genome.fa.s7859.2.7.7.80.10.50.1000.3.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: VEPZ01007859.1 Hibiscus syriacus cultivar Beakdansim tig00110221_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3538007

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  ( 2075 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)
457217--457299	39	2.1	39	90	0	130	51	15	4	27	1.63
457331--457388	13	4.5	13	80	4	73	22	20	1	55	1.53
457340--457387	6	7.7	6	77	9	51	20	20	2	56	1.53
457419--457496	19	4.2	19	80	4	61	32	16	7	43	1.76
457453--457506	19	2.8	19	80	5	56	31	14	7	46	1.73
458111--458173	25	2.5	25	77	12	65	25	3	3	68	1.19
458183--458283	31	3.6	28	75	18	93	27	1	0	70	0.98
458184--458281	4	24.2	4	73	13	60	27	2	0	70	0.98
458136--458270	39	3.6	38	79	16	138	28	2	1	68	1.10
458209--458325	23	5.2	22	76	11	96	19	3	0	76	0.99
458166--458337	36	4.5	36	72	16	109	22	4	1	71	1.11
461485--461522	20	1.9	20	84	10	51	39	31	0	28	1.57
462673--462739	30	2.2	30	86	0	89	31	11	7	49	1.67
474056--474103	25	1.9	25	83	8	62	39	0	4	56	1.19
477600--477636	6	6.2	6	87	12	58	81	2	0	16	0.81
477601--477636	18	1.9	19	94	5	65	80	2	0	16	0.83
477718--478155	80	5.5	80	81	4	485	27	24	13	34	1.93
477765--478155	40	9.9	41	69	11	188	27	24	14	34	1.94
478319--478374	20	2.8	19	84	7	76	30	16	30	23	1.96
479036--479562	68	7.7	67	83	4	599	30	14	22	32	1.93
479036--479562	136	3.9	135	85	3	664	30	14	22	32	1.93
479036--479562	204	2.6	203	85	1	678	30	14	22	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
479527--479749	81	2.8	81	85	2	279	39	9	22	28	1.85
479726--479837	29	3.9	29	92	2	172	45	8	20	25	1.78
480635--480669	18	1.9	18	94	0	61	34	17	22	25	1.96
482386--482438	21	2.5	21	100	0	106	28	20	22	28	1.99
482426--482479	20	2.7	20	83	11	74	33	16	25	24	1.96
483120--484190	68	15.8	68	88	0	1541	30	14	23	31	1.95
484140--484296	81	1.9	81	84	2	208	36	12	23	27	1.91
484275--484383	29	3.7	29	81	7	137	43	7	22	27	1.79
502995--504455	730	2.0	729	98	0	2827	29	14	21	34	1.92
511028--511103	36	2.1	38	92	5	129	34	10	11	43	1.76
511193--511534	45	7.6	45	89	3	483	36	10	22	29	1.88
516139--516171	2	17.5	2	87	12	52	45	0	0	54	0.99
517210--517235	2	13.0	2	100	0	52	50	0	0	50	1.00
517240--517291	23	2.3	22	83	3	68	15	7	7	69	1.35
538385--538442	20	2.8	20	82	7	55	36	6	10	46	1.65
542949--542990	21	2.0	21	90	0	66	30	11	7	50	1.66
542979--543087	33	3.4	33	91	3	170	31	8	14	45	1.74
543148--543181	18	1.9	18	94	5	61	44	11	11	32	1.77
543129--543184	15	3.6	15	76	9	58	35	12	12	39	1.81
543274--543305	16	2.0	17	88	11	50	43	21	21	12	1.86
553011--553069	23	2.6	23	88	0	91	40	6	18	33	1.77
552983--553145	87	1.9	87	96	0	299	40	11	15	33	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
553146--553662	196	2.6	197	82	8	633	31	14	14	39	1.86
557289--558056	200	3.8	199	84	5	991	31	15	12	39	1.85
557289--558056	399	1.9	398	86	5	1077	31	15	12	39	1.85
558284--558336	24	2.2	24	89	0	79	47	13	1	37	1.54
560803--560835	18	1.9	17	88	11	50	33	0	36	30	1.58
561150--562309	199	5.8	199	84	5	1424	32	16	13	37	1.87
561143--562309	402	2.9	398	88	2	1656	33	16	13	37	1.87
562665--562706	19	2.2	19	95	0	75	57	9	2	30	1.44
564450--564549	33	3.0	33	97	0	182	23	47	0	30	1.52
564583--564626	21	2.1	21	91	0	70	13	34	13	38	1.84
565175--565206	15	2.1	15	100	0	64	31	37	6	25	1.81
571123--571147	13	1.9	13	100	0	50	48	24	20	8	1.76
572472--572954	182	2.7	182	87	0	716	27	16	15	41	1.88
584739--584788	20	2.5	20	76	0	64	22	10	16	52	1.73
586922--586978	5	10.8	5	75	17	53	7	21	52	19	1.69
586915--586978	22	3.0	22	95	2	112	9	20	50	20	1.75
586975--587053	19	4.2	18	75	16	79	27	29	27	15	1.96
594234--594291	5	10.8	5	78	14	62	6	22	51	18	1.70
594227--594291	22	3.0	22	100	0	130	9	23	49	18	1.76
594288--594346	9	6.3	9	76	7	55	27	28	27	16	1.97
594290--594347	19	3.1	19	90	5	82	27	29	24	18	1.98
595755--597210	732	2.0	731	93	3	2101	33	10	13	42	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
604802--605271	256	1.8	255	88	2	710	36	20	14	28	1.92
605199--605499	79	3.8	79	91	1	478	33	24	15	26	1.95
606805--606849	21	2.1	22	83	4	56	20	6	6	66	1.38
611516--611648	67	2.0	67	90	0	212	29	11	21	37	1.88
613046--613136	47	1.9	47	84	0	119	16	18	31	32	1.93
615294--615335	11	3.7	11	81	12	50	45	2	2	50	1.27
622860--622931	26	2.4	30	76	23	89	33	20	19	26	1.97
622868--622935	26	2.6	26	95	2	118	35	20	17	26	1.95
623032--623077	24	2.0	23	95	4	83	28	26	23	21	1.99
623058--623094	17	2.2	17	95	0	65	27	29	18	24	1.98
623133--623198	26	2.5	26	97	0	123	53	10	7	28	1.63
634938--634970	17	1.9	17	88	11	50	12	12	18	57	1.64
635260--635426	7	24.3	7	81	3	142	43	33	0	22	1.54
635504--635533	14	2.1	14	93	0	51	43	0	6	50	1.28
636736--636787	21	2.3	23	87	6	72	36	9	0	53	1.34
637188--637622	199	2.2	199	81	5	470	33	9	21	35	1.85
640355--640564	65	3.3	63	80	11	221	30	24	19	25	1.98
640355--640590	129	1.8	130	81	8	302	30	24	19	25	1.98
643444--643495	17	3.2	17	75	10	54	32	3	13	50	1.60
646842--646962	44	2.7	44	96	1	215	20	23	20	35	1.96
646841--646965	21	5.6	23	72	15	118	20	23	21	34	1.97
646974--648943	984	2.0	987	99	0	3885	29	19	13	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
653561--653606	19	2.3	20	85	3	58	34	15	2	47	1.57
655658--655915	20	11.7	20	67	25	121	21	24	11	43	1.85
655812--655895	26	3.5	25	75	18	97	20	23	13	42	1.87
655653--655916	87	2.9	91	89	6	394	21	23	11	43	1.85
655653--655928	133	2.0	135	89	5	425	21	22	11	44	1.84
655653--655920	46	6.0	46	88	4	404	21	23	11	44	1.84
661575--661758	46	4.0	46	90	0	260	21	22	10	46	1.81
661680--661960	20	12.6	20	69	21	125	22	22	11	43	1.85
661633--661868	110	2.1	112	92	3	397	22	23	11	43	1.84
661589--661960	202	1.8	203	91	0	611	22	22	10	44	1.83
661587--661914	156	2.1	158	89	4	495	21	22	10	44	1.83
661745--661972	46	5.0	46	90	3	363	22	21	11	44	1.84
663643--663706	30	2.2	29	83	8	76	28	15	12	43	1.83
668961--669013	3	18.3	3	78	7	56	39	3	0	56	1.17
668948--669013	14	4.9	14	78	15	59	40	4	0	54	1.21
679342--679401	9	6.6	9	77	11	59	78	1	15	5	1.00
679384--679421	14	2.7	14	95	0	67	76	0	18	5	0.97
679364--679439	18	3.9	19	77	15	68	78	0	17	3	0.89
679383--679459	14	5.4	16	81	9	55	76	0	19	3	0.94
679412--679452	12	3.3	13	90	6	59	80	0	19	0	0.71
679364--679459	41	2.3	40	81	16	108	78	0	17	4	0.91
680714--681174	54	8.6	54	90	0	680	32	19	25	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
681366--681444	14	5.8	14	78	13	76	40	2	0	56	1.12
681373--681444	3	25.7	3	75	13	64	38	2	0	58	1.13
681377--681438	11	5.5	11	75	9	54	38	3	0	58	1.15
681373--681444	19	3.9	18	75	21	62	38	2	0	58	1.13
681373--681444	25	3.1	23	75	15	76	38	2	0	58	1.13
681551--681593	22	2.0	22	90	0	68	30	41	16	11	1.83
686545--686688	74	1.9	74	90	2	227	41	17	9	31	1.80
687468--687494	2	13.5	2	100	0	54	48	0	0	51	1.00
687729--687773	21	2.1	21	84	8	56	60	2	0	37	1.09
696886--696935	21	2.4	21	72	0	55	32	30	18	20	1.96

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