genome.fa.s2875.2.7.7.80.10.50.1000.2.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: VEPZ01002875.1 Hibiscus syriacus cultivar Beakdansim tig00005929_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1473696

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 570 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)
356789--356829	20	2.0	20	85	0	55	51	2	0	46	1.14
376968--377022	24	2.3	24	87	6	76	25	9	14	50	1.72
379091--379148	23	2.5	23	97	0	107	31	25	20	22	1.98
379132--379183	12	4.3	12	72	0	50	40	25	15	19	1.90
384520--384605	41	2.1	42	84	2	111	17	31	6	44	1.75
387033--387089	24	2.4	24	76	5	62	21	28	29	21	1.98
394204--394268	24	2.9	24	72	21	68	30	20	29	20	1.97
398294--398355	20	2.8	22	79	18	74	30	20	29	19	1.97
402402--402564	57	2.8	57	80	6	195	45	3	14	36	1.62
402428--402537	29	3.8	28	71	9	87	46	4	13	35	1.64
406866--406892	2	13.5	2	100	0	54	51	0	0	48	1.00
406892--406933	2	21.0	2	95	0	75	47	0	52	0	1.00
408435--408491	27	2.1	27	93	0	96	38	1	15	43	1.57
411974--412040	33	2.0	33	94	0	116	41	17	23	16	1.89
414668--414749	43	1.9	43	92	0	137	32	9	15	41	1.80
415265--415346	28	2.8	29	92	5	139	43	9	14	31	1.78
420020--420102	29	2.8	29	92	1	139	43	9	14	32	1.78
426942--426980	16	2.5	16	87	4	53	35	23	5	35	1.77
431247--431280	6	5.7	6	96	0	50	5	8	52	32	1.56
431247--431287	12	3.4	12	89	0	55	9	7	51	31	1.62
432071--432137	29	2.3	29	92	0	116	29	26	19	23	1.98
433888--434224	68	5.0	68	82	6	454	46	12	12	27	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
438598--438719	62	2.0	62	96	0	226	32	14	18	33	1.92
452127--452165	17	2.4	16	82	4	51	41	0	5	53	1.23
454906--454948	9	4.4	10	88	11	63	32	30	23	13	1.93
454911--454949	20	1.9	20	94	5	69	35	28	20	15	1.93
461129--461250	62	2.0	62	96	0	226	32	14	18	33	1.92
474654--474692	17	2.4	16	82	4	51	41	0	5	53	1.23
477433--477475	9	4.4	10	88	11	63	32	30	23	13	1.93
477438--477476	20	1.9	20	94	5	69	35	28	20	15	1.93
486689--486716	14	2.0	14	100	0	56	21	21	35	21	1.96
488872--488959	4	22.2	4	90	2	142	29	0	23	46	1.53
490475--490501	2	13.5	2	100	0	54	48	0	0	51	1.00
492053--492097	22	2.1	22	87	4	65	46	2	2	48	1.26
493584--493618	18	1.9	18	88	0	52	60	0	0	40	0.97
503028--503142	52	2.2	50	78	4	122	45	7	3	43	1.50
507825--507862	19	2.0	19	89	0	58	52	0	0	47	1.00
515583--515609	12	2.2	12	100	0	54	85	0	14	0	0.61
518203--518243	20	2.0	20	86	9	57	51	2	2	43	1.28
522442--522471	16	1.9	16	93	6	53	40	6	13	40	1.71
523887--523954	28	2.3	29	87	12	95	32	10	8	48	1.68
535112--535168	18	3.2	18	80	11	55	1	28	3	66	1.18
535127--535186	9	6.3	9	78	17	52	1	30	1	66	1.11
535096--535168	27	2.7	27	91	0	119	1	30	2	65	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
550035--550060	2	13.0	2	100	0	52	50	0	0	50	1.00
551614--551672	30	2.0	30	83	12	77	37	8	0	54	1.31
551614--551658	19	2.3	19	85	11	56	37	4	0	57	1.19
562585--562615	15	2.1	15	100	0	62	45	22	6	25	1.76
564127--564202	24	3.2	23	82	12	75	14	28	30	26	1.95
564164--564221	23	2.4	25	91	8	93	17	29	27	25	1.97
564260--564325	34	1.9	34	90	0	105	24	36	27	12	1.91
564322--564396	33	2.3	33	88	4	107	28	25	38	8	1.84
567204--567283	35	2.3	35	93	0	133	42	22	0	35	1.54
567217--567299	35	2.4	35	89	0	121	42	26	1	30	1.63
568071--568150	35	2.3	35	93	0	133	33	0	25	41	1.56
578940--579030	33	2.8	33	91	0	137	8	39	27	24	1.84
578944--579030	10	8.1	10	69	14	57	9	39	27	24	1.85
580338--580387	23	2.2	23	92	0	82	26	40	6	28	1.79
581904--582035	30	4.4	30	86	0	158	21	24	18	35	1.95
585440--585471	14	2.3	14	100	0	64	12	6	21	59	1.55
589120--589195	38	2.0	38	84	2	100	47	3	1	47	1.29
593258--593318	31	1.9	32	83	9	81	34	11	3	50	1.55
593378--593461	32	2.7	31	81	3	87	58	10	13	17	1.63
593378--593468	31	2.9	31	81	3	101	58	10	13	17	1.63
593375--593476	31	3.3	31	77	2	96	54	10	13	20	1.68
601877--602066	30	6.3	30	93	2	328	19	35	13	31	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
605454--605488	17	2.0	18	88	5	54	40	2	17	40	1.64
606729--606792	20	3.4	19	78	20	71	32	6	0	60	1.21
610153--610177	13	1.9	13	100	0	50	20	16	24	40	1.91
618854--618948	31	3.1	30	90	3	138	16	24	14	44	1.86
630220--630271	27	1.9	27	88	0	77	32	9	9	48	1.69
630302--630353	17	3.2	17	75	10	54	50	13	3	32	1.60
632871--632929	20	2.9	21	80	10	68	28	3	27	40	1.72
632877--632940	21	3.1	21	73	10	60	29	3	25	42	1.70
642565--642640	31	2.5	30	81	12	84	40	11	11	35	1.79
642723--642775	27	2.0	27	85	7	72	37	13	11	37	1.80
642731--642787	27	2.1	28	83	3	71	38	14	10	36	1.80
648126--648159	15	2.2	16	89	5	52	50	0	0	50	1.00
648647--648673	14	1.9	14	100	0	54	14	0	29	55	1.40
651221--651628	200	2.0	204	96	3	761	40	8	13	37	1.75
654802--654862	31	2.0	31	86	0	86	26	18	9	45	1.80
658634--658704	21	3.0	24	72	15	69	67	8	1	22	1.25
658688--658713	13	2.0	13	100	0	52	61	15	0	23	1.33
672509--672539	6	5.2	6	100	0	62	35	48	16	0	1.46
673031--673055	6	4.2	6	100	0	50	0	16	48	36	1.46
673079--673186	20	5.3	20	70	8	83	38	25	22	12	1.90
673079--673208	41	3.2	40	84	4	161	37	25	20	16	1.93
674834--674966	60	2.2	59	80	10	146	32	14	15	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
675609--675655	22	2.1	23	88	4	69	42	4	17	36	1.68
678952--678982	14	2.2	14	94	0	53	12	12	12	61	1.58
679159--679210	24	2.2	24	89	0	77	11	11	17	59	1.60
689807--689883	21	3.5	22	73	18	63	44	2	2	50	1.29
689852--689886	17	2.1	17	88	0	52	45	2	0	51	1.16
694801--694850	20	2.4	22	77	16	61	52	4	2	42	1.31
695031--695094	13	4.9	13	80	0	74	50	15	1	32	1.54
695027--695081	26	2.1	26	89	0	83	50	20	0	29	1.48
702760--702851	19	4.8	18	73	16	78	46	20	19	13	1.83
702797--702848	20	2.7	19	88	5	77	48	19	21	11	1.80
702839--702993	20	7.8	20	86	11	221	36	27	20	16	1.94
702836--702998	79	2.1	79	90	6	260	38	25	20	15	1.92
703093--703167	6	12.5	6	100	0	150	33	50	16	0	1.45
703665--703782	6	19.5	6	94	5	211	0	16	50	33	1.46
703877--704283	20	20.2	20	76	13	374	15	19	23	42	1.89
704194--704243	19	2.6	19	90	3	73	12	20	20	48	1.80
715805--715855	24	2.1	25	85	7	70	39	11	11	37	1.79
722480--722540	23	2.9	20	71	20	52	54	0	3	42	1.17
723715--723786	31	2.3	31	95	2	126	41	4	5	48	1.45
729759--729823	29	2.2	29	80	0	76	53	3	3	40	1.32
729777--729838	29	2.1	29	88	5	90	45	4	6	43	1.51
731286--733519	222	10.1	222	89	1	3253	36	6	32	25	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
739838--739897	20	3.0	20	97	2	111	26	20	20	33	1.97
743365--743400	18	2.0	18	94	0	63	38	16	2	41	1.63
743565--743690	56	2.2	56	83	2	146	40	12	18	28	1.87
746642--746694	22	2.4	22	84	9	63	52	0	7	39	1.30
747419--747459	21	1.9	22	95	5	75	39	12	0	48	1.41
752098--752314	108	2.0	108	96	1	400	35	20	25	19	1.96
752279--753270	45	22.5	45	76	6	617	40	12	30	17	1.86
752529--753216	87	7.8	87	82	6	687	40	12	30	17	1.86
752834--753262	132	3.3	129	83	8	454	38	10	33	17	1.84
753005--753084	21	3.7	21	65	15	54	33	10	36	20	1.86

Tables:   1   2   3   4   5