genome.fa.s9639.2.7.7.80.10.50.1000.22.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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  22  of  62  ( 7398 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)
4759930--4759996	28	2.5	26	81	11	73	71	0	1	26	0.94
4759928--4760050	21	5.8	21	73	13	76	67	0	2	29	1.09
4759928--4760017	44	2.0	44	85	8	121	68	0	2	28	1.01
4759977--4760046	30	2.3	30	79	20	76	62	1	2	32	1.18
4760194--4760218	2	12.5	2	100	0	50	52	0	0	48	1.00
4760724--4760823	37	2.7	37	84	0	137	32	12	16	40	1.84
4761393--4761531	36	3.9	36	87	0	197	43	14	14	27	1.84
4768702--4768811	46	2.3	49	81	13	122	53	12	0	32	1.45
4772592--4772648	25	2.3	25	82	11	73	1	1	14	82	0.83
4772593--4772647	16	3.3	16	78	16	67	1	1	12	83	0.80
4772605--4772648	23	1.9	23	90	0	70	2	2	13	81	0.88
4772592--4772618	10	2.7	10	100	0	54	0	0	14	85	0.61
4774440--4774478	2	19.5	2	100	0	78	48	0	0	51	1.00
4778186--4778251	28	2.3	28	84	5	78	51	7	1	39	1.40
4778294--4778368	23	3.2	23	77	14	73	42	5	2	49	1.39
4778703--4779235	224	2.4	224	81	5	612	28	18	21	31	1.97
4779657--4779710	2	27.0	2	100	0	108	50	0	0	50	1.00
4781346--4781393	24	2.1	24	84	7	64	29	25	10	35	1.89
4786673--4786724	19	2.7	19	78	3	59	75	0	9	15	1.05
4786737--4786796	2	31.0	2	83	12	81	50	1	0	48	1.11
4786786--4786841	22	2.5	23	80	11	71	50	7	1	41	1.40
4786857--4786921	22	2.8	24	81	9	89	44	6	3	46	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4786858--4786928	24	3.0	24	82	12	85	46	5	1	46	1.35
4798388--4798447	20	2.8	20	82	9	66	21	31	28	18	1.97
4800316--4800354	17	2.2	18	86	4	53	25	0	23	51	1.49
4801772--4804425	702	3.8	702	97	1	4952	37	16	14	31	1.89
4807479--4807573	46	2.1	47	84	4	122	23	18	9	48	1.77
4807491--4807598	46	2.3	46	82	4	135	25	21	8	44	1.80
4807491--4807615	49	2.6	45	75	9	115	25	20	8	44	1.80
4807819--4808519	81	8.6	81	90	0	1071	28	24	12	34	1.92
4807667--4808519	325	2.7	323	88	3	1242	28	24	12	35	1.91
4807667--4808519	162	5.3	162	88	3	1208	28	24	12	35	1.91
4808764--4808941	55	3.3	53	72	10	135	34	16	12	36	1.87
4809992--4810046	28	1.9	29	82	10	69	56	0	1	41	1.10
4817949--4818195	32	7.8	32	78	3	239	29	19	14	36	1.92
4817957--4818192	94	2.5	96	82	4	271	30	19	14	35	1.92
4826896--4826960	20	3.2	20	84	4	87	30	26	18	24	1.98
4829547--4829879	66	5.0	66	91	0	522	34	12	19	33	1.89
4832515--4832602	3	29.0	3	97	2	167	32	0	0	67	0.91
4839801--4839830	6	5.0	6	95	0	51	53	0	30	16	1.44
4840924--4841046	17	7.1	16	77	9	93	38	8	14	38	1.78
4841038--4841083	17	2.7	17	79	0	56	43	13	15	28	1.83
4843065--4843105	22	1.9	22	85	5	57	58	17	9	14	1.62
4844747--4844876	17	7.5	17	78	6	136	38	7	18	35	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4844868--4844913	17	2.7	17	79	0	56	43	13	15	28	1.83
4847126--4847206	42	1.9	43	90	7	130	56	2	17	23	1.52
4849611--4849650	20	2.0	20	90	0	62	35	10	27	27	1.89
4849700--4849735	15	2.4	15	95	0	63	41	19	13	25	1.88
4850854--4850955	32	3.2	32	82	0	132	32	10	21	35	1.88
4850865--4850959	32	3.0	32	84	0	136	33	10	21	34	1.87
4851634--4851706	36	2.1	36	97	2	139	23	8	36	31	1.84
4851762--4851825	29	2.2	28	83	8	76	35	4	17	42	1.70
4851773--4851829	29	2.0	30	93	6	100	31	5	17	45	1.71
4852645--4852688	21	2.2	20	84	8	54	34	6	4	54	1.47
4856594--4856625	3	10.7	3	100	0	64	31	34	0	34	1.58
4858550--4858590	20	2.0	20	100	0	82	43	4	0	51	1.23
4861783--4861815	9	3.8	9	92	4	50	57	0	3	39	1.14
4863898--4864096	103	1.9	103	100	0	398	27	21	19	31	1.97
4864110--4864159	22	2.3	22	85	0	64	32	2	4	62	1.25
4864135--4864194	32	2.0	29	83	9	75	41	1	0	56	1.09
4864154--4864199	22	2.2	20	84	7	56	47	2	0	50	1.13
4864669--4864714	17	2.8	17	86	3	67	50	0	0	50	1.00
4872010--4872185	93	1.9	93	80	6	205	33	21	18	26	1.96
4874099--4874146	21	2.3	21	85	0	60	22	12	39	25	1.89
4877654--4877708	28	2.0	28	85	7	76	27	7	3	61	1.39
4877687--4877823	69	2.0	67	97	2	256	19	17	10	52	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4878949--4879081	60	2.2	61	82	8	164	39	4	23	32	1.75
4878949--4879098	60	2.5	60	80	3	140	40	4	21	34	1.72
4880079--4880192	60	1.9	60	82	7	142	28	11	19	40	1.86
4885032--4885076	20	2.4	19	78	10	56	26	26	2	44	1.66
4886678--4886708	16	1.9	16	100	0	62	38	12	19	29	1.89
4886678--4886712	16	2.2	16	94	0	61	34	14	22	28	1.93
4890685--4890740	29	1.9	29	89	7	87	12	35	28	23	1.91
4890744--4890830	33	2.6	33	88	0	120	9	36	27	26	1.87
4890792--4890845	23	2.3	24	87	3	74	14	29	31	24	1.95
4890792--4890854	24	2.7	23	87	2	81	14	28	31	25	1.95
4892582--4892794	41	5.1	42	74	6	166	33	20	16	30	1.94
4892556--4892834	82	3.4	82	80	3	305	33	19	16	30	1.94
4894591--4894914	160	2.0	166	94	5	581	27	15	16	41	1.88
4895857--4895895	17	2.2	17	86	9	51	69	2	10	17	1.28
4895886--4895957	15	5.0	14	75	14	58	77	9	1	11	1.05
4896005--4896081	39	1.9	39	82	10	93	62	0	11	25	1.29
4896087--4896140	21	2.5	21	84	3	63	81	7	3	7	0.97
4896085--4896169	35	2.4	35	86	5	109	77	7	5	9	1.11
4896249--4896280	5	6.2	5	96	3	55	78	0	3	18	0.89
4897803--4897886	7	11.9	7	83	14	77	72	0	2	25	0.96
4897803--4897887	4	22.8	4	76	15	60	72	0	2	24	0.96
4897814--4897888	20	3.8	20	81	10	91	73	0	2	24	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4897804--4897878	3	22.7	3	81	10	60	72	0	2	25	0.98
4897900--4898025	42	3.3	38	78	13	109	51	4	3	39	1.42
4897952--4898040	33	2.7	33	72	8	92	47	5	3	43	1.43
4898026--4898230	34	5.9	32	73	15	117	42	9	4	43	1.56
4898086--4898243	34	4.6	34	73	17	125	43	8	5	42	1.57
4898256--4898306	2	26.5	2	92	7	88	49	0	0	50	1.00
4898810--4898867	21	2.8	21	86	0	80	24	6	20	48	1.74
4899218--4899298	42	1.9	42	85	5	110	37	18	16	28	1.92
4912511--4912574	29	2.2	29	97	0	119	64	3	12	20	1.41
4915460--4915494	17	2.1	17	100	0	70	28	11	25	34	1.91
4919112--4919280	57	3.0	56	81	1	205	35	28	20	15	1.93
4923224--4923338	57	2.0	57	91	3	187	34	28	20	15	1.94
4925741--4925781	17	2.4	17	91	0	64	29	31	26	12	1.92
4926753--4926876	64	1.9	64	85	3	169	29	16	22	31	1.96
4941389--4941413	12	2.1	12	100	0	50	32	24	0	44	1.54
4941881--4942212	102	3.2	102	86	1	441	33	19	10	35	1.87
4942591--4942963	134	2.8	135	84	2	473	34	27	15	21	1.94
4945025--4945154	35	3.2	42	65	21	105	22	7	3	66	1.34
4945000--4945154	78	2.0	79	90	1	249	21	8	4	65	1.37
4949110--4949161	20	2.6	20	100	0	104	34	19	19	26	1.95
4964107--4964144	18	2.1	18	100	0	76	44	7	10	36	1.68
4964631--4964675	21	2.1	21	87	0	63	31	28	24	15	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4964701--4964745	22	2.0	22	86	4	63	31	33	26	8	1.87
4965793--4965888	32	3.0	32	79	14	126	29	17	18	34	1.94
4965880--4966091	30	7.1	30	96	1	374	22	22	25	30	1.99
4969253--4969297	21	2.1	21	87	0	63	31	28	24	15	1.96
4969323--4969367	22	2.0	22	86	4	63	31	33	26	8	1.87
4970423--4970518	32	3.0	32	79	14	126	29	17	18	34	1.94
4970510--4970722	30	7.1	30	96	0	374	22	22	25	30	1.99
4970980--4971027	14	3.4	14	79	0	51	33	2	16	47	1.58
4975307--4975385	39	2.0	39	97	0	149	31	13	3	50	1.60
4975372--4975415	14	3.0	14	76	23	54	45	0	4	50	1.22

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