.64
605339--605399	19	3.3	19	77	9	72	52	27	13	6	1.64
610993--611018	11	2.4	11	100	0	52	65	0	0	34	0.93
611166--611217	26	2.0	26	82	14	63	48	3	0	48	1.20
612290--612332	19	2.3	18	84	4	50	23	18	18	39	1.92
612342--612399	7	8.1	7	87	9	73	53	0	0	46	1.00
612342--612399	29	2.0	28	90	3	89	53	0	0	46	1.00
612330--612398	22	3.3	22	82	11	83	50	0	0	49	1.00
614479--614693	70	3.1	70	95	1	378	28	26	0	43	1.59
620455--620520	15	4.4	15	77	7	62	45	28	4	21	1.71
621235--621275	2	20.5	2	100	0	82	51	0	0	48	1.00
626042--626087	2	23.0	2	100	0	92	50	0	0	50	1.00
636894--636926	16	2.1	16	94	0	57	33	27	6	33	1.81
638724--638760	3	13.0	3	83	11	51	29	2	0	67	1.04
639308--639412	31	3.3	31	71	10	104	37	30	17	15	1.90
639289--639426	64	2.2	64	94	0	240	34	31	18	15	1.92
639479--639531	16	3.3	16	91	0	88	16	28	13	41	1.86
639768--639814	14	3.7	14	71	26	50	44	0	4	51	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
639767--639816	23	2.1	24	96	3	93	48	0	4	48	1.20
640825--640929	20	5.1	19	75	21	88	42	9	7	40	1.66
640831--640888	24	2.5	24	86	5	75	46	6	6	39	1.57
640918--640988	37	1.9	37	85	5	99	39	9	9	40	1.72
640947--640991	24	1.9	23	86	4	63	37	6	8	46	1.61
641006--641100	7	13.6	7	68	8	59	22	2	32	43	1.65
641013--641073	21	2.9	21	82	0	68	26	0	29	44	1.55
641160--641233	38	1.9	38	100	0	148	44	4	5	45	1.45
641266--641336	18	3.6	18	68	26	54	39	9	7	43	1.65
641271--641336	20	3.2	20	66	29	57	39	9	7	43	1.65

Tables:   1   2   3   4   5   6