genome.fa.s7800.2.7.7.80.10.50.1000.3.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: VEPZ01007800.1 Hibiscus syriacus cultivar Beakdansim tig00110114_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4652821

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  3  of  23  ( 2671 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)
526904--526946	20	2.3	18	85	14	61	20	16	11	51	1.75
526909--526955	20	2.4	19	82	10	67	19	17	10	53	1.72
527089--527135	20	2.3	20	89	10	78	17	17	10	55	1.69
526876--527346	181	2.6	181	89	1	696	25	17	14	42	1.87
527413--527896	228	2.1	227	94	3	841	39	7	7	45	1.60
530223--530290	36	1.9	35	93	3	118	41	4	22	32	1.73
530255--530300	15	3.1	15	81	6	67	43	6	19	30	1.76
530456--530553	48	2.0	50	80	11	114	47	2	0	50	1.12
530694--530856	30	5.6	29	72	16	106	52	1	0	45	1.13
530694--530751	28	2.1	27	87	9	82	51	1	0	46	1.11
530804--530847	22	2.0	23	86	4	63	54	0	0	45	0.99
530687--530849	54	2.8	61	70	23	143	52	1	0	46	1.13
533150--533273	62	2.0	62	98	0	239	49	15	4	30	1.65
535813--535909	32	3.0	32	73	5	106	34	19	15	30	1.93
537077--537106	11	2.7	11	100	0	60	63	36	0	0	0.95
539366--539424	30	2.0	30	86	0	82	30	18	23	27	1.98
539426--539487	31	2.0	31	83	0	79	32	22	19	25	1.97
544744--544816	30	2.4	30	93	0	119	28	24	21	24	1.99
547402--547430	14	2.0	15	93	6	51	27	3	0	68	1.05
550345--550385	18	2.1	18	86	13	55	65	2	0	31	1.05
554037--554112	38	2.0	38	100	0	152	23	18	36	21	1.95
554078--554499	46	9.4	45	70	13	287	25	18	29	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
554103--554497	90	4.4	90	94	2	609	25	18	28	26	1.98
554099--554623	135	3.9	134	72	12	339	25	19	28	26	1.98
554377--554623	135	1.9	134	85	10	355	26	19	28	25	1.99
555608--555634	1	27.0	1	100	0	54	0	0	0	100	0.00
569357--569410	27	2.0	27	85	0	72	14	24	5	55	1.61
570108--570256	15	10.0	15	91	1	237	49	0	0	49	1.05
570108--570300	30	6.3	30	85	9	237	47	0	1	50	1.14
570264--570299	14	2.5	14	95	4	63	41	0	0	58	0.98
570279--570966	32	23.4	32	71	23	375	37	0	10	52	1.36
570302--570344	22	2.0	22	95	0	77	37	0	11	51	1.39
570279--570935	54	11.8	54	80	12	653	37	0	10	52	1.36
570464--570560	22	4.0	22	72	23	86	37	0	11	51	1.38
570629--570681	14	3.5	14	72	18	52	37	0	5	56	1.23
570643--570699	18	3.4	18	69	18	59	33	0	12	54	1.38
570736--570966	18	14.1	15	64	25	69	38	0	8	52	1.32
570762--570806	22	2.0	22	95	0	81	44	0	6	48	1.29
570946--570988	22	2.0	22	100	0	86	39	0	9	51	1.34
571013--571071	31	1.9	31	89	0	91	45	8	5	40	1.56
575091--575153	32	2.0	32	100	0	126	46	6	12	34	1.68
578476--578540	27	2.4	28	82	12	73	32	0	4	63	1.15
578471--578618	76	1.9	78	86	5	212	37	3	5	54	1.40
579345--579372	14	2.0	14	100	0	56	71	0	0	28	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
579478--579521	3	14.7	3	100	0	88	34	0	0	65	0.93
579939--580098	78	2.0	79	84	5	209	40	10	7	42	1.67
596069--596110	6	7.0	6	100	0	84	50	0	16	33	1.46
601503--601616	57	2.0	57	94	0	201	35	14	15	34	1.89
604768--604841	34	2.2	35	88	9	118	43	5	2	48	1.40
604812--604855	21	2.0	22	91	8	72	36	4	0	59	1.18
606468--606498	13	2.4	13	100	0	62	64	0	25	9	1.24
608191--608269	29	2.6	28	79	16	79	44	0	1	54	1.08
608218--608269	17	3.2	17	72	10	54	44	0	0	55	0.99
608199--608289	28	3.4	25	75	20	69	40	0	1	58	1.05
608416--608469	17	3.2	16	78	2	54	37	0	3	59	1.15
617971--618066	2	53.0	2	75	19	86	43	0	0	56	0.99
617989--618072	34	2.4	35	94	4	143	44	0	0	55	0.99
624129--624217	38	2.3	39	90	1	135	26	4	23	44	1.72
625073--625173	25	4.2	22	73	19	60	32	4	0	61	1.24
625107--625146	14	2.7	14	84	7	53	32	2	0	65	1.06
625057--625137	20	4.0	20	71	20	62	29	3	0	66	1.09
625431--625475	18	2.6	17	83	13	56	15	13	0	71	1.15
625429--625475	17	2.7	17	81	12	60	14	12	0	72	1.13
630066--630102	19	2.0	19	89	5	58	75	5	13	5	1.15
630174--630311	69	2.0	69	95	0	249	39	21	13	26	1.90
631246--631359	32	3.5	33	86	4	151	28	13	20	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
631937--632146	106	2.0	106	95	0	375	36	23	18	22	1.95
633339--633378	16	2.4	17	83	4	55	22	5	25	47	1.71
633949--633997	23	2.1	23	85	7	64	12	28	28	30	1.93
636275--636344	20	3.7	19	75	17	56	27	4	0	68	1.08
636336--636389	2	28.5	2	80	10	60	42	1	3	51	1.30
636355--636393	8	4.9	8	93	0	60	41	0	7	51	1.31
637603--637706	54	1.9	53	86	5	147	53	16	1	27	1.53
639252--639328	18	4.2	18	86	3	109	44	16	5	33	1.70
640798--640858	18	3.4	17	84	15	79	39	14	36	9	1.80
645055--645128	35	2.1	35	92	5	123	31	10	14	43	1.80
647150--647243	31	3.1	31	67	6	84	36	3	27	32	1.73
647128--647304	60	3.0	60	77	6	171	37	5	24	32	1.77
648225--648335	46	2.4	46	92	4	179	11	10	14	63	1.53
655005--655056	26	1.9	28	84	7	72	50	3	11	34	1.57
660331--660385	12	4.6	12	83	0	65	12	14	47	25	1.80
660383--660447	24	2.6	25	79	16	73	44	0	0	55	0.99
660477--660525	13	3.8	13	86	2	64	14	14	53	18	1.74
661713--661818	42	2.5	42	90	0	158	21	8	12	57	1.61
661996--662026	14	2.1	15	94	5	55	51	0	0	48	1.00
662003--662066	22	2.8	24	81	11	71	45	0	0	54	0.99
662119--662181	28	2.2	29	83	13	94	46	0	1	52	1.10
662184--662228	23	2.0	23	86	0	63	53	2	2	42	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
662321--662357	18	2.0	19	89	5	58	62	0	0	37	0.96
662508--662547	15	2.7	15	96	0	71	40	15	10	35	1.80
663663--664109	227	2.0	227	92	2	756	45	8	7	39	1.61
664339--664385	20	2.4	19	79	10	58	55	8	17	19	1.67
666670--666735	33	2.0	33	87	0	96	28	1	45	24	1.62
668529--668572	19	2.4	19	92	3	72	31	2	9	56	1.43
668654--670250	195	8.1	198	95	2	2836	37	14	15	31	1.88
668654--670250	392	4.1	396	96	2	2890	37	14	15	31	1.88
671710--671801	12	7.4	12	80	7	76	35	7	34	21	1.82
671707--671801	6	15.3	6	75	6	55	36	7	34	21	1.81
671722--671804	15	5.7	15	80	8	91	36	6	34	22	1.79
671718--671801	27	3.1	27	84	0	114	35	7	34	22	1.82
673147--674164	183	5.7	184	95	3	1819	35	14	16	33	1.89
676707--676769	23	2.7	23	90	0	90	36	6	19	38	1.77
676707--676779	23	3.2	23	86	3	85	35	5	19	39	1.75
676923--676989	30	2.2	30	82	10	75	52	4	0	43	1.21
677135--677197	23	2.7	23	90	0	90	36	6	19	38	1.77
677135--677207	23	3.2	23	86	3	85	35	5	19	39	1.75
677210--677248	20	2.0	20	89	0	60	25	15	10	48	1.76
677557--677621	23	2.8	23	85	0	85	35	7	16	40	1.78
677824--677860	18	2.1	18	89	0	56	32	5	10	51	1.60
677816--677862	24	2.0	24	86	0	67	34	4	14	46	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
689564--689607	21	2.1	21	91	4	72	38	2	0	59	1.10
689867--689911	20	2.2	20	92	0	72	28	24	11	35	1.90
692385--692419	18	1.9	18	100	0	70	34	0	22	42	1.54
697433--697527	39	2.4	38	91	3	154	51	0	12	35	1.40
697921--697979	31	2.0	29	83	12	75	32	13	3	50	1.58
701020--701050	2	15.5	2	100	0	62	51	0	0	48	1.00
701309--701358	25	2.0	25	85	11	68	32	6	2	60	1.32
702664--702835	60	2.9	60	90	5	251	32	18	4	45	1.68
702965--703023	29	2.0	29	90	0	91	22	33	35	8	1.84
703240--703326	29	3.0	29	84	0	120	14	29	39	16	1.88

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23