genome.fa.s8242.2.7.7.80.10.50.1000.34.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

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   63   64   
          65   66   67   68   69   70   71   72   73   

This is table  34  of  73  ( 8740 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)
8266739--8266778	20	2.0	20	85	9	55	35	2	0	62	1.09
8266887--8266955	3	23.0	3	100	0	138	66	0	0	33	0.92
8267947--8268004	7	8.6	7	74	12	50	46	32	0	20	1.51
8267947--8268006	21	3.0	20	87	4	93	45	31	0	23	1.53
8273925--8274127	95	2.1	99	85	4	270	34	13	11	40	1.81
8274433--8274484	22	2.4	22	100	0	104	40	15	32	11	1.83
8274458--8274793	139	2.4	139	89	1	503	36	17	20	25	1.94
8279087--8279137	23	2.3	23	82	3	68	52	33	9	3	1.53
8279556--8279667	37	3.0	37	94	0	197	40	12	13	33	1.82
8280125--8280195	36	2.0	35	83	8	90	26	9	1	61	1.35
8280363--8280396	3	11.3	3	87	0	50	29	0	2	67	1.05
8280635--8280674	18	2.2	18	86	8	55	17	7	0	75	1.03
8283291--8283553	95	2.7	95	87	3	366	33	17	17	31	1.93
8284717--8285658	84	11.3	84	78	4	876	30	24	19	25	1.98
8284753--8285658	249	3.6	249	88	0	1278	31	24	18	25	1.98
8286643--8286689	3	15.0	3	83	16	60	34	4	0	61	1.15
8286983--8287034	3	17.3	3	87	0	77	30	1	1	65	1.14
8286983--8287048	9	7.1	10	83	10	63	28	3	1	66	1.15
8289680--8289806	60	2.1	60	82	0	146	33	9	15	40	1.80
8289701--8289818	60	2.0	60	87	0	173	32	10	18	38	1.84
8294457--8294505	19	2.6	19	80	6	64	20	18	28	32	1.96
8298377--8298755	190	2.0	188	97	2	715	26	14	22	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8301709--8301787	10	8.3	10	73	24	73	16	29	29	25	1.97
8301708--8301785	19	4.1	19	91	5	122	17	26	29	25	1.98
8301784--8301822	15	2.7	14	88	7	60	20	51	25	2	1.60
8301784--8301821	5	7.8	5	85	5	51	21	52	23	2	1.59
8304063--8304101	20	2.0	20	100	0	78	25	12	15	46	1.81
8304069--8304112	20	2.2	20	83	0	52	31	15	9	43	1.79
8304158--8304188	15	2.1	15	93	0	53	35	12	12	38	1.82
8310116--8310157	20	2.1	20	90	0	66	28	23	11	35	1.91
8313403--8313764	178	2.0	178	97	0	688	32	18	9	40	1.83
8323377--8323419	17	2.5	17	100	0	86	69	18	6	4	1.29
8326247--8326653	207	2.0	204	98	1	787	29	17	16	36	1.91
8326753--8327221	199	2.4	198	84	5	588	34	13	14	37	1.86
8326893--8327670	199	3.9	196	82	6	556	30	14	14	40	1.86
8327139--8327656	200	2.6	201	89	2	749	28	14	13	43	1.83
8327887--8327933	24	2.0	24	86	0	67	48	17	2	31	1.58
8330177--8330208	2	16.0	2	100	0	64	50	0	0	50	1.00
8330528--8330584	14	3.7	15	83	11	71	26	1	49	22	1.60
8330932--8331633	199	3.5	198	88	1	983	28	14	15	41	1.87
8334085--8334141	24	2.5	21	76	17	60	49	8	1	40	1.44
8335397--8335484	19	4.6	19	92	2	140	35	15	0	48	1.46
8335397--8335484	39	2.3	38	92	2	140	35	15	0	48	1.46
8335865--8336514	183	3.6	182	89	2	970	26	16	13	43	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8336486--8336543	29	2.0	28	96	3	107	24	13	15	46	1.82
8339583--8339629	24	1.9	24	86	4	67	44	17	19	19	1.87
8339620--8339734	24	4.8	24	69	7	65	36	18	25	20	1.94
8339700--8339800	23	4.3	24	77	6	82	37	17	21	22	1.94
8349280--8349327	19	2.5	19	96	0	87	50	0	10	39	1.37
8349280--8349333	19	2.9	19	91	2	65	48	0	9	42	1.35
8349373--8349433	22	2.8	23	77	20	60	40	0	4	54	1.22
8349380--8349433	21	2.5	23	83	16	71	38	0	5	55	1.23
8350381--8350415	17	2.0	18	88	5	54	54	0	5	40	1.24
8350640--8350733	45	2.1	46	91	2	154	48	20	14	15	1.80
8354700--8354724	10	2.5	10	100	0	50	20	8	20	52	1.71
8355189--8355233	19	2.4	19	92	0	72	31	13	35	20	1.91
8359680--8359728	25	2.0	24	84	7	64	40	12	24	22	1.88
8360070--8360112	12	3.7	12	84	15	63	79	0	0	20	0.74
8361601--8361859	133	2.0	132	88	0	383	31	18	18	31	1.95
8362159--8362232	38	1.9	39	86	2	105	41	1	16	40	1.56
8364142--8364218	24	3.2	24	94	1	127	41	5	22	31	1.75
8368047--8368279	39	6.2	39	81	7	266	45	11	7	34	1.69
8368078--8368145	34	2.0	34	91	0	109	47	11	10	30	1.74
8368048--8368272	110	2.0	113	84	7	298	44	12	7	35	1.70
8368297--8368411	58	2.0	58	87	0	167	45	8	6	39	1.62
8368371--8368451	39	2.1	39	83	4	101	43	9	7	39	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8368317--8368494	97	1.8	97	80	4	216	46	7	6	39	1.58
8368503--8368826	58	5.7	56	80	7	192	41	10	7	40	1.69
8368554--8368845	58	5.1	58	80	5	285	39	11	8	40	1.72
8368634--8368841	112	1.8	114	86	6	305	37	12	9	40	1.75
8374801--8374838	17	2.2	17	100	0	76	28	18	15	36	1.92
8377204--8377342	61	2.3	61	98	0	269	20	25	27	25	1.99
8378636--8378805	85	2.0	83	80	8	191	32	19	17	30	1.94
8378830--8378862	2	17.5	2	87	12	52	51	0	0	48	1.00
8378830--8378862	9	3.6	9	95	4	57	51	0	0	48	1.00
8384377--8384427	26	2.0	27	88	7	79	43	21	17	17	1.88
8389657--8389715	19	3.0	20	80	9	77	16	30	16	35	1.92
8389743--8389776	17	2.0	17	94	0	59	44	17	5	32	1.73
8396795--8397765	485	2.0	482	97	1	1854	25	10	19	44	1.82
8404645--8404687	20	2.2	20	83	8	52	27	25	2	44	1.66
8404857--8404902	19	2.6	18	79	6	58	45	30	6	17	1.73
8413803--8413878	21	3.7	19	78	16	80	25	25	28	21	1.99
8413803--8413878	23	3.6	22	84	10	97	25	25	28	21	1.99
8425457--8425514	21	2.7	22	75	5	64	48	18	1	31	1.59
8425458--8425498	22	1.9	22	85	5	57	46	17	2	34	1.61
8434528--8434561	2	17.0	2	93	0	59	47	0	0	52	1.00
8434524--8434582	10	6.0	10	77	16	52	40	0	1	57	1.09
8445865--8445891	14	1.9	14	100	0	54	37	22	18	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8446341--8446524	99	1.9	99	87	2	271	36	21	20	21	1.95
8446375--8446922	280	2.0	273	90	3	866	34	24	18	22	1.96
8446648--8446839	106	1.8	106	83	2	260	34	26	17	20	1.95
8448049--8448078	2	15.5	2	93	6	53	46	0	0	53	1.00
8448093--8448131	6	6.5	6	90	0	60	20	17	0	61	1.34
8448099--8448138	18	2.2	18	86	0	53	25	12	0	62	1.30
8448133--8448191	22	2.6	22	78	10	57	22	5	0	72	1.03
8448139--8448176	20	2.0	20	94	5	69	15	5	0	78	0.91
8448223--8448254	2	16.0	2	100	0	64	50	0	0	50	1.00
8448361--8448445	11	7.2	12	70	18	54	11	5	4	77	1.09
8448399--8448445	10	4.7	10	82	12	53	10	8	2	78	1.04
8448361--8448445	21	4.3	20	71	12	61	11	5	4	77	1.09
8462873--8462907	18	1.9	18	88	0	52	40	14	11	34	1.82
8462898--8463221	54	6.0	54	84	0	373	38	17	16	27	1.91
8462902--8463218	162	2.0	162	84	2	422	38	17	16	27	1.91
8465639--8465670	16	2.0	16	100	0	64	43	0	18	37	1.51
8466508--8466563	18	3.1	18	89	0	85	26	19	32	21	1.97
8472578--8472630	22	2.4	23	84	9	67	28	18	28	24	1.98
8473298--8473332	18	1.9	18	94	0	61	20	20	34	25	1.96
8477535--8477566	11	2.9	11	95	0	55	43	6	0	50	1.27
8478634--8479016	54	7.1	54	78	7	409	37	18	17	27	1.93
8478635--8479034	108	3.7	108	81	4	475	37	18	17	26	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8479991--8480023	13	2.4	14	85	10	50	30	12	6	51	1.63
8484082--8484115	17	2.0	17	94	0	59	44	5	11	38	1.65
8486095--8486141	3	15.7	3	86	8	69	31	0	2	65	1.04
8493037--8493164	7	17.7	7	71	18	84	76	0	17	6	0.98
8493039--8493095	15	3.7	15	97	2	105	75	0	14	10	1.05
8493035--8493164	19	7.3	17	67	23	63	76	0	17	6	0.99
8493038--8493164	30	4.4	28	76	16	93	76	0	17	6	0.99
8493084--8493164	25	3.0	27	77	18	87	77	0	19	2	0.88
8493107--8493175	25	2.8	25	77	18	65	76	0	23	0	0.78
8495376--8495483	42	2.6	41	80	2	126	26	20	22	30	1.98

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   63   64   
          65   66   67   68   69   70   71   72   73