genome.fa.s9581.2.7.7.80.10.50.1000.3.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: VEPZ01009581.1 Hibiscus syriacus cultivar Beakdansim tig00116958_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2551150

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  3  of  13  ( 1494 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)
437606--437842	20	11.6	20	74	7	131	32	19	19	27	1.96
437593--437800	41	5.1	40	71	11	129	32	20	19	27	1.97
437729--437822	41	2.3	41	85	1	118	38	18	22	21	1.93
438410--438546	52	2.6	51	87	5	184	12	24	21	41	1.87
438464--438529	33	2.0	34	96	3	125	12	25	24	37	1.90
438823--438908	43	2.0	43	100	0	172	23	20	25	30	1.99
441861--441885	12	2.1	12	100	0	50	0	28	0	72	0.86
442064--442107	22	2.0	23	90	4	72	34	22	18	25	1.96
442714--442765	21	2.5	21	87	3	70	38	17	23	21	1.93
442731--442842	20	5.5	20	74	5	73	38	19	18	23	1.93
443053--443140	20	4.4	20	72	5	88	40	22	19	17	1.91
443167--443234	19	3.8	19	87	12	101	13	22	17	47	1.82
444814--444895	41	2.0	41	88	4	121	19	14	42	23	1.88
445269--445352	20	4.4	20	77	10	86	38	21	23	16	1.93
445269--445352	37	2.2	39	85	4	109	38	21	23	16	1.93
445379--445530	19	8.6	19	73	17	103	13	20	22	43	1.87
445379--445511	51	2.6	51	93	0	230	13	21	21	43	1.86
446062--446108	18	2.7	18	90	3	78	14	12	46	25	1.80
447418--447455	20	1.9	20	100	0	76	55	18	15	10	1.68
447738--447781	22	2.0	22	95	0	79	22	15	40	20	1.90
447976--448042	20	3.3	20	85	0	89	29	13	29	26	1.94
447950--448087	41	3.4	41	75	2	143	23	15	25	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
448008--448084	20	3.8	20	76	10	75	20	19	28	31	1.97
448017--448105	41	2.2	41	83	4	108	20	20	24	34	1.96
448078--448124	20	2.3	20	85	3	58	21	21	17	40	1.91
448117--448166	21	2.4	22	76	6	59	38	18	24	20	1.93
449502--449567	31	2.0	31	82	8	78	50	0	0	50	1.00
453732--453889	21	7.8	20	70	7	77	37	24	17	19	1.93
453857--454050	20	9.6	20	76	8	76	35	25	19	19	1.95
453857--454050	40	4.8	39	82	3	199	35	25	19	19	1.95
453857--454049	60	3.2	60	83	0	251	35	25	19	19	1.95
454428--454496	33	2.2	32	89	5	104	11	21	18	47	1.80
454617--454671	14	3.6	14	73	21	56	41	23	25	9	1.83
454617--454687	33	2.2	33	94	0	124	43	25	22	8	1.81
454705--454794	14	5.7	14	74	23	81	8	25	23	42	1.83
454688--454802	33	3.5	33	93	0	203	10	23	20	45	1.82
454683--454800	14	7.1	18	66	25	71	11	23	21	44	1.84
456496--456871	92	4.1	93	97	2	708	22	12	18	46	1.83
456496--456873	182	2.1	184	96	2	708	22	12	18	46	1.83
456915--457043	19	7.3	19	75	17	125	45	28	17	8	1.77
456951--457043	33	2.8	32	91	4	150	46	27	18	7	1.76
456915--457043	52	2.5	52	74	14	140	45	28	17	8	1.77
457039--457173	19	7.6	19	75	16	128	11	19	23	45	1.82
457061--457117	14	3.7	14	77	20	60	10	21	22	45	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
457044--457136	33	2.8	33	95	0	168	10	20	21	47	1.80
457620--457682	21	3.0	21	70	9	65	23	36	19	20	1.95
459053--459091	14	2.7	14	92	4	60	35	0	23	41	1.55
459193--459275	19	4.6	19	80	17	113	43	18	24	14	1.87
459304--459577	19	15.4	19	81	15	354	13	21	17	46	1.83
459282--459549	52	5.0	52	93	4	455	14	22	16	46	1.83
459282--459549	109	2.5	105	91	6	459	14	22	16	46	1.83
461849--461873	12	2.1	12	100	0	50	0	28	0	72	0.86
462047--462093	24	2.0	24	87	8	69	38	21	14	25	1.92
462766--463155	20	19.5	20	84	5	457	20	18	25	35	1.95
477344--477391	25	2.0	25	83	4	62	75	8	2	14	1.13
479743--479856	59	1.9	59	83	0	147	39	12	9	38	1.76
483262--483316	27	2.0	27	89	6	85	49	10	14	25	1.76
483940--483981	20	2.2	19	87	8	59	26	23	7	42	1.80
484883--484925	11	3.4	13	81	18	54	51	2	0	46	1.13
485444--485504	31	2.0	31	86	0	86	24	8	9	57	1.58
489567--489601	2	17.5	2	100	0	70	48	0	0	51	1.00
489879--489908	15	2.1	14	93	6	51	20	40	16	23	1.91
489964--490021	20	2.7	20	81	10	62	29	20	24	25	1.99
491585--491653	23	3.0	23	80	0	84	20	24	24	30	1.99
494498--494780	143	2.0	143	88	0	424	38	13	15	32	1.85
496220--496397	89	2.0	89	100	0	356	22	22	28	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
501870--501906	18	2.0	19	89	5	58	56	21	8	13	1.63
503216--503282	22	3.0	22	100	0	134	26	26	26	19	1.99
503500--503558	29	2.0	31	90	6	95	32	23	6	37	1.81
503574--503653	26	3.0	27	81	12	103	38	12	10	38	1.77
503574--503640	29	2.5	26	87	7	89	37	13	10	38	1.79
503941--504089	66	2.2	67	88	3	212	16	27	26	28	1.97
504069--504111	21	2.0	21	86	0	59	16	25	27	30	1.97
510119--510185	22	3.0	22	100	0	134	26	26	26	19	1.99
510405--510464	30	2.0	31	90	3	95	33	23	6	36	1.81
510480--510549	29	2.4	29	90	0	104	38	14	10	37	1.79
510853--511004	68	2.3	66	87	3	205	17	26	28	28	1.97
510984--511026	21	2.0	21	86	0	59	16	25	27	30	1.97
513091--513117	13	2.1	13	100	0	54	37	7	14	40	1.74
513137--513207	24	3.0	24	89	0	97	26	14	18	40	1.88
524004--524117	56	2.0	57	96	1	212	32	28	18	20	1.96
541075--541370	146	2.0	146	100	0	592	41	19	10	28	1.84
541379--541766	195	2.0	195	93	1	670	35	22	13	28	1.92
550305--550409	35	3.0	35	92	2	176	45	20	5	28	1.73
554830--554890	21	3.2	21	65	29	64	42	21	4	31	1.74
554792--554896	35	3.0	35	95	2	185	45	19	5	29	1.73
555044--555388	173	2.0	170	96	1	636	37	11	7	42	1.69
564399--564435	19	1.9	19	100	0	74	45	21	16	16	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
569797--569830	2	17.0	2	100	0	68	50	0	0	50	1.00
570053--570090	2	19.5	2	94	5	69	52	0	0	47	1.00
575698--575726	12	2.3	13	94	5	51	68	0	0	31	0.89
577145--577208	3	21.3	3	82	6	76	59	0	3	37	1.13
577145--577212	19	3.6	19	83	13	86	58	0	2	38	1.13
577438--577710	84	3.2	83	82	3	332	23	20	26	29	1.99
577752--579226	106	13.9	106	93	0	2459	22	17	25	33	1.96
583646--583783	37	3.8	36	84	6	172	29	14	13	42	1.84
583680--583780	34	2.9	35	91	8	161	27	14	13	43	1.84
586780--586836	30	1.9	30	85	3	80	42	10	14	33	1.79
588264--588314	21	2.4	21	93	0	84	21	13	35	29	1.92
594558--594616	29	2.0	29	100	0	118	49	13	13	23	1.78
599244--599302	29	2.0	29	100	0	118	49	13	13	23	1.78
599364--599396	15	2.2	15	100	0	66	51	18	18	12	1.76
600367--600421	23	2.3	23	84	9	67	40	3	1	54	1.28
602132--602214	42	2.0	42	85	0	112	26	22	19	31	1.98
607806--607882	31	2.5	30	78	6	82	29	31	24	14	1.94
608765--608821	17	3.4	17	97	0	105	15	24	42	17	1.88
608815--608904	19	4.7	19	89	6	128	26	30	25	17	1.98
608817--608904	9	9.1	10	77	12	94	27	30	23	18	1.97
615160--615236	31	2.5	30	78	6	82	29	31	24	14	1.94
615113--615236	63	2.0	63	81	12	148	27	29	26	16	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
616105--616141	13	2.8	13	95	0	65	27	29	27	16	1.97
616131--616171	17	2.4	17	100	0	82	14	24	43	17	1.86
616167--616235	9	7.1	10	76	12	72	27	30	23	18	1.98
616165--616235	19	3.7	19	92	1	106	26	29	25	18	1.98
625131--625160	10	3.0	10	95	0	51	53	26	10	10	1.66
626056--626132	37	2.1	37	83	9	95	48	1	2	48	1.23
626272--626315	20	2.3	19	85	11	63	20	25	9	45	1.80
626278--626315	20	1.9	20	94	0	67	21	23	10	44	1.83
633611--633660	2	25.0	2	92	8	84	48	2	0	50	1.12
637190--637232	19	2.3	17	78	21	50	46	4	0	48	1.22

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13