genome.fa.s8826.2.7.7.80.10.50.1000.3.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: VEPZ01008826.1 Hibiscus syriacus cultivar Beakdansim tig00112000_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3884024

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  3  of  18  ( 2089 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)
512504--512801	45	6.6	45	91	0	470	42	12	22	22	1.87
521964--522007	14	3.1	14	75	12	54	36	11	2	50	1.51
523382--523422	15	2.7	15	82	17	57	21	0	26	51	1.48
527777--527826	20	2.5	20	90	3	75	34	12	30	24	1.91
528239--528519	45	6.2	45	86	4	397	44	12	21	22	1.85
529702--529751	20	2.5	20	96	0	91	22	16	10	52	1.73
530323--530350	14	2.0	14	100	0	56	0	35	0	64	0.94
542476--542547	37	2.0	36	83	2	90	48	30	0	20	1.50
542486--542567	7	11.6	7	70	12	60	46	32	0	20	1.51
542834--542887	21	2.6	21	96	0	99	27	24	14	33	1.94
544347--544617	43	6.3	43	91	0	425	25	22	22	29	1.99
544347--544656	86	3.6	86	89	2	444	26	21	22	29	1.99
544347--544664	129	2.5	129	88	0	458	27	21	22	28	1.99
544347--544684	43	7.9	42	82	6	326	26	21	22	29	1.99
544812--544870	21	2.8	21	84	0	64	55	20	3	20	1.57
546217--546283	16	4.3	16	71	21	54	38	32	0	28	1.57
549130--549471	41	8.3	41	78	9	342	35	18	19	26	1.95
549121--549471	82	4.3	83	83	7	446	34	18	19	27	1.95
549106--549471	165	2.2	164	85	4	470	34	18	19	27	1.95
550995--551031	19	1.9	19	100	0	74	54	5	27	13	1.61
556450--556495	20	2.3	20	92	0	74	28	19	15	36	1.92
558074--558125	21	2.5	21	90	0	86	36	26	15	21	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
561008--561107	44	2.3	43	87	5	146	35	9	26	30	1.87
563934--564470	145	3.7	145	86	2	699	36	11	18	33	1.87
563934--564470	288	1.9	288	85	2	756	36	11	18	33	1.87
564488--564567	35	2.3	35	82	0	106	37	16	13	32	1.88
568722--568751	14	2.1	14	93	0	51	60	10	10	20	1.57
577610--577682	28	2.6	28	88	0	119	13	19	27	39	1.89
582703--582746	21	2.2	20	88	11	65	61	0	0	38	0.96
584121--584259	70	2.0	70	97	0	260	30	23	8	36	1.85
593995--594028	16	2.1	16	100	0	68	5	55	0	38	1.24
593995--594028	14	2.3	15	90	10	52	5	55	0	38	1.24
609238--609262	11	2.3	11	100	0	50	28	0	12	60	1.32
609912--610039	67	1.9	67	98	0	247	41	12	15	30	1.84
611307--611429	53	2.3	54	82	8	146	30	19	21	27	1.98
614762--614831	29	2.4	29	80	15	92	48	1	11	38	1.48
615321--615381	22	2.7	23	87	9	83	24	26	26	22	2.00
619095--619132	20	1.9	20	94	0	67	31	5	5	57	1.43
621110--621167	21	2.7	21	97	2	107	18	18	37	24	1.94
627295--627436	53	2.7	53	85	5	171	30	19	22	27	1.98
628233--628411	64	2.8	63	82	8	209	29	17	24	28	1.97
629477--629520	21	2.1	21	82	0	52	31	15	43	9	1.79
630977--631073	44	2.2	44	80	7	108	25	20	27	25	1.99
636857--637035	64	2.8	63	78	8	191	30	17	24	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
636987--637033	19	2.5	19	86	10	62	31	17	27	23	1.96
639726--639776	22	2.4	22	80	9	61	58	0	1	39	1.09
641849--641886	14	2.9	13	85	11	51	18	0	2	78	0.86
644651--644725	35	2.1	35	87	0	105	42	18	1	37	1.59
644721--644797	35	2.2	35	83	0	100	37	0	19	42	1.51
644859--644962	41	2.5	41	93	0	172	35	21	23	20	1.96
647402--647526	31	4.0	31	94	2	207	37	23	19	20	1.94
648091--648161	35	2.0	36	97	2	135	19	32	30	16	1.95
648104--648163	20	3.2	20	65	29	60	16	38	28	16	1.91
648971--649043	13	6.0	13	68	19	50	49	0	0	50	1.00
648951--649031	36	2.3	35	91	4	128	49	0	0	50	1.00
648951--649052	36	3.0	35	83	9	122	48	0	0	51	1.00
650755--650806	15	3.5	15	89	0	77	5	15	67	11	1.40
652108--652140	2	16.5	2	100	0	66	48	0	0	51	1.00
657177--657209	16	2.1	16	100	0	66	57	24	12	6	1.57
657275--657349	10	7.7	10	69	21	61	57	21	12	9	1.62
657279--657343	16	4.1	16	95	0	121	56	23	12	7	1.61
657767--657814	10	4.4	10	78	19	51	52	25	12	10	1.71
657767--657822	24	2.3	24	96	0	103	53	23	12	10	1.69
657774--657829	14	4.3	14	80	17	66	51	26	12	8	1.69
658205--658375	89	1.9	89	98	0	333	33	32	9	24	1.87
658878--658934	28	2.0	28	100	0	114	21	24	21	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
659338--659390	23	2.3	23	87	9	74	47	1	15	35	1.56
659449--659541	45	2.0	47	81	10	111	25	12	12	48	1.77
661919--661970	22	2.4	22	83	0	68	13	26	19	40	1.88
664955--665003	19	2.5	20	90	3	73	55	4	4	36	1.38
677050--677106	30	1.9	30	88	0	87	29	29	8	31	1.87
677384--677426	14	3.1	14	89	0	68	11	11	18	58	1.63
680071--680105	2	17.5	2	100	0	70	51	0	0	48	1.00
680313--680944	181	3.5	179	86	4	835	43	13	15	27	1.84
681326--681370	19	2.4	19	92	3	74	42	0	20	37	1.52
681524--681573	21	2.4	21	96	0	91	52	4	32	12	1.57
681642--681680	18	2.2	19	90	9	64	46	2	7	43	1.46
683321--683359	18	2.2	18	95	0	69	53	0	41	5	1.23
684809--684857	19	2.6	19	90	3	73	30	2	10	57	1.43
685199--686703	199	7.8	198	88	7	2201	41	15	15	27	1.87
686079--686703	174	3.4	181	83	11	713	41	15	16	27	1.88
686255--686703	194	2.3	191	89	5	683	40	15	16	27	1.88
686840--687262	198	2.1	198	89	2	643	41	16	15	26	1.88
689995--690423	180	2.5	172	88	7	591	43	13	15	27	1.84
691384--691539	79	2.0	79	83	6	201	37	12	14	36	1.83
691632--692121	245	2.0	242	96	2	910	35	12	13	38	1.82
693133--693157	5	5.0	5	100	0	50	20	60	20	0	1.37
693161--693201	18	2.3	18	95	0	73	17	48	21	12	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
693142--693216	31	2.4	31	90	4	114	16	45	22	16	1.85
693183--693229	8	6.5	8	77	22	59	14	38	25	21	1.92
693147--693222	13	5.3	13	77	17	71	15	43	22	18	1.88
693199--693230	7	4.4	7	92	7	55	12	34	28	25	1.92
693183--693229	15	3.3	15	91	5	71	14	38	25	21	1.92
698159--698234	13	5.3	13	77	17	71	15	43	22	18	1.88
698137--698213	18	4.6	18	79	15	101	16	49	20	12	1.79
698141--698219	31	2.5	31	93	0	140	16	46	21	15	1.83
698195--698241	8	6.5	8	77	22	59	14	38	25	21	1.92
698211--698242	7	4.4	7	92	7	55	12	34	28	25	1.92
698195--698241	15	3.3	15	91	5	71	14	38	25	21	1.92
704509--704570	29	2.1	30	90	3	99	45	3	3	48	1.34
704514--704577	29	2.2	31	83	11	89	46	1	3	48	1.27
704870--704912	18	2.6	16	82	13	59	27	2	0	69	1.00
704875--704909	18	1.9	18	94	0	61	25	2	0	71	1.00
706906--706931	13	2.0	13	100	0	52	30	7	15	46	1.74
712899--712955	22	2.7	22	81	5	73	24	35	21	19	1.96
712899--712961	20	3.0	20	72	9	56	25	33	22	19	1.97
715994--716037	16	2.8	16	83	10	54	65	2	25	6	1.28
719714--719776	28	2.2	28	85	0	90	38	4	0	57	1.20
720113--720168	5	10.6	5	98	1	85	25	55	19	0	1.43
720672--720714	6	7.5	6	97	2	72	0	16	53	30	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
720808--720870	21	3.1	19	72	20	56	34	22	17	25	1.95
720903--720962	21	2.9	21	84	0	84	26	23	21	28	1.99
720980--721095	21	5.6	20	81	10	101	22	20	24	32	1.98
721957--722042	5	16.4	5	68	17	50	54	1	1	43	1.15
722274--722474	80	2.5	80	85	0	285	36	9	8	45	1.68
723245--723427	70	2.6	70	96	0	339	51	18	14	15	1.76
723494--723549	24	2.3	24	100	0	112	28	17	16	37	1.91
723772--723837	30	2.2	30	89	5	98	12	30	22	34	1.91
723820--723858	20	2.0	20	85	10	53	5	30	23	41	1.76
726575--726798	123	1.8	119	82	5	279	26	16	17	39	1.90

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18