genome.fa.s190.2.7.7.80.10.50.1000.26.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

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   57   58   59   60   61   62   

This is table  26  of  62  ( 7381 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)
6132128--6132293	64	2.6	64	85	5	176	40	3	3	53	1.34
6132620--6132651	2	16.0	2	100	0	64	50	0	0	50	1.00
6133180--6133212	15	2.1	17	88	11	52	45	6	6	42	1.53
6133186--6133239	28	1.9	28	85	7	74	44	3	5	46	1.44
6133203--6133272	33	2.1	34	84	7	90	42	1	7	48	1.39
6133230--6133282	22	2.5	22	87	9	74	43	0	5	50	1.25
6133281--6133524	25	9.9	27	86	10	149	40	15	2	41	1.60
6133311--6133533	5	46.6	5	91	8	376	41	17	0	40	1.49
6135019--6135060	21	2.0	21	95	0	75	19	26	23	30	1.98
6135091--6135160	19	3.8	19	74	16	76	20	20	38	21	1.94
6135092--6135158	35	1.9	35	90	3	109	20	17	38	22	1.93
6135297--6135354	30	1.9	31	93	6	102	44	17	5	32	1.70
6135814--6135860	19	2.5	19	86	3	60	19	2	4	74	1.09
6135813--6135854	18	2.2	20	80	19	54	19	2	2	76	1.01
6142209--6142262	20	2.6	21	80	16	60	38	7	27	25	1.83
6142911--6142993	23	3.6	23	91	0	139	21	24	24	30	1.99
6143723--6143767	23	2.0	23	90	0	72	24	26	26	22	2.00
6143735--6144049	149	2.1	149	97	1	587	34	20	17	27	1.95
6145517--6145561	21	2.1	21	87	0	63	15	24	28	31	1.96
6148853--6149167	149	2.1	149	95	1	569	34	20	16	28	1.94
6150633--6150677	21	2.1	21	87	0	63	15	24	28	31	1.96
6152666--6153073	102	4.0	103	86	5	560	33	18	11	37	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6155073--6155098	7	3.7	7	100	0	52	84	0	15	0	0.62
6156649--6156716	35	1.9	35	84	0	91	54	8	4	32	1.51
6156665--6156732	35	1.9	35	85	5	93	57	10	2	29	1.47
6158827--6159201	150	2.5	150	81	6	438	40	16	9	33	1.80
6159699--6159806	54	2.0	54	85	0	144	32	15	18	33	1.93
6161648--6161702	12	4.6	12	83	0	74	12	16	47	23	1.81
6161808--6161851	13	3.5	13	93	3	72	13	15	52	18	1.75
6162484--6162549	28	2.4	28	92	0	114	28	18	21	31	1.96
6162536--6162577	13	3.2	13	82	0	57	28	16	19	35	1.93
6162800--6162874	2	37.5	2	94	5	134	48	1	0	50	1.09
6165626--6165672	23	2.0	24	84	12	62	17	0	34	48	1.47
6173728--6173806	39	2.1	38	88	7	115	25	3	29	41	1.73
6174553--6174676	63	2.0	63	82	6	153	27	28	26	17	1.98
6175557--6175677	29	4.2	29	83	2	145	38	19	3	38	1.69
6182529--6182554	10	2.6	10	100	0	52	11	19	50	19	1.77
6182968--6183046	29	2.7	29	88	0	122	39	22	6	31	1.79
6183055--6183112	29	2.0	29	93	0	98	18	25	32	22	1.97
6186002--6186047	21	2.2	21	84	7	58	43	8	17	30	1.79
6187998--6188050	21	2.5	21	77	17	56	13	1	16	67	1.31
6197465--6197512	24	2.0	24	91	0	78	41	2	6	50	1.39
6214046--6214182	56	2.5	56	83	8	158	34	10	21	33	1.87
6214395--6214608	68	3.1	68	83	4	243	30	16	21	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6214395--6214647	136	1.9	136	79	3	294	31	15	21	31	1.94
6214600--6215082	81	6.0	81	87	1	655	37	12	22	28	1.90
6218258--6218290	16	2.1	16	100	0	66	39	12	30	18	1.87
6218549--6218613	23	2.8	23	86	6	96	35	18	15	30	1.92
6223045--6223122	34	2.3	34	97	0	147	37	20	8	33	1.84
6223619--6223765	56	2.7	53	80	11	163	31	11	22	34	1.90
6223605--6223764	53	2.9	53	81	11	162	32	11	22	33	1.89
6224016--6224165	68	2.2	68	78	2	158	32	14	24	28	1.94
6224115--6224408	81	3.7	81	82	4	334	34	12	22	30	1.91
6224272--6224408	73	1.9	74	87	1	204	34	13	21	31	1.91
6231482--6231648	90	1.9	90	94	0	298	35	11	5	46	1.64
6233434--6233479	19	2.4	19	96	0	83	52	26	0	21	1.47
6233852--6234198	172	2.0	172	100	0	694	34	19	10	34	1.86
6234218--6234448	112	2.1	111	86	0	327	35	19	15	29	1.92
6238970--6239021	13	4.0	13	84	0	68	30	19	17	32	1.95
6238991--6239146	85	1.8	85	84	2	215	33	19	17	28	1.95
6240449--6240497	2	24.0	2	95	4	89	48	0	2	48	1.12
6251708--6251749	21	2.0	22	86	13	61	28	14	9	47	1.75
6254923--6254962	21	1.9	21	90	10	64	57	10	5	27	1.52
6258774--6258830	23	2.5	22	80	5	69	24	24	22	28	2.00
6259316--6259355	13	2.9	14	88	7	55	35	12	7	45	1.70
6259901--6259945	15	3.0	15	96	0	81	37	2	26	33	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6261111--6261138	13	2.2	13	100	0	56	50	7	7	35	1.57
6261537--6261589	19	2.8	19	88	0	88	20	33	24	20	1.97
6270642--6270687	23	2.0	23	100	0	92	43	13	17	26	1.85
6281705--6281732	5	5.6	5	100	0	56	60	0	0	39	0.97
6285767--6285803	18	2.1	18	100	0	74	29	27	10	32	1.90
6293502--6293549	20	2.4	20	96	0	87	33	27	4	35	1.76
6297190--6297223	17	2.0	17	88	0	50	32	23	17	26	1.97
6297502--6297595	21	4.5	21	78	5	100	45	29	0	24	1.53
6297502--6297605	7	14.9	7	68	11	52	45	31	0	23	1.53
6297502--6297616	35	3.1	35	71	20	90	45	30	0	24	1.54
6297516--6297608	42	2.2	42	83	7	109	44	30	0	25	1.55
6297871--6297911	14	3.1	14	76	20	52	41	0	4	53	1.22
6300316--6300555	120	2.0	120	95	0	435	39	8	10	42	1.69
6305412--6305449	20	1.9	20	94	0	67	31	34	15	18	1.92
6313650--6313681	2	16.0	2	100	0	64	50	0	0	50	1.00
6315302--6315348	3	15.7	3	82	8	60	65	2	29	2	1.15
6315939--6315985	5	9.2	5	81	4	58	59	0	12	27	1.34
6315939--6315985	21	2.3	20	88	3	76	59	0	12	27	1.34
6315939--6315983	10	4.4	10	91	5	72	60	0	11	28	1.31
6322815--6322951	36	3.8	36	94	0	229	25	16	14	43	1.85
6336301--6336355	23	2.5	22	84	3	74	27	27	27	18	1.98
6336312--6336362	23	2.2	22	89	6	75	21	37	21	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6342473--6342531	18	3.2	18	90	4	82	16	44	23	15	1.86
6343681--6343765	31	2.7	31	71	12	75	14	25	31	28	1.94
6348408--6348483	31	2.4	31	82	2	89	17	26	28	27	1.97
6351003--6351055	23	2.3	23	78	15	63	66	1	1	30	1.13
6351009--6351055	24	2.0	24	87	8	69	68	2	2	27	1.13
6352687--6352752	23	2.9	23	86	0	96	37	16	21	24	1.93
6352831--6352869	16	2.5	16	91	4	62	41	23	0	35	1.55
6355326--6355378	21	2.5	20	76	8	61	71	1	7	18	1.19
6355292--6355461	76	2.2	78	78	5	175	73	2	7	15	1.18
6355415--6355457	10	4.6	9	83	11	59	83	2	4	9	0.87
6355347--6355460	38	2.9	37	73	15	97	72	2	7	16	1.19
6355416--6355457	19	2.3	18	84	15	59	83	2	4	9	0.88
6355612--6355659	2	25.0	2	91	8	82	52	0	0	47	1.00
6355603--6355658	17	3.1	19	80	17	73	57	0	0	42	0.99
6355612--6355659	19	2.5	19	100	0	96	52	0	0	47	1.00
6355679--6355766	15	5.5	15	71	14	54	77	2	3	17	1.01
6355686--6355733	19	2.6	18	84	15	55	81	4	2	12	0.93
6355679--6355766	25	3.5	25	80	7	79	77	2	3	17	1.01
6355716--6355765	12	3.8	13	78	10	57	74	0	6	20	1.03
6355764--6355796	2	16.5	2	100	0	66	51	0	0	48	1.00
6357134--6357213	30	2.5	31	82	11	92	61	8	6	23	1.48
6358401--6358462	32	1.9	32	96	0	115	32	14	14	38	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6358433--6358585	49	3.1	49	81	5	184	26	16	16	39	1.90
6358714--6358888	95	1.8	95	83	2	235	32	12	19	36	1.88
6358842--6359043	47	4.3	47	74	13	148	27	18	18	36	1.94
6358842--6358977	48	2.9	47	81	7	136	28	14	21	35	1.93
6359330--6359366	8	4.5	8	90	6	56	43	0	0	56	0.99
6360713--6360765	2	26.5	2	100	0	106	49	0	0	50	1.00
6371391--6371424	7	4.9	7	100	0	68	88	11	0	0	0.52
6371472--6371526	6	8.8	6	81	15	67	81	1	16	0	0.77
6371473--6371523	26	2.0	26	88	7	77	80	1	17	0	0.81
6371472--6371518	20	2.5	18	86	10	67	82	2	14	0	0.75

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   57   58   59   60   61   62