genome.fa.s8356.2.7.7.80.10.50.1000.49.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: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

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   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   

This is table  49  of  56  ( 6656 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)
11185674--11185729	18	2.8	20	78	10	62	28	19	14	37	1.91
11186003--11186040	19	2.0	19	100	0	76	42	15	10	31	1.81
11186637--11186686	20	2.5	20	83	3	57	30	12	6	52	1.62
11186983--11187051	30	2.2	30	80	15	77	34	5	15	43	1.71
11187141--11187222	21	4.1	21	72	23	77	19	41	26	12	1.87
11187168--11187197	15	2.0	15	100	0	60	26	33	26	13	1.93
11187308--11187350	21	2.0	21	95	0	77	23	20	27	27	1.99
11187378--11187417	20	1.9	22	90	10	66	37	40	10	12	1.77
11187632--11187701	34	2.1	32	86	5	95	31	14	31	22	1.94
11190373--11190441	30	2.2	30	80	15	77	34	5	15	43	1.71
11190531--11190595	21	3.1	21	93	0	112	18	41	27	12	1.86
11190621--11190663	21	2.0	21	100	0	86	13	44	27	13	1.83
11190699--11190741	21	2.0	21	95	0	77	23	20	27	27	1.99
11190769--11190808	20	1.9	22	90	10	66	37	40	10	12	1.77
11191023--11191092	34	2.1	32	89	5	104	31	15	31	21	1.95
11192158--11192196	18	2.2	18	100	0	78	28	15	28	28	1.96
11194468--11194510	22	2.0	21	86	4	59	27	13	13	44	1.83
11195621--11195717	49	2.0	49	95	0	176	44	30	9	15	1.78
11195621--11195697	28	3.0	28	65	29	71	44	29	10	15	1.80
11195640--11195711	21	3.1	21	66	30	56	41	33	8	16	1.78
11206606--11206638	16	2.1	16	100	0	66	45	18	0	36	1.49
11208898--11208960	20	2.9	21	79	9	65	15	23	34	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11212744--11212786	20	2.2	20	83	8	52	37	4	2	55	1.33
11217824--11217887	23	2.7	23	90	2	92	26	28	18	26	1.98
11234610--11234764	36	4.3	36	89	3	222	36	24	19	19	1.95
11234609--11234798	36	5.2	36	85	3	168	36	22	19	21	1.95
11235180--11235684	51	9.8	51	87	1	632	32	19	25	22	1.97
11235180--11235684	155	3.3	155	93	0	825	32	19	25	22	1.97
11235179--11235833	206	3.2	206	82	6	779	33	19	24	22	1.97
11235822--11236484	55	12.2	55	83	5	706	30	14	26	27	1.95
11235856--11236484	163	3.9	161	83	6	670	30	15	26	27	1.96
11235822--11236484	108	6.1	109	83	5	684	30	14	26	27	1.95
11240612--11240714	13	7.9	12	72	18	64	73	0	20	5	1.03
11240602--11240673	28	2.5	28	76	17	85	75	0	20	4	0.97
11240604--11240673	20	3.7	20	69	17	60	75	0	20	4	0.96
11240602--11240666	10	6.8	10	76	15	50	75	0	21	3	0.94
11240664--11240697	12	2.8	12	91	8	52	73	0	14	11	1.10
11240573--11240698	40	3.3	37	74	17	114	73	0	19	7	1.05
11240632--11240700	20	3.4	20	72	22	54	72	0	20	7	1.08
11243231--11243304	29	2.6	29	86	4	96	22	12	4	60	1.48
11243258--11243321	29	2.2	29	86	8	87	26	15	4	53	1.62
11247778--11248232	46	9.9	46	84	6	555	24	21	10	43	1.84
11247871--11247943	20	3.3	20	67	20	56	24	23	9	42	1.84
11247987--11248219	20	10.4	20	72	20	160	23	23	10	43	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11251678--11251724	23	2.0	23	84	8	60	55	14	2	27	1.51
11261860--11261906	23	2.0	23	84	8	60	55	14	2	27	1.51
11266409--11266600	46	4.2	46	85	1	215	26	21	9	42	1.84
11266409--11266603	92	2.1	92	84	0	255	26	21	9	42	1.83
11266516--11266672	72	2.2	72	91	0	251	23	22	10	43	1.84
11266469--11266704	118	2.0	118	92	0	391	23	21	11	43	1.85
11266588--11266705	46	2.6	46	90	0	191	22	22	12	43	1.86
11274885--11275506	54	11.5	53	86	3	805	38	15	13	32	1.87
11280855--11281425	54	10.5	53	90	3	818	36	16	14	32	1.89
11283480--11283548	23	3.0	23	78	0	84	31	23	23	21	1.98
11284014--11284080	2	33.5	2	96	0	125	47	0	0	52	1.00
11285206--11285368	64	2.5	64	79	6	159	24	23	18	33	1.97
11288140--11288176	18	2.1	19	90	10	60	59	2	0	37	1.12
11290938--11290976	2	19.5	2	100	0	78	48	0	0	51	1.00
11291000--11291045	24	1.9	24	82	8	58	23	0	2	73	0.94
11291733--11291774	2	21.0	2	100	0	84	50	0	0	50	1.00
11294780--11294832	24	2.2	24	89	0	88	58	16	13	11	1.63
11294803--11294867	34	1.9	34	90	0	103	60	16	12	10	1.59
11297125--11297230	40	2.7	40	80	12	105	65	5	1	27	1.26
11299443--11299547	54	1.9	54	84	0	138	36	19	19	25	1.95
11299458--11299560	54	1.9	54	83	0	134	36	18	16	28	1.92
11319273--11319519	118	2.1	118	82	0	305	43	19	10	26	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11329772--11329844	30	2.4	30	93	0	119	34	24	16	24	1.95
11329772--11329861	30	3.0	30	83	3	83	35	24	17	22	1.95
11330670--11330721	19	2.7	19	100	0	104	21	30	17	30	1.96
11331898--11331946	23	2.1	23	88	7	73	26	2	14	57	1.48
11338789--11338884	46	2.1	46	82	0	111	30	3	11	55	1.51
11338701--11339077	190	2.0	188	97	1	709	30	8	10	49	1.68
11344367--11344481	51	2.3	51	87	0	158	37	3	7	51	1.48
11357421--11357499	6	13.2	6	95	0	95	40	0	8	50	1.34
11360217--11360450	71	3.3	71	78	7	224	17	18	26	36	1.93
11360282--11360510	71	3.2	71	78	3	203	17	17	27	37	1.92
11365771--11365820	21	2.4	20	78	18	50	48	16	8	28	1.74
11365780--11365820	21	2.0	20	86	9	57	48	17	7	26	1.73
11367015--11367052	10	3.6	11	86	10	53	76	0	5	18	0.97
11373561--11373636	31	2.4	31	80	2	89	27	31	26	14	1.95
11373513--11373636	63	2.0	63	82	9	155	26	29	27	16	1.97
11374517--11374571	17	3.2	17	97	0	101	14	23	43	18	1.87
11374589--11374657	9	7.1	10	76	12	72	27	30	23	18	1.98
11374587--11374657	19	3.7	19	92	1	106	26	29	25	18	1.98
11380860--11380983	63	2.0	63	82	9	155	26	28	27	17	1.98
11381851--11381881	7	4.4	7	100	0	62	25	29	29	16	1.96
11381871--11381947	17	4.4	17	82	12	102	15	22	44	18	1.87
11381941--11382011	19	3.7	19	88	1	97	26	28	25	19	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11381941--11382010	9	7.3	9	73	12	59	27	28	25	18	1.98
11383099--11383141	9	4.9	9	86	13	63	20	2	0	76	0.89
11391200--11391252	20	2.7	20	85	5	63	81	0	15	3	0.83
11391214--11391269	16	3.7	15	84	9	62	82	0	14	3	0.81
11391213--11391267	20	2.9	19	79	20	62	81	0	14	3	0.82
11391214--11391252	5	7.8	5	83	11	53	82	0	15	2	0.79
11391213--11391271	7	8.0	7	78	10	64	81	0	15	3	0.82
11391524--11391554	16	1.9	16	93	0	53	12	3	3	80	0.95
11394977--11395064	30	3.0	31	74	14	87	32	17	7	42	1.78
11395131--11395163	10	3.5	10	84	16	52	0	69	0	30	0.88
11395127--11395157	14	2.2	14	94	0	53	0	67	0	32	0.91
11395910--11396096	2	97.0	2	68	23	91	52	6	0	40	1.32
11395948--11396049	5	21.4	5	85	9	67	48	7	0	44	1.32
11396353--11396564	32	6.6	32	72	1	174	28	16	17	36	1.92
11396395--11396546	64	2.4	64	94	0	268	27	17	17	38	1.91
11397867--11397900	15	2.2	16	89	5	52	26	5	0	67	1.13
11397966--11398039	30	2.4	30	82	6	87	45	9	9	35	1.69
11405970--11406245	83	3.3	83	90	2	444	41	4	7	46	1.53
11406355--11406403	23	2.2	22	82	10	55	20	16	4	59	1.53
11412981--11413011	16	1.9	16	93	0	53	35	16	0	48	1.46
11416183--11416235	24	2.2	24	96	0	97	37	15	24	22	1.92
11422830--11422864	18	2.0	17	88	5	52	25	17	31	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11423634--11423663	15	2.0	15	93	0	51	53	23	3	20	1.60
11423655--11423729	32	2.3	32	80	13	82	46	26	6	20	1.75
11423723--11423765	22	2.0	22	85	0	59	60	6	0	32	1.23
11423751--11423801	19	2.7	20	80	19	65	54	0	0	45	0.99
11423751--11423804	18	2.9	19	82	15	60	53	0	0	46	1.00
11424432--11424502	32	2.2	32	82	9	83	38	25	11	25	1.89
11425797--11425920	59	2.1	59	89	0	185	29	25	16	28	1.97
11431855--11431904	18	2.8	18	100	0	100	36	6	28	30	1.81
11431907--11431990	44	1.9	44	92	0	141	28	14	21	35	1.92
11432499--11432553	27	2.0	27	96	0	101	43	32	9	14	1.77

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   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56