genome.fa.s5349.2.7.7.80.10.50.1000.3.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: VEPZ01005349.1 Hibiscus syriacus cultivar Beakdansim tig00012136_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1796274

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 858 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)
523937--523993	18	3.0	18	89	7	78	14	22	45	17	1.84
529018--529062	21	2.1	21	91	0	72	26	42	22	8	1.83
530683--530716	17	2.0	17	100	0	68	35	5	17	41	1.74
533259--533371	29	3.9	28	80	6	109	44	13	5	37	1.66
533259--533374	58	2.0	58	89	3	180	43	14	6	36	1.70
533378--533403	13	2.0	13	100	0	52	15	23	46	15	1.83
540575--540630	27	2.1	27	89	0	85	39	14	5	41	1.68
540564--540736	29	5.9	29	73	13	129	43	12	6	36	1.70
540744--540791	18	2.7	18	93	0	78	8	22	47	20	1.77
543861--543916	23	2.4	23	79	5	60	14	17	14	53	1.73
546942--547032	24	3.8	24	86	2	130	37	18	15	28	1.91
546942--547032	47	1.9	48	90	2	148	37	18	15	28	1.91
546935--547041	24	4.5	24	80	6	101	39	18	14	28	1.89
552034--552089	23	2.4	24	81	6	69	35	17	17	28	1.93
556152--556184	3	11.0	3	100	0	66	66	0	0	33	0.92
556896--556993	48	2.0	49	86	4	135	60	12	12	15	1.60
562901--563139	121	2.0	122	93	0	408	30	25	16	27	1.96
568016--568240	121	1.9	121	93	1	389	30	26	15	27	1.96
571212--571283	24	3.0	24	67	25	62	43	13	5	37	1.68
571260--571334	35	2.1	35	85	0	96	44	18	1	36	1.59
571331--571373	21	2.0	21	90	0	68	37	0	13	48	1.43
571342--571427	35	2.5	35	88	0	118	36	1	19	43	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
577557--577594	15	2.4	16	91	4	60	26	5	21	47	1.71
579742--579896	65	2.4	65	86	7	201	30	18	22	27	1.97
580236--580269	12	2.7	13	86	9	52	41	5	8	44	1.60
582561--582662	44	2.3	44	86	1	143	27	19	21	31	1.97
583306--583348	19	2.3	19	100	0	86	44	18	6	30	1.76
588331--588402	19	3.7	19	72	7	72	26	20	30	22	1.98
588390--588544	64	2.4	63	84	6	170	30	18	22	27	1.97
590404--590461	23	2.5	23	83	5	64	17	15	18	48	1.82
591667--591713	2	23.5	2	100	0	94	48	0	0	51	1.00
592205--592237	17	1.9	17	100	0	66	48	12	15	24	1.78
597395--597423	3	9.7	3	100	0	58	34	0	0	65	0.93
602739--602789	18	2.8	18	78	3	57	21	35	31	11	1.90
602824--602896	24	3.1	24	82	9	87	21	26	23	28	1.99
602837--602896	24	2.5	23	91	2	93	21	25	23	30	1.99
603566--603775	104	2.0	104	100	0	420	36	16	15	32	1.90
606470--606525	20	2.7	21	83	13	71	33	0	1	64	1.04
606638--606685	23	2.0	23	84	8	60	41	0	2	56	1.11
606641--606697	21	2.8	20	76	15	64	43	0	1	54	1.10
606984--607027	17	2.6	17	85	3	63	31	4	15	47	1.66
607830--607887	26	2.2	27	84	6	75	53	1	3	41	1.28
610733--610839	42	2.6	42	97	2	200	28	7	23	40	1.82
620798--620835	12	3.2	12	100	0	76	57	10	15	15	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
621105--621182	22	3.6	22	98	1	149	35	3	16	43	1.66
624754--624845	31	3.0	31	100	0	184	42	6	28	22	1.78
626309--626333	13	1.9	13	100	0	50	16	0	12	72	1.13
626807--626853	25	1.9	24	91	4	76	57	0	4	38	1.18
626848--626887	20	2.0	20	85	0	53	30	7	2	60	1.38
627081--627112	2	16.0	2	100	0	64	50	0	0	50	1.00
633846--634019	75	2.3	75	82	2	188	30	13	22	32	1.93
634722--634920	54	3.7	54	84	2	256	37	13	19	30	1.89
635991--636356	45	8.1	45	88	0	536	22	21	20	35	1.96
636789--636842	3	17.7	3	96	3	99	35	0	0	64	0.94
637806--637830	13	1.9	13	100	0	50	16	0	12	72	1.13
638269--638305	18	2.0	19	89	5	58	40	0	2	56	1.13
638326--638365	20	2.0	20	85	0	53	30	7	2	60	1.38
638561--638601	2	21.0	2	95	5	75	51	0	0	48	1.00
639229--639309	2	40.5	2	100	0	162	49	0	0	50	1.00
642190--642271	18	4.6	18	89	0	110	19	47	18	14	1.82
645322--645443	40	3.0	40	96	0	226	24	17	25	32	1.96
645550--645726	48	3.7	46	78	13	164	38	7	22	31	1.83
647628--647681	24	2.2	24	90	0	81	18	11	18	51	1.74
647637--647688	24	2.2	24	85	0	68	25	7	17	50	1.72
652722--652761	19	2.2	19	86	4	55	70	5	2	22	1.19
654105--654208	3	35.0	3	85	1	138	64	0	2	32	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
654113--654221	12	9.8	11	77	16	59	65	0	4	30	1.13
667495--667558	16	4.0	16	81	15	62	76	0	15	7	1.00
667488--667539	8	6.8	8	91	8	90	76	0	11	11	1.01
668489--668861	105	3.6	105	89	1	552	37	17	21	23	1.94
669312--669350	15	2.4	16	83	12	53	33	43	2	20	1.65
673525--673578	28	2.0	26	85	7	72	40	7	3	48	1.49
679709--679743	9	3.9	9	96	0	61	25	8	20	45	1.79
679707--679750	18	2.6	17	86	10	63	22	6	20	50	1.72
680760--680833	33	2.3	32	80	2	94	62	12	10	14	1.55
681439--681463	12	2.1	12	100	0	50	16	0	0	84	0.63
683949--684166	118	1.8	118	96	0	400	17	15	33	32	1.92
690288--690456	29	5.8	29	88	2	241	24	8	18	47	1.77
691169--691386	118	1.8	118	96	0	400	17	16	33	32	1.92
693902--693957	20	2.7	22	81	15	66	35	1	1	60	1.17
695338--695376	3	13.0	3	100	0	78	66	0	0	33	0.92
700412--700446	17	2.1	17	94	0	61	31	20	20	28	1.97
703321--703356	12	2.9	12	87	4	54	47	5	11	36	1.63
703813--703869	23	2.7	20	75	15	60	29	21	24	24	1.99
709031--709107	23	3.6	22	79	8	79	28	22	18	31	1.97
709566--709600	12	2.8	12	91	4	52	37	11	5	45	1.64
712503--712538	17	2.1	17	94	0	63	30	16	13	38	1.88
712766--712795	13	2.4	13	94	5	53	23	0	3	73	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
713402--713440	20	2.0	20	100	0	78	30	25	15	28	1.96
721015--721041	11	2.5	11	100	0	54	37	25	18	18	1.94
725306--725352	18	2.5	19	82	6	60	29	23	14	31	1.95
726243--726302	24	2.5	24	88	0	93	25	16	18	40	1.91
728923--728991	20	3.5	20	83	0	93	26	18	20	34	1.96
728899--729000	40	2.5	40	87	0	141	23	17	21	37	1.94
729062--729219	63	2.5	64	91	2	264	51	15	1	30	1.54
730596--730670	35	2.1	35	90	0	114	34	28	26	10	1.90
730747--730837	24	3.8	24	83	2	112	37	18	17	26	1.93
730747--730837	47	1.9	48	86	2	130	37	18	17	26	1.93
733311--733392	18	4.6	18	89	0	101	15	17	50	17	1.79
733305--733334	13	2.3	13	88	0	51	13	20	50	16	1.78
734792--734889	21	4.7	21	85	3	117	25	20	32	21	1.97
737020--737102	20	4.2	20	81	1	96	45	20	18	15	1.85
737009--737102	40	2.4	39	80	8	109	46	19	17	17	1.84
737466--737523	22	2.6	22	88	0	89	18	18	43	18	1.89
737674--737773	20	5.0	20	95	0	173	17	11	24	48	1.79
737674--737801	60	2.1	60	82	5	152	19	11	22	46	1.82
741828--741878	21	2.4	21	100	0	102	17	37	25	19	1.94
743893--743930	15	2.5	15	100	0	76	52	13	10	23	1.71
755420--755470	10	5.3	10	80	15	63	27	29	29	13	1.94
755420--755470	20	2.7	20	82	17	72	27	29	29	13	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
758672--758703	16	2.0	16	93	0	55	6	6	3	84	0.86
763689--763740	26	2.0	26	84	0	68	15	42	23	19	1.89
763710--763755	18	2.6	18	93	3	76	17	45	23	13	1.83
763762--763943	29	6.4	29	80	6	174	30	6	21	41	1.78
763776--763933	84	1.9	85	89	4	248	32	6	20	40	1.77
767342--767376	18	1.9	18	94	0	61	11	48	25	14	1.77
767387--767535	29	5.1	28	81	6	163	30	4	24	40	1.75
767387--767544	58	2.7	57	82	4	181	31	5	23	39	1.76
772360--772412	27	2.0	27	100	0	106	24	22	45	7	1.78
772921--772999	36	2.2	36	100	0	158	29	12	12	45	1.79

Tables:   1   2   3   4   5   6   7   8