genome.fa.s7984.2.7.7.80.10.50.1000.26.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   

This is table  26  of  65  ( 7696 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)
5187627--5187676	17	3.0	17	82	8	59	78	2	2	18	0.95
5187644--5187676	12	2.7	13	90	9	52	81	0	3	15	0.80
5187627--5187671	21	2.1	21	84	8	56	77	2	2	17	0.97
5187674--5187748	39	1.9	38	81	7	89	34	6	2	56	1.40
5187756--5188034	37	7.8	36	74	19	185	45	5	2	46	1.40
5187797--5187945	76	2.0	74	84	9	194	46	5	1	46	1.34
5187912--5187971	27	2.3	25	88	5	84	46	6	3	43	1.46
5188011--5188058	24	2.0	24	95	0	87	41	6	6	45	1.54
5188012--5188069	24	2.4	24	88	2	80	43	6	3	46	1.47
5187976--5188124	61	2.4	61	82	6	167	43	7	4	44	1.50
5188708--5190173	84	17.5	84	83	2	1698	24	18	22	34	1.96
5191308--5191563	93	2.7	93	86	5	309	33	18	14	32	1.92
5193258--5193302	15	2.9	16	90	6	67	60	15	0	24	1.36
5194410--5194599	55	3.5	54	79	8	208	27	23	17	31	1.97
5194410--5194554	51	2.8	51	81	6	157	28	24	16	30	1.97
5194410--5194600	106	1.8	106	85	4	269	27	23	17	30	1.97
5194578--5194629	26	2.0	26	96	0	95	28	23	23	25	1.99
5194613--5194798	55	3.4	55	89	1	275	27	23	17	31	1.97
5194807--5194917	37	3.0	38	84	6	129	25	17	18	39	1.91
5194827--5194937	37	3.0	37	86	4	134	24	16	20	38	1.92
5196203--5196242	18	2.2	19	86	13	57	7	15	0	77	0.98
5196214--5196332	7	16.9	7	74	13	66	7	15	0	77	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5196204--5196318	17	7.2	16	75	21	77	7	16	0	75	1.02
5196203--5196271	10	6.7	10	75	18	54	7	15	0	76	0.99
5196204--5196318	50	2.4	45	80	11	124	7	16	0	75	1.02
5196197--5196276	10	8.1	10	71	19	53	8	13	0	77	0.99
5196263--5196340	21	3.6	21	74	8	59	7	15	0	76	0.99
5196231--5196332	13	7.0	14	69	15	57	7	14	0	77	0.98
5205988--5206101	47	2.4	47	76	8	113	40	20	13	26	1.89
5208103--5208147	15	2.9	15	87	6	63	60	13	0	26	1.34
5208105--5208147	16	2.8	15	86	6	59	62	9	0	27	1.25
5210292--5210338	17	2.8	17	78	15	53	72	0	14	12	1.13
5211493--5211608	17	6.8	17	70	22	75	71	1	6	19	1.18
5211557--5211608	8	6.2	8	82	14	61	76	0	1	21	0.87
5211558--5211604	20	2.4	21	86	13	73	76	0	2	21	0.89
5212734--5212788	25	2.3	23	84	9	67	72	0	1	25	0.94
5212720--5212809	44	2.0	44	83	8	112	67	0	4	27	1.09
5212720--5212861	22	6.4	22	69	17	64	67	0	3	28	1.12
5212734--5212859	13	9.6	13	68	22	77	67	0	3	28	1.11
5212816--5212907	43	2.1	46	82	10	111	63	1	3	32	1.18
5212874--5213079	2	106.5	2	78	13	164	55	1	3	39	1.26
5212770--5213082	12	30.0	10	75	17	70	58	1	3	36	1.26
5213583--5213667	37	2.3	37	87	0	116	30	11	15	42	1.83
5214332--5216030	106	16.0	106	92	0	2731	22	18	25	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5221934--5221990	19	2.9	19	75	14	62	66	1	8	22	1.29
5222093--5222168	21	3.3	23	78	10	75	65	0	3	30	1.10
5222296--5222343	14	3.1	14	78	18	51	68	4	8	18	1.31
5222411--5222467	22	2.6	21	81	10	69	59	1	0	38	1.08
5222862--5222963	37	2.8	37	84	0	123	31	14	14	39	1.87
5223533--5223591	13	4.3	14	70	12	50	42	3	3	50	1.35
5223534--5223612	41	1.9	41	82	5	97	40	6	2	50	1.41
5223594--5223880	37	7.9	36	75	13	236	47	5	2	44	1.39
5223600--5223880	36	7.9	36	73	16	173	47	5	2	44	1.38
5223778--5223832	27	2.1	27	93	6	96	52	7	1	38	1.40
5223730--5223858	64	2.0	64	85	5	172	47	4	3	44	1.39
5223859--5223917	24	2.5	24	100	0	118	42	8	6	42	1.61
5223931--5223990	2	30.0	2	96	0	111	48	0	1	50	1.11
5225938--5226226	145	2.0	143	97	1	542	29	12	18	39	1.87
5228010--5228259	30	8.4	30	73	10	102	58	7	16	17	1.60
5228053--5228255	30	6.9	28	72	12	124	60	5	14	18	1.54
5228852--5228876	10	2.5	10	100	0	50	44	8	24	24	1.80
5229306--5229366	32	1.9	32	96	0	113	47	6	14	31	1.70
5229686--5229729	24	1.9	22	86	9	61	63	4	0	31	1.14
5230037--5230273	130	1.8	131	82	2	307	24	16	31	27	1.97
5230283--5230459	64	2.7	64	80	7	176	41	10	18	29	1.84
5230653--5230815	91	1.8	88	88	6	247	38	9	17	34	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5232240--5232408	2	84.5	2	97	0	320	48	0	1	50	1.08
5236350--5236583	30	7.9	30	69	10	124	58	8	15	17	1.62
5237994--5238030	3	13.0	3	83	11	51	67	2	0	29	1.04
5239978--5240045	3	22.7	3	100	0	136	67	0	0	32	0.91
5241130--5241181	3	17.0	3	84	4	68	40	0	0	59	0.97
5244782--5244858	6	12.7	6	71	13	50	25	12	3	57	1.53
5244782--5244822	12	3.3	12	86	6	64	24	14	4	56	1.58
5244770--5244824	19	2.8	19	83	2	65	25	16	3	54	1.58
5249788--5250007	114	1.9	114	90	0	350	33	15	20	30	1.94
5252084--5252241	54	3.0	54	85	6	218	37	15	23	23	1.93
5253006--5253796	113	7.0	113	93	1	1235	38	14	18	28	1.91
5254027--5254088	3	20.0	3	86	6	88	37	1	0	61	1.06
5260603--5260637	16	2.2	16	100	0	70	17	5	48	28	1.69
5264985--5265039	3	19.0	3	85	7	69	38	0	0	61	0.96
5264987--5265049	20	3.1	21	80	8	78	42	0	0	57	0.99
5264985--5265039	23	2.4	23	84	6	67	38	0	0	61	0.96
5266764--5267013	135	1.8	138	81	10	318	39	8	7	44	1.63
5267507--5267560	28	2.0	27	88	3	81	35	5	0	59	1.21
5267485--5267556	28	2.5	30	77	11	78	36	5	0	58	1.22
5278193--5278236	17	2.6	18	82	10	56	72	0	15	11	1.11
5279831--5279875	24	1.9	23	82	13	56	51	11	24	13	1.73
5279814--5280100	112	2.6	113	87	2	400	40	13	21	25	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5280027--5280350	121	2.7	119	88	5	463	40	15	19	25	1.90
5280561--5280615	3	19.0	3	85	7	69	36	0	0	63	0.95
5282546--5282584	2	20.0	2	85	15	55	48	2	0	48	1.15
5283001--5283063	3	21.0	3	96	0	117	65	0	1	33	1.03
5285457--5285619	87	1.9	87	89	0	254	42	10	12	34	1.78
5285637--5286071	200	2.2	198	85	1	584	32	14	14	38	1.86
5286145--5286988	182	4.6	182	87	2	1099	28	16	12	43	1.84
5287374--5287441	31	2.2	30	79	7	75	47	19	8	25	1.78
5288942--5288993	7	7.4	7	82	0	59	19	0	38	42	1.51
5295435--5295467	14	2.4	14	100	0	66	27	39	15	18	1.90
5298742--5298766	6	4.2	6	100	0	50	20	16	64	0	1.30
5298829--5298873	13	3.5	13	84	6	65	20	48	15	15	1.80
5298924--5298974	24	2.1	25	92	3	86	54	0	0	45	0.99
5298894--5298970	21	3.8	21	76	10	79	54	0	0	45	0.99
5298993--5299038	12	3.9	12	91	2	67	30	45	10	13	1.77
5302301--5302358	25	2.3	25	96	0	107	36	6	20	36	1.80
5302372--5302404	2	16.5	2	100	0	66	51	0	0	48	1.00
5307487--5307520	17	2.0	17	100	0	68	23	29	35	11	1.90
5311412--5311443	15	2.1	15	94	0	55	53	9	25	12	1.68
5325641--5325681	18	2.3	18	100	0	82	31	24	9	34	1.88
5338064--5338219	83	1.9	83	80	0	186	33	14	17	33	1.90
5338452--5338621	41	4.1	41	80	1	162	30	20	16	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5343343--5343426	44	1.9	44	82	4	107	26	16	19	38	1.92
5347728--5347797	20	3.5	19	80	7	61	32	15	25	25	1.95
5350923--5351091	3	56.0	3	88	3	241	33	3	0	62	1.16
5351782--5351863	31	2.8	29	70	18	78	31	18	7	42	1.77
5351782--5351900	60	2.0	60	85	6	161	31	18	6	43	1.76
5351782--5351930	60	2.5	59	81	11	160	30	17	8	44	1.77
5352097--5352242	59	2.4	59	81	9	163	41	5	22	30	1.76
5355294--5355324	2	16.0	2	93	6	55	51	0	0	48	1.00
5355614--5355943	158	2.1	158	88	0	482	49	6	17	26	1.72
5356683--5356767	37	2.3	37	97	0	161	20	20	25	34	1.96

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