genome.fa.s9084.2.7.7.80.10.50.1000.3.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: VEPZ01009084.1 Hibiscus syriacus cultivar Beakdansim tig00112528_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  881682

Tables:   1   2   3   4   

This is table  3  of  4  ( 448 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)
429978--430064	16	5.4	16	72	8	70	68	9	21	0	1.17
429976--430031	18	3.1	18	89	0	85	69	8	21	0	1.15
438557--438858	165	1.8	164	96	2	561	27	12	22	37	1.91
438557--438858	82	3.7	82	97	1	561	27	12	22	37	1.91
439591--439879	113	2.6	113	97	1	535	38	13	19	28	1.90
439781--439959	94	1.9	93	86	2	250	35	17	16	29	1.93
439668--440073	208	2.0	207	85	3	559	36	15	18	29	1.91
439933--440359	233	1.8	229	85	6	603	38	12	19	29	1.89
439933--440359	117	3.7	116	86	5	573	38	12	19	29	1.89
440583--440650	3	23.0	3	96	3	129	33	0	0	66	0.92
440645--440687	12	3.4	13	87	12	63	60	0	0	39	0.97
441092--441185	20	4.3	21	71	16	75	71	8	20	0	1.12
441115--441183	16	4.4	16	76	7	70	68	8	23	0	1.17
444616--444660	19	2.4	19	100	0	90	46	0	15	37	1.46
448784--448847	3	21.0	3	81	9	76	29	1	0	68	0.99
448775--448843	31	2.2	31	87	7	95	27	1	0	71	0.95
449419--449463	23	1.9	24	82	13	58	51	0	0	48	1.00
453356--453411	25	2.2	26	78	6	62	51	0	7	41	1.29
453968--454042	31	2.5	29	81	12	89	50	2	6	40	1.43
457964--457989	13	2.0	13	100	0	52	46	15	15	23	1.83
463579--463616	2	19.0	2	100	0	76	50	0	0	50	1.00
463644--463714	30	2.4	31	88	4	101	49	0	1	49	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
464477--464512	2	18.0	2	100	0	72	50	0	0	50	1.00
467449--467491	20	2.1	21	82	4	52	27	2	6	62	1.33
469034--469124	31	3.0	31	95	3	159	34	6	16	42	1.74
469271--469312	21	2.0	21	95	0	75	23	21	28	26	1.99
469341--469380	20	1.9	21	85	10	55	37	37	10	15	1.80
471326--471376	23	2.3	23	82	3	59	27	21	27	23	1.99
475223--475252	15	2.0	15	93	0	51	43	0	50	6	1.28
478278--478323	20	2.3	20	88	3	67	36	0	26	36	1.57
478330--478391	9	6.7	9	73	12	54	29	1	33	35	1.67
478339--478378	21	1.9	21	89	0	62	27	0	35	37	1.57
480129--480167	20	2.0	19	90	5	60	48	7	17	25	1.74
484656--484706	22	2.4	21	80	6	59	17	3	17	60	1.50
487419--487465	22	2.1	23	88	4	69	44	2	0	53	1.12
487785--487861	27	3.0	26	76	18	81	48	0	2	49	1.15
487785--487859	23	2.9	26	77	18	77	49	0	2	48	1.15
487955--487981	14	1.9	14	100	0	54	37	14	3	44	1.63
502746--502804	29	2.0	29	100	0	118	49	13	13	23	1.78
507430--507488	29	2.0	29	100	0	118	49	13	13	23	1.78
508655--508679	2	12.5	2	100	0	50	52	0	0	48	1.00
509794--509852	30	1.9	31	83	10	77	28	20	22	28	1.98
509913--509980	30	2.2	30	82	14	86	35	1	1	61	1.14
509931--509995	30	2.2	30	81	10	71	33	3	3	60	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
523459--523534	36	2.1	36	92	0	125	34	15	30	19	1.93
542246--542358	34	3.1	38	83	11	153	35	21	18	24	1.96
542505--542606	42	2.5	41	81	1	123	24	23	22	29	1.99
543056--543265	53	3.9	53	83	1	242	29	21	26	22	1.99
544354--544389	17	2.1	17	94	0	63	33	0	16	50	1.46
546115--546155	13	3.0	14	76	20	50	58	0	0	41	0.98
550108--550160	22	2.4	22	87	0	79	18	20	15	45	1.85
553596--553709	60	1.9	58	86	8	160	46	8	6	38	1.60
554146--554207	21	3.1	21	65	30	55	46	14	8	30	1.73
554500--554574	31	2.4	31	86	0	105	33	12	8	46	1.70
563989--564018	3	10.0	3	100	0	60	0	33	0	66	0.92
564687--564736	14	3.6	14	91	0	64	58	14	14	14	1.65
564899--565015	31	3.8	31	78	7	121	43	2	3	50	1.32
567252--567323	37	2.0	37	91	2	119	54	18	8	19	1.68
569250--569275	2	13.0	2	100	0	52	50	0	0	50	1.00
576782--576823	22	1.9	22	85	9	59	35	11	4	47	1.61
577123--577180	29	2.0	29	86	0	80	32	13	31	22	1.93
577491--577534	22	2.0	22	100	0	88	18	36	9	36	1.82
578765--578791	13	2.1	13	100	0	54	29	7	29	33	1.85
579775--579884	45	2.4	45	81	3	114	20	30	22	25	1.98
580081--580501	114	3.8	113	80	8	416	30	26	22	19	1.98
580255--580463	105	2.0	105	85	3	287	30	24	23	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
586969--587038	12	5.8	12	72	0	59	25	52	0	21	1.47
586972--587038	21	3.2	21	76	0	71	25	53	0	20	1.46
597082--597130	25	2.0	24	84	7	64	51	0	10	38	1.36
597971--598002	15	2.1	15	94	0	55	65	0	0	34	0.93
601766--601843	38	2.1	37	85	4	104	50	3	1	44	1.28
602435--602515	22	3.9	22	66	29	61	51	0	1	46	1.08
613768--613798	11	2.7	12	90	10	55	29	16	38	16	1.90
613854--613962	29	3.8	29	95	2	184	14	31	32	22	1.94
614141--614192	25	2.1	25	92	0	86	28	11	32	26	1.91
614205--614250	23	2.0	23	91	0	74	47	4	34	13	1.62
614205--614265	23	2.6	23	81	5	59	50	6	32	9	1.61
614255--614307	21	2.5	21	96	0	97	62	0	35	1	1.06
614253--614284	17	1.9	16	93	6	55	62	0	37	0	0.95
614511--614600	45	2.0	47	86	8	132	40	0	12	47	1.41
614751--614850	50	2.1	47	81	12	114	35	0	14	51	1.42
616952--616984	17	1.9	17	93	0	57	45	12	6	36	1.66
616969--617037	22	3.0	22	73	19	77	47	7	4	40	1.51
617174--617260	38	2.4	37	81	9	99	51	4	2	41	1.35
617190--617848	14	48.5	13	71	20	280	44	9	2	44	1.48
617190--617854	26	26.6	26	73	12	455	44	9	2	44	1.48
617206--617854	124	5.2	124	87	7	874	44	9	2	44	1.48
617325--617815	150	3.3	146	88	7	636	43	9	2	44	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
620690--620750	26	2.4	24	76	15	59	42	1	6	49	1.38
621532--621580	21	2.3	21	82	3	62	51	18	0	30	1.47
622009--622076	35	1.9	35	100	0	136	26	14	29	29	1.95
622116--622140	12	2.1	12	100	0	50	24	60	0	16	1.36
622134--622204	29	2.4	29	100	0	142	18	35	25	21	1.95
622367--622431	31	2.1	31	100	0	130	35	32	29	3	1.73
622454--622567	29	3.9	29	97	2	212	18	28	38	14	1.90
625078--625121	2	22.0	2	100	0	88	50	0	0	50	1.00
628739--628861	39	3.2	39	92	1	203	27	27	15	29	1.96
629370--629441	21	3.4	21	92	0	117	8	22	23	45	1.79
641607--641647	20	2.0	20	95	0	73	24	26	19	29	1.98
642494--642547	24	2.2	24	93	0	90	20	18	20	40	1.91
642737--642773	14	2.5	15	86	8	58	54	21	18	5	1.64
644800--645082	140	2.0	140	95	0	512	27	12	15	44	1.82
645053--645514	20	23.9	20	77	7	326	28	20	20	30	1.98
645100--645479	133	2.8	133	83	2	483	27	20	21	30	1.98
645128--645546	153	2.7	153	79	4	502	28	20	21	29	1.98
645651--645687	14	2.6	14	100	0	74	48	21	0	29	1.50
646991--647105	21	5.5	21	72	4	88	22	19	37	20	1.94
647004--647113	42	2.6	42	81	2	132	23	19	38	19	1.93
647563--647650	40	2.2	40	87	0	122	37	23	18	20	1.94
647563--647651	20	4.4	20	81	0	106	37	23	19	20	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
647656--647694	18	2.2	18	85	0	51	48	23	15	12	1.79
647727--647773	20	2.3	20	85	0	58	23	19	21	36	1.95
649685--649735	20	2.5	20	93	0	84	50	23	13	11	1.74
649723--649760	20	1.9	20	94	0	67	36	18	23	21	1.95
650180--650230	22	2.3	22	96	0	93	19	9	45	25	1.81
650556--650592	19	1.9	19	94	0	65	21	16	29	32	1.95
655666--655762	22	4.4	22	96	0	176	22	20	32	23	1.98
656203--656328	47	2.8	44	80	12	139	31	20	7	40	1.80
656217--656328	47	2.4	47	84	7	142	32	19	8	40	1.81
656433--656514	40	2.0	40	97	0	155	34	26	15	23	1.95

Tables:   1   2   3   4