genome.fa.s8213.2.7.7.80.10.50.1000.3.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: VEPZ01008213.1 Hibiscus syriacus cultivar Beakdansim tig00110839_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2348840

Tables:   1   2   3   4   5   6   7   8   9   

This is table  3  of  9  ( 1057 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)
436080--436110	16	1.9	16	93	0	53	35	0	9	54	1.33
436896--436987	47	2.0	47	100	0	184	26	11	17	44	1.83
447603--447632	12	2.5	12	94	0	51	20	0	3	76	0.92
454257--454287	2	15.5	2	100	0	62	51	0	0	48	1.00
454963--454987	12	2.1	12	100	0	50	32	24	8	36	1.84
459634--459716	29	2.8	29	92	1	139	39	13	15	31	1.86
464386--464467	29	2.8	29	92	5	130	40	12	13	34	1.82
472275--472379	17	6.1	17	83	2	129	40	8	13	37	1.75
472371--472416	17	2.7	17	79	0	56	43	13	15	28	1.83
472283--472393	34	3.2	34	74	11	100	41	9	13	36	1.76
480370--480430	20	3.0	20	92	0	104	32	45	9	11	1.73
492302--492501	2	101.5	2	82	10	234	43	0	3	53	1.20
492522--492549	4	7.0	4	100	0	56	50	25	0	25	1.50
493361--493400	17	2.4	17	86	0	53	32	15	12	40	1.84
493481--493514	17	2.0	17	88	0	50	35	17	5	41	1.74
497281--497308	14	2.0	14	100	0	56	35	7	21	35	1.81
499273--499309	18	2.2	18	85	9	51	21	2	0	75	0.92
504552--504583	9	3.7	9	95	4	57	50	0	9	40	1.35
508337--508847	264	1.9	264	87	0	745	24	33	12	29	1.92
524342--524419	3	26.0	3	84	5	104	60	0	0	39	0.97
524787--525341	113	5.0	113	86	4	713	29	18	15	36	1.92
534161--534192	15	2.1	15	94	0	55	46	9	18	25	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
537478--537527	21	2.4	21	87	9	68	66	2	2	30	1.14
537477--537544	21	3.3	21	80	13	63	66	1	1	30	1.10
537495--537552	30	2.0	28	86	6	80	62	0	3	34	1.12
539320--539373	23	2.2	26	81	15	71	0	14	11	74	1.08
539771--539848	3	26.0	3	84	5	86	57	0	0	42	0.98
552421--552451	13	2.4	13	94	0	53	48	0	22	29	1.51
552534--552572	12	3.4	12	82	13	55	35	25	12	25	1.92
564142--564167	9	2.9	9	100	0	52	80	7	0	11	0.89
565052--565106	28	1.9	28	82	10	67	16	21	12	49	1.79
565089--565191	43	2.5	41	82	7	120	27	10	5	56	1.56
565129--565438	45	7.1	44	74	9	226	24	17	7	50	1.70
565195--565458	44	6.0	45	79	10	237	24	19	7	48	1.74
565195--565458	134	2.0	129	85	6	352	24	19	7	48	1.74
565224--565502	44	6.4	44	78	8	257	25	18	8	46	1.78
565129--565502	89	4.3	88	76	10	295	25	17	7	48	1.74
565484--565539	29	1.9	29	89	7	87	26	16	8	48	1.75
571087--571111	7	3.6	7	100	0	50	24	0	12	64	1.27
581782--581830	25	1.9	26	83	4	64	51	4	0	44	1.20
583985--584032	25	2.0	23	88	8	69	14	12	0	72	1.11
587056--587092	19	1.9	19	88	0	56	45	0	10	43	1.39
587089--587168	40	2.0	40	83	11	101	46	1	5	47	1.32
589944--590055	24	4.7	24	81	8	77	45	18	14	21	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
591153--591188	18	2.0	18	88	0	54	30	16	0	52	1.44
592508--592600	13	7.4	13	80	13	90	17	20	46	16	1.84
592508--592603	31	3.1	31	83	13	126	16	19	46	16	1.84
592527--592585	18	3.3	18	95	0	100	13	20	49	16	1.80
595285--595361	29	2.7	29	80	17	81	44	1	9	45	1.43
595544--595725	33	5.5	33	84	5	155	46	4	3	45	1.39
595639--595863	2	113.0	2	75	14	189	47	2	2	47	1.30
596871--596895	13	1.9	13	100	0	50	68	0	0	32	0.90
598573--598615	21	2.0	23	86	9	63	46	0	23	30	1.52
602506--602545	20	2.0	20	85	0	53	32	7	30	30	1.85
602761--603535	111	7.0	110	87	2	1052	34	10	18	35	1.86
602761--603535	166	4.7	166	89	1	1113	34	10	18	35	1.86
602761--603529	55	13.9	55	87	1	1070	34	11	18	35	1.86
608543--608620	22	3.6	22	69	19	56	37	12	21	28	1.90
608961--609510	55	9.9	55	88	1	787	35	11	16	36	1.85
608961--609510	111	5.0	110	89	2	816	35	11	16	36	1.85
608961--609510	166	3.3	166	88	2	802	35	11	16	36	1.85
614900--614992	20	4.7	20	94	0	159	25	23	24	25	2.00
618035--618129	2	52.5	2	69	22	50	42	1	1	55	1.13
618043--618132	33	2.7	33	89	3	137	41	1	0	57	1.06
618043--618119	33	2.3	34	95	2	138	41	1	0	57	1.07
620123--620171	18	2.7	18	100	0	98	16	48	22	12	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
620148--620177	13	2.3	13	100	0	60	16	46	23	13	1.82
620310--620365	29	1.9	29	85	0	76	32	5	12	50	1.63
620371--620408	2	19.0	2	100	0	76	50	0	0	50	1.00
625040--625075	2	18.0	2	100	0	72	50	0	0	50	1.00
625587--625619	15	2.2	15	89	10	50	48	12	18	21	1.80
625619--625646	7	4.0	7	100	0	56	28	14	14	42	1.84
626380--626452	29	2.6	29	88	2	103	38	21	4	35	1.73
626400--626564	29	5.7	29	77	9	149	39	23	4	32	1.76
626396--626564	59	2.9	58	78	5	196	40	22	4	31	1.75
626379--626558	58	3.1	57	77	7	182	40	21	5	32	1.75
632992--633060	27	2.6	27	90	4	106	14	40	23	21	1.90
633075--633231	29	5.4	29	84	7	212	30	5	24	40	1.77
633075--633251	29	6.1	29	84	6	207	31	5	23	40	1.76
639684--639715	13	2.5	13	100	0	64	15	43	21	18	1.87
639729--639792	29	2.2	29	88	5	94	31	3	17	48	1.62
640337--640421	24	3.5	24	75	0	98	28	12	15	43	1.83
640347--640450	48	2.2	48	96	0	190	25	15	17	42	1.88
642288--642358	16	4.5	16	80	3	63	49	30	9	9	1.69
642314--642365	16	3.3	16	81	2	52	48	34	9	7	1.65
642471--642525	19	3.1	19	70	19	55	52	0	1	45	1.11
656700--656732	2	17.5	2	87	12	52	54	0	0	45	0.99
658210--658296	3	29.0	3	93	4	149	65	1	0	33	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
658636--658752	40	3.0	40	86	5	148	26	17	35	20	1.95
659048--659104	29	2.0	29	82	6	71	47	10	12	29	1.74
659031--659194	89	1.8	89	86	3	240	46	12	12	27	1.78
659140--659311	29	5.8	29	84	8	179	46	15	10	27	1.78
659167--659329	29	5.4	31	82	9	117	44	13	11	30	1.80
659282--659513	64	3.5	64	78	10	236	40	13	12	33	1.82
659478--659549	37	1.9	37	86	5	101	36	9	9	44	1.70
659428--659608	100	1.8	100	83	8	242	42	13	11	32	1.80
659580--659638	31	1.9	31	96	3	111	44	13	11	30	1.80
659680--659813	36	3.7	36	82	5	148	32	14	20	32	1.92
659789--660102	107	3.0	105	78	7	373	42	10	15	31	1.81
660058--660129	36	2.0	37	83	2	92	41	8	18	31	1.80
667613--667681	3	23.0	3	91	5	113	65	1	0	33	1.02
684773--685019	89	2.8	89	83	3	273	22	21	24	31	1.98
690351--690591	89	2.7	89	88	1	340	21	24	24	30	1.99
694543--695878	492	2.7	486	79	6	1468	35	12	13	38	1.82
704060--704226	63	2.7	63	77	5	178	26	21	22	29	1.99
704445--704507	31	2.0	32	81	9	76	15	12	7	63	1.51
704594--704633	17	2.4	17	100	0	80	52	0	17	30	1.45
721394--721450	21	2.6	21	76	15	53	8	24	5	61	1.46
724296--724343	2	24.0	2	100	0	96	50	0	0	50	1.00
724573--724663	2	45.5	2	100	0	182	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
737290--737329	18	2.1	19	86	9	55	62	2	0	35	1.09
747862--747907	20	2.3	20	85	14	60	54	8	10	26	1.64
754011--754055	22	2.0	22	95	0	81	11	22	48	17	1.78
754018--754067	5	9.8	5	79	12	57	6	22	52	20	1.68
761013--761071	27	2.2	27	87	0	82	11	18	47	22	1.81
765141--765181	15	2.6	16	84	3	57	46	26	14	12	1.80
765267--765317	3	16.7	3	95	4	93	31	1	0	66	1.03
768740--768772	2	17.0	2	93	6	59	51	0	0	48	1.00
770236--770273	16	2.3	16	90	4	58	5	10	0	84	0.77
770358--770384	12	2.2	12	100	0	54	37	7	0	55	1.28

Tables:   1   2   3   4   5   6   7   8   9