genome.fa.s8156.2.7.7.80.10.50.1000.4.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: VEPZ01008156.1 Hibiscus syriacus cultivar Beakdansim tig00110722_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  820393

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 528 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)
512319--512356	18	2.2	17	86	13	51	21	5	2	71	1.19
513496--513543	5	9.8	5	84	11	64	16	0	2	81	0.79
513498--513543	14	3.2	14	90	3	74	15	0	2	82	0.76
513498--513538	9	4.4	9	87	6	64	14	0	0	85	0.60
514200--514246	19	2.5	19	89	3	78	8	14	10	65	1.45
517547--518296	84	8.9	84	80	3	776	30	23	20	25	1.99
517522--518379	168	5.2	166	81	4	865	30	23	20	25	1.99
517522--518303	249	3.1	251	85	3	986	30	24	20	24	1.99
517522--518379	333	2.6	330	83	4	981	30	23	20	25	1.99
519000--519317	36	8.9	36	73	18	186	44	3	7	43	1.51
519172--519239	32	2.1	33	84	10	88	44	5	5	44	1.52
519021--519298	144	1.9	141	82	11	341	44	3	6	44	1.49
519350--519388	18	2.2	18	86	9	53	23	15	0	61	1.33
521717--521758	14	2.9	15	79	10	52	35	0	4	59	1.19
526270--526495	76	3.1	76	81	9	222	30	1	11	55	1.46
527648--527715	29	2.3	29	92	5	111	36	14	4	44	1.66
530074--530106	3	11.0	3	100	0	66	66	0	0	33	0.92
531911--532051	65	2.2	63	80	7	149	26	19	23	31	1.98
538649--538688	21	1.9	21	85	10	55	35	10	2	52	1.48
540614--540662	19	2.7	17	84	9	53	26	20	28	24	1.99
540634--540793	65	2.5	65	85	5	200	26	19	23	30	1.98
540634--540843	65	3.2	64	77	14	193	26	18	24	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
544637--544718	24	3.5	24	69	21	66	53	1	1	43	1.16
545041--545074	13	2.6	13	85	0	50	61	0	0	38	0.96
545096--545133	20	1.9	20	94	0	67	7	47	10	34	1.67
545187--545218	15	2.1	15	94	0	55	6	65	0	28	1.16
545286--545316	7	4.4	7	95	0	53	0	45	9	45	1.36
545513--545604	48	1.9	48	93	0	157	41	7	5	45	1.55
545686--545722	18	2.1	18	94	0	65	51	18	10	18	1.75
553416--553461	20	2.3	20	100	0	92	28	17	13	41	1.86
557418--557541	41	3.0	41	66	10	108	28	18	23	29	1.98
557418--557573	82	1.9	83	87	1	233	29	19	21	30	1.97
558001--558026	8	3.2	8	100	0	52	11	11	26	50	1.73
559090--559237	79	1.9	79	80	10	178	32	20	19	27	1.97
559233--559451	41	5.3	41	70	17	166	31	17	17	32	1.94
559283--559403	42	2.9	42	75	13	133	32	19	19	28	1.96
559227--559493	83	3.2	82	86	1	372	31	17	17	32	1.94
559274--559493	41	5.3	41	71	16	166	31	18	18	32	1.95
562334--562392	25	2.4	25	97	0	109	37	5	25	32	1.78
567527--567602	39	1.9	39	94	0	134	32	9	31	26	1.88
572723--572756	16	2.1	16	94	0	59	32	8	26	32	1.87
573507--573538	15	2.1	16	94	5	57	50	18	25	6	1.70
577874--577970	41	2.4	41	91	0	158	27	18	26	26	1.98
580611--580642	17	1.9	16	93	6	55	46	3	12	37	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
580676--580722	2	25.0	2	83	12	64	51	0	0	48	1.00
583932--583984	21	2.7	20	79	5	63	64	0	0	35	0.94
586781--586837	25	2.2	25	87	3	78	1	26	0	71	0.95
586796--586822	14	1.9	14	100	0	54	0	22	0	77	0.76
593346--593412	2	33.5	2	100	0	134	50	0	49	0	1.00
594681--594747	2	33.5	2	100	0	134	49	0	0	50	1.00
601102--601168	31	2.2	31	97	0	125	31	8	8	50	1.64
601942--601992	22	2.3	23	79	3	59	49	1	0	49	1.12
601956--602022	25	2.6	27	79	13	86	43	2	1	52	1.25
601953--602046	27	3.6	27	81	8	95	41	3	1	54	1.23
604798--604828	15	2.1	15	100	0	62	48	0	6	45	1.28
610487--610567	18	4.0	21	76	19	84	23	19	27	29	1.98
610487--610572	40	2.2	40	89	0	127	25	18	25	30	1.98
614367--614419	25	2.1	25	96	0	97	50	3	20	24	1.64
624521--624570	20	2.5	20	83	6	66	30	18	24	28	1.97
625744--625786	21	2.2	20	87	8	61	20	20	6	51	1.71
628554--628583	15	1.9	16	93	6	53	60	0	0	40	0.97
629100--629168	35	2.1	34	83	8	88	40	0	2	56	1.14
629075--629185	21	5.2	21	67	20	54	43	1	1	53	1.22
629344--629476	32	4.1	31	76	21	105	45	1	1	51	1.19
629344--629481	69	2.0	70	80	12	160	45	1	1	51	1.19
629394--629475	31	2.7	32	78	14	84	46	1	1	51	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
631254--631284	3	10.3	3	100	0	62	32	0	0	67	0.91
642909--642960	9	6.1	9	76	13	56	63	1	0	34	1.06
642911--642967	16	3.5	16	88	4	78	63	1	0	35	1.05
647904--647941	18	2.1	19	85	5	51	26	31	7	34	1.85
660466--660496	15	2.1	15	93	0	53	48	3	6	41	1.45
661511--661590	13	6.1	13	67	8	54	25	0	35	40	1.56
661590--661639	25	2.1	25	81	7	59	42	2	18	38	1.61
661773--661818	18	2.6	18	100	0	92	60	0	0	39	0.97
662596--662669	19	3.8	19	77	13	69	33	8	17	40	1.79
662588--662649	21	3.0	21	79	6	74	30	8	16	45	1.76
662588--662668	40	2.0	40	85	0	108	33	8	14	43	1.76
664111--664150	12	3.3	12	82	10	55	75	0	25	0	0.81
664112--664150	17	2.4	16	84	16	53	74	0	25	0	0.82
664109--664150	18	2.3	18	80	19	52	73	0	26	0	0.83
666076--666114	19	2.1	19	95	0	69	41	17	5	35	1.72
666220--666293	20	3.8	20	79	10	64	35	13	10	40	1.80
670883--670915	14	2.4	14	94	0	57	60	9	24	6	1.49
679929--679965	14	2.6	14	100	0	74	10	13	45	29	1.77
682924--682965	19	2.1	21	91	8	70	47	7	0	45	1.30
684506--684582	24	3.2	24	83	5	102	29	22	25	22	1.99
684511--684582	25	2.9	25	85	2	101	27	23	26	22	1.99
684716--684795	15	5.3	15	84	0	97	37	21	5	36	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
690837--690869	17	2.0	17	88	5	50	30	15	12	42	1.83
691434--691507	24	3.0	24	84	3	103	29	24	21	24	1.99
691426--691499	24	3.1	24	84	3	96	29	27	18	24	1.98
691434--691507	25	3.0	25	86	2	105	29	24	21	24	1.99
691637--691704	15	4.5	15	83	0	73	38	20	4	36	1.73
693336--693360	12	2.1	12	100	0	50	44	8	16	32	1.76
694006--694057	20	2.6	19	87	6	77	38	17	26	17	1.92
694612--694676	34	1.9	34	90	0	103	36	7	24	30	1.84
694560--694721	79	2.1	79	89	2	245	37	9	24	29	1.86
697247--697295	22	2.2	21	82	7	53	48	2	0	48	1.12
697255--697306	18	2.7	18	77	16	52	51	0	1	46	1.12
697255--697315	19	3.2	18	77	15	61	54	0	1	44	1.10
702769--702885	61	1.9	61	81	8	141	34	11	15	39	1.83
703099--703225	60	2.1	59	81	8	150	29	14	22	33	1.94
704998--705023	11	2.4	11	100	0	52	34	0	7	57	1.27
709023--709078	27	2.1	27	86	0	76	17	8	19	53	1.70
709825--709865	22	1.9	22	85	14	59	24	4	7	63	1.40
733333--733359	7	3.9	7	100	0	54	59	0	11	29	1.32
735219--735272	21	2.7	20	83	8	65	33	7	16	42	1.76
741073--741106	8	4.1	8	85	7	50	14	2	0	82	0.79
750156--750200	23	1.9	24	81	4	56	24	0	24	51	1.49
753003--753043	2	20.5	2	100	0	82	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
753662--753737	36	2.1	36	85	7	100	46	1	3	48	1.29
754404--754492	46	2.0	45	82	6	108	42	2	1	53	1.20
754413--754493	23	3.5	23	83	3	92	40	2	1	55	1.21
754466--754523	19	3.3	18	71	26	52	43	1	1	53	1.21
754656--754716	22	2.8	23	79	18	60	44	3	1	50	1.28
757526--757715	96	2.0	95	87	1	272	42	15	11	30	1.82
757887--757935	24	2.0	24	100	0	98	8	14	24	53	1.68
757887--757928	14	3.3	14	75	25	56	7	14	26	52	1.67
757893--757948	24	2.3	24	90	0	85	12	10	19	57	1.64
759008--759063	16	3.5	16	90	0	76	8	14	21	55	1.66

Tables:   1   2   3   4   5