genome.fa.s8428.2.7.7.80.10.50.1000.27.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: VEPZ01008428.1 Hibiscus syriacus cultivar Beakdansim tig00111213_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6915314

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   

This is table  27  of  30  ( 3508 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)
6297971--6298163	94	2.1	92	78	9	194	41	12	7	37	1.72
6298114--6298342	95	2.4	94	91	2	361	39	16	8	35	1.78
6298114--6298344	94	2.4	95	91	2	367	39	16	8	35	1.79
6311493--6311574	14	6.4	14	69	24	65	14	10	17	57	1.65
6311497--6311567	24	3.0	24	87	4	90	14	12	16	56	1.68
6311493--6311574	38	2.2	38	84	8	105	14	10	17	57	1.65
6313380--6313426	17	2.8	17	81	9	51	76	0	4	19	0.95
6313488--6313853	36	10.4	35	74	14	267	43	6	3	46	1.45
6313495--6313630	65	2.1	64	84	5	175	41	5	4	49	1.45
6313468--6313768	101	2.9	102	82	10	348	43	6	3	46	1.45
6313632--6313732	30	3.2	29	79	15	112	44	6	2	45	1.45
6313675--6313866	37	5.2	37	77	8	95	46	6	2	43	1.43
6313868--6313897	5	5.8	5	92	7	51	83	0	16	0	0.65
6313868--6313898	11	2.9	11	95	4	55	83	0	16	0	0.64
6313867--6313897	16	1.9	16	100	0	62	83	0	16	0	0.64
6314076--6314114	10	3.9	10	86	0	60	17	12	10	58	1.61
6314076--6314113	20	1.9	20	94	0	67	18	13	10	57	1.63
6315978--6316026	25	1.9	26	84	12	66	61	0	2	36	1.08
6316568--6316602	2	17.5	2	100	0	70	48	0	0	51	1.00
6316693--6316754	30	2.1	30	82	11	74	53	33	0	12	1.39
6320486--6320690	30	6.3	30	72	19	103	45	5	3	45	1.44
6320454--6320588	65	2.1	64	87	4	191	42	5	4	47	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6320435--6320726	102	2.9	99	84	9	367	44	6	3	45	1.45
6320518--6320808	36	8.2	35	77	13	276	44	7	3	45	1.47
6320552--6320733	66	2.7	65	85	11	208	46	6	2	45	1.42
6321019--6321057	10	3.9	10	86	0	60	17	12	10	58	1.61
6321019--6321056	20	1.9	20	94	0	67	18	13	10	57	1.63
6322922--6322970	25	1.9	26	84	12	66	61	0	2	36	1.08
6323503--6323539	2	18.5	2	100	0	74	48	0	0	51	1.00
6323630--6323691	30	2.1	30	82	11	74	53	32	0	14	1.41
6329213--6329754	36	14.6	37	71	9	327	32	16	11	39	1.84
6329133--6329834	74	9.5	74	85	4	814	33	16	10	39	1.84
6330105--6330224	59	2.0	59	85	3	161	23	27	18	30	1.97
6330164--6330416	92	2.8	92	86	2	330	30	24	16	28	1.97
6339239--6339270	2	16.0	2	100	0	64	50	0	0	50	1.00
6339470--6339511	2	21.0	2	100	0	84	50	0	0	50	1.00
6340360--6340414	28	1.9	28	85	10	76	61	0	1	36	1.06
6340392--6340424	12	3.0	11	87	12	50	63	0	0	36	0.95
6351648--6351688	21	2.0	21	85	0	55	24	21	29	24	1.99
6357324--6357435	32	3.6	32	66	16	90	41	2	6	50	1.42
6357337--6357466	60	2.2	59	100	0	206	41	4	6	47	1.49
6357370--6357463	28	3.2	28	63	16	73	42	6	5	45	1.52
6357362--6357465	33	3.3	33	68	20	105	44	5	4	45	1.49
6357336--6357432	27	3.4	27	68	21	81	41	3	7	48	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6357595--6357648	28	1.9	28	81	7	65	53	5	5	35	1.48
6361047--6361086	20	2.1	19	90	4	62	12	10	7	70	1.35
6361563--6361596	17	2.0	17	94	0	59	38	17	2	41	1.65
6362075--6362144	18	3.6	19	72	22	65	57	1	0	41	1.08
6362104--6362146	21	2.0	21	82	8	52	55	0	0	44	0.99
6363248--6363289	15	2.8	15	78	7	50	57	0	0	42	0.99
6363441--6363490	26	1.9	26	87	0	73	50	0	4	46	1.20
6363539--6363565	6	4.5	6	100	0	54	85	0	0	14	0.61
6363487--6363564	41	1.9	41	82	10	97	65	5	3	25	1.30
6366799--6366947	74	2.0	75	94	2	264	46	13	8	32	1.72
6369759--6369822	23	2.8	23	90	0	101	29	26	25	18	1.98
6379807--6379844	20	1.9	20	94	0	67	39	10	23	26	1.87
6380003--6380074	37	2.0	37	83	8	94	48	4	1	45	1.30
6381097--6381122	3	8.7	3	100	0	52	65	0	0	34	0.93
6381671--6381836	79	2.1	78	82	10	192	71	2	12	14	1.25
6383059--6383108	26	1.9	26	84	8	66	72	2	0	26	0.96
6383775--6384750	84	12.1	84	77	8	990	22	20	26	29	1.99
6383777--6384742	240	4.0	243	94	3	1702	22	20	27	29	1.99
6388232--6388274	19	2.3	19	96	4	79	62	9	16	11	1.53
6391310--6391385	15	5.3	14	72	20	59	72	2	1	23	1.05
6391399--6391659	38	7.4	36	67	21	117	44	6	3	45	1.44
6391505--6391657	38	4.1	38	76	13	167	46	6	2	44	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6396555--6396796	120	2.0	120	95	0	439	32	19	22	26	1.97
6401612--6401636	2	12.5	2	100	0	50	0	48	0	52	1.00
6402185--6402292	54	2.0	54	85	0	144	30	13	18	37	1.90
6405449--6405500	16	3.0	17	71	23	54	23	3	1	71	1.13
6407379--6407471	21	4.5	21	78	4	100	39	18	24	17	1.91
6407379--6407471	41	2.3	41	100	0	186	39	18	24	17	1.91
6407398--6407532	41	3.3	41	82	6	132	38	20	21	19	1.94
6407460--6407554	20	4.7	20	80	2	91	34	24	17	23	1.96
6407742--6407785	22	2.0	22	90	0	70	20	43	15	20	1.88
6408049--6408086	20	1.9	20	88	0	58	13	15	21	50	1.78
6409405--6409449	18	2.5	18	85	0	63	26	42	17	13	1.86
6409922--6409988	20	3.4	20	83	2	82	40	23	20	14	1.90
6409977--6410034	14	3.9	14	79	16	71	48	24	17	10	1.78
6409961--6410048	32	2.7	33	94	3	160	46	21	19	12	1.82
6410068--6410125	14	3.9	14	79	16	71	8	17	25	48	1.75
6410052--6410141	32	2.8	33	87	3	137	10	16	25	47	1.78
6410127--6410180	20	2.8	19	88	5	81	16	24	24	35	1.95
6412199--6412266	19	3.8	19	81	14	92	48	17	20	13	1.80
6412287--6412360	19	3.8	19	92	1	112	16	22	24	36	1.94
6413419--6413472	24	2.2	24	90	0	81	24	16	20	38	1.92
6413647--6413671	12	2.1	12	100	0	50	72	0	28	0	0.86
6415964--6416151	19	10.7	19	76	16	208	44	18	22	14	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6415964--6416126	33	4.8	33	86	6	220	44	18	22	15	1.87
6415964--6416126	66	2.4	69	89	5	251	44	18	22	15	1.87
6416147--6416189	20	2.2	20	87	4	61	16	18	23	41	1.89
6415964--6416151	33	5.3	38	86	5	172	44	18	22	14	1.86
6415964--6416151	52	3.6	57	74	17	199	44	18	22	14	1.86
6416175--6416208	14	2.4	14	85	0	50	8	23	20	47	1.78
6416330--6416366	14	2.6	14	91	0	65	45	24	0	29	1.53
6417723--6417789	21	3.2	21	68	4	55	19	20	35	23	1.95
6417723--6417845	42	2.9	41	80	7	113	22	17	36	22	1.95
6419863--6419961	33	3.0	33	89	1	144	39	26	23	11	1.88
6419838--6420003	20	9.1	19	75	16	136	42	22	22	11	1.86
6419999--6420065	19	3.5	19	85	2	89	10	16	25	47	1.78
6420601--6420678	41	1.9	41	86	0	111	21	16	21	39	1.92
6420582--6420675	20	4.7	20	78	2	80	24	18	23	34	1.96
6420664--6420760	21	4.7	21	83	2	133	16	25	17	40	1.90
6421397--6421433	2	18.5	2	100	0	74	0	48	0	51	1.00
6421433--6421459	2	13.5	2	100	0	54	48	0	0	51	1.00
6423726--6423768	17	2.5	17	85	7	52	72	0	0	27	0.85
6424060--6424098	16	2.4	16	86	4	51	35	0	0	64	0.94
6424064--6424265	106	1.9	103	88	5	298	36	2	3	56	1.33
6424164--6424207	22	2.0	22	83	16	56	36	2	0	61	1.09
6424282--6424339	29	2.0	30	86	10	84	39	18	8	32	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6427269--6427395	51	2.5	50	81	2	128	18	34	28	18	1.95
6427409--6427527	46	2.5	47	83	9	152	26	24	21	26	1.99
6429714--6429934	110	2.0	111	94	0	390	45	10	8	36	1.68
6433976--6434037	32	1.9	33	87	6	92	38	4	6	50	1.50
6434453--6434542	30	3.1	29	79	9	94	38	5	8	46	1.59
6434468--6434558	28	3.1	28	78	12	69	39	6	6	47	1.56
6439521--6439563	19	2.1	21	83	8	54	32	4	11	51	1.59
6439569--6439606	19	2.0	19	89	0	58	42	0	0	57	0.98
6439815--6439849	18	1.9	18	88	0	52	48	0	0	51	1.00
6441902--6443597	4	428.5	4	96	2	3043	24	1	25	48	1.59

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30