genome.fa.s4123.2.7.7.80.10.50.1000.4.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: VEPZ01004123.1 Hibiscus syriacus cultivar Beakdansim tig00009023_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1596068

Tables:   1   2   3   4   5   6   7   8   9   

This is table  4  of  9  ( 1036 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)
624824--624871	21	2.3	21	85	0	60	22	12	39	25	1.89
626575--626663	34	2.7	31	82	6	106	59	1	0	39	1.05
626578--626652	31	2.4	33	77	11	84	60	1	0	38	1.06
626608--626683	33	2.3	34	80	14	88	64	3	0	31	1.12
627841--627876	2	18.0	2	100	0	72	50	0	0	50	1.00
627908--628069	80	2.0	80	84	4	211	25	23	12	37	1.91
628009--628334	68	4.9	68	84	7	445	31	23	12	32	1.92
628009--628324	128	2.4	131	88	5	451	31	22	12	32	1.91
628710--628876	59	2.9	58	83	5	194	34	20	11	33	1.89
629262--629324	22	3.0	20	73	11	63	25	28	15	30	1.96
629221--629393	95	1.8	95	87	2	258	26	24	16	31	1.96
634145--634260	17	6.9	17	71	16	50	34	1	1	62	1.16
634151--634191	19	2.2	19	86	8	57	26	0	2	70	0.99
634187--634239	2	26.5	2	86	0	70	43	1	1	52	1.23
634145--634257	12	10.1	11	75	19	67	34	1	1	61	1.16
634146--634265	14	8.2	13	74	16	69	35	1	1	60	1.16
634321--634365	2	22.5	2	100	0	90	48	0	0	51	1.00
637913--637954	19	2.2	20	87	12	61	16	7	4	71	1.26
645460--645521	18	3.4	18	81	16	74	82	4	12	0	0.82
645464--645496	17	1.9	17	100	0	66	84	6	9	0	0.76
645457--645521	28	2.4	28	87	7	89	81	4	13	0	0.84
648932--648972	19	2.2	19	86	8	57	26	0	2	70	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
648935--649013	12	7.3	11	74	16	51	32	1	2	63	1.16
649122--649221	51	1.9	53	84	10	134	27	7	2	64	1.30
649428--649465	14	2.6	14	87	4	58	18	7	0	73	1.06
651699--651733	18	2.1	18	89	10	56	25	0	11	62	1.28
652721--653379	5	132.8	5	98	1	1283	59	20	0	19	1.37
656244--656312	23	3.0	23	84	0	102	30	26	26	17	1.97
662168--662456	36	8.1	36	78	11	301	26	19	12	40	1.88
662168--662456	73	4.1	72	75	11	290	26	19	12	40	1.88
662168--662421	138	1.8	138	86	3	368	27	19	12	40	1.87
662303--662456	37	4.2	36	81	4	166	25	19	12	41	1.87
664454--664615	5	32.2	5	96	3	299	59	0	0	40	0.97
665232--665311	5	16.0	5	79	10	92	76	0	2	21	0.91
665258--665302	23	2.0	23	100	0	90	80	0	2	17	0.82
665232--665307	28	2.8	28	88	6	102	76	0	2	21	0.91
666199--666234	7	5.1	7	100	0	72	27	13	44	13	1.82
666524--666577	11	5.0	10	80	17	56	3	9	1	85	0.80
666513--666576	22	2.9	23	86	4	78	4	7	3	84	0.86
666500--666568	12	5.5	12	78	14	68	4	8	4	82	0.93
667273--667337	27	2.5	26	75	9	69	47	9	6	36	1.60
667780--667832	26	2.0	26	85	10	72	50	3	15	30	1.61
670578--670634	7	8.1	7	96	0	105	28	12	43	15	1.83
670849--670877	2	14.5	2	100	0	58	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
672427--672496	23	2.9	23	79	12	61	20	8	0	71	1.11
672432--672496	31	2.1	32	83	13	82	20	9	0	70	1.13
683819--683868	22	2.2	23	85	3	66	82	6	12	0	0.85
683935--683964	14	2.1	14	93	0	51	83	0	16	0	0.65
685084--685282	109	1.8	109	84	4	276	36	22	17	24	1.94
687613--687661	17	2.8	18	82	11	50	14	10	2	73	1.18
687621--687685	27	2.4	26	78	14	69	20	9	0	70	1.13
689918--690333	137	3.0	137	82	5	462	44	13	12	29	1.80
694586--694619	7	4.9	7	92	0	59	58	0	23	17	1.38
697338--697373	3	12.0	3	87	0	54	69	2	0	27	1.02
697561--698136	134	4.3	134	86	0	787	33	19	16	30	1.94
697561--698165	266	2.3	266	86	1	809	33	19	16	30	1.94
698722--699007	45	6.4	45	80	6	278	41	20	16	21	1.90
698846--699516	38	16.9	40	78	11	404	40	18	17	24	1.91
698947--699516	38	14.7	38	81	5	615	38	18	18	24	1.92
698985--699518	156	3.4	156	86	3	677	38	17	18	24	1.92
701372--701438	17	4.0	17	78	16	77	10	17	0	71	1.13
701419--701474	22	2.5	22	80	11	53	5	17	1	75	1.09
708400--708463	3	21.3	3	100	0	128	65	0	0	34	0.93
714223--714335	40	2.8	40	86	0	154	28	27	14	30	1.95
716989--717205	110	2.0	109	82	8	262	35	23	17	22	1.95
717589--717639	25	2.0	25	84	0	66	23	17	11	47	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
719005--719071	29	2.3	29	97	0	125	19	1	38	40	1.61
719007--719059	17	3.4	17	65	24	53	20	1	37	39	1.64
719113--719221	3	37.0	3	71	17	77	61	0	4	33	1.16
719113--719221	46	2.5	43	82	13	116	61	0	4	33	1.16
726793--726869	32	2.4	32	93	2	127	58	6	2	32	1.37
726790--726879	32	2.6	34	82	10	121	60	6	2	31	1.35
727070--727319	71	3.5	69	75	5	187	19	21	23	35	1.96
727961--727993	9	3.7	9	95	0	57	3	18	0	78	0.87
735875--735948	21	3.5	21	69	10	62	25	1	24	48	1.59
736049--736099	7	7.4	7	73	4	50	19	0	33	47	1.50
738526--738592	22	3.0	22	95	2	116	25	28	26	19	1.99
740285--740329	21	2.1	21	87	0	63	15	24	28	31	1.96
743881--743914	15	2.3	15	100	0	68	32	11	14	41	1.82
744964--745071	54	2.0	54	92	0	180	28	25	13	32	1.94
748628--748665	20	1.9	20	94	0	67	15	18	7	57	1.62
750078--750150	19	3.8	19	71	7	58	20	31	17	30	1.96
755113--755166	22	2.4	23	81	6	74	14	24	24	37	1.93
757855--757894	18	2.2	19	86	4	55	52	2	0	45	1.14
757944--758021	30	2.6	30	80	11	97	51	7	7	33	1.59
758046--758151	35	3.0	35	88	0	149	59	5	2	32	1.35
760383--760457	33	2.4	31	84	8	98	52	2	8	37	1.45
760396--760468	33	2.2	33	92	0	128	58	1	5	34	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
760433--760484	22	2.4	22	93	6	88	50	3	7	38	1.50
760586--760615	16	1.9	15	93	6	51	40	0	30	30	1.57
761227--761293	23	3.3	19	75	17	62	56	0	4	38	1.19
761531--761577	18	2.7	18	83	3	60	40	8	23	27	1.83
762269--762743	237	2.0	232	90	2	745	39	19	13	28	1.89
761987--762530	285	1.9	277	84	7	704	39	19	12	28	1.88
766790--766844	26	2.1	27	83	10	69	47	23	14	14	1.81
766779--766844	27	2.4	27	78	12	64	48	24	13	13	1.79
766979--767027	10	4.8	10	85	5	53	10	10	16	63	1.52
766996--767040	20	2.2	20	84	0	54	13	4	20	62	1.48
767253--767412	65	2.5	64	85	8	200	26	20	23	29	1.99
767253--767453	65	3.1	64	75	11	187	25	20	23	30	1.98
769929--770008	22	3.6	22	77	5	81	26	25	25	23	2.00
769907--770027	43	2.8	42	73	11	111	24	22	26	26	2.00
773674--773732	29	2.0	29	100	0	118	35	13	13	37	1.84
778294--778391	37	2.7	37	92	3	164	39	9	16	34	1.80
778294--778401	36	3.0	37	90	4	168	39	8	15	36	1.78
784205--784249	21	2.1	21	87	0	63	22	24	17	35	1.95
784239--784349	20	5.6	20	96	0	204	38	20	20	19	1.93
784338--784424	20	4.3	20	97	0	156	28	27	19	24	1.98
784335--784463	60	2.2	59	76	13	131	31	25	16	27	1.96
786443--786531	20	4.4	20	87	2	126	38	24	20	16	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
786443--786531	40	2.2	40	90	4	144	38	24	20	16	1.93
786536--786588	20	2.7	20	94	2	90	47	18	20	13	1.82
786766--786802	14	2.6	14	86	0	56	48	21	0	29	1.50
788175--788255	40	2.0	41	85	2	110	20	19	37	22	1.95
788179--788263	21	4.1	21	71	6	75	23	20	35	21	1.96
788746--788834	20	4.4	20	89	0	124	37	21	20	21	1.95
788841--788959	53	2.2	53	79	5	125	15	19	20	44	1.87
788877--788925	20	2.5	20	89	0	80	16	22	22	38	1.92
788899--788992	33	2.8	34	80	3	109	13	19	21	45	1.84
790878--790947	20	3.5	20	90	0	86	41	25	17	15	1.89

Tables:   1   2   3   4   5   6   7   8   9