genome.fa.s8243.2.7.7.80.10.50.1000.23.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: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10265705

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   

This is table  23  of  49  ( 5786 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)
4865084--4865133	23	2.2	23	96	0	91	10	34	20	36	1.86
4872152--4872300	64	2.3	64	79	10	187	46	7	4	41	1.53
4872776--4872809	16	2.1	17	94	5	61	29	5	14	50	1.67
4882872--4882994	61	2.0	62	98	1	239	17	27	21	34	1.95
4884409--4884442	16	2.1	17	88	5	52	64	0	0	35	0.94
4893009--4893060	23	2.3	23	96	0	95	46	9	1	42	1.47
4895108--4895209	43	2.4	43	98	0	195	30	7	20	41	1.81
4903542--4903575	2	17.0	2	100	0	68	50	0	0	50	1.00
4911406--4911440	16	2.2	16	89	0	52	11	14	20	54	1.70
4912070--4912104	2	17.5	2	100	0	70	51	0	0	48	1.00
4912172--4912290	60	2.0	59	86	4	168	34	17	3	44	1.66
4912184--4912313	60	2.2	59	82	9	149	35	20	3	40	1.70
4912529--4912659	59	2.2	60	88	1	192	41	2	20	35	1.65
4925728--4926291	146	3.9	146	89	2	864	34	20	14	30	1.93
4925732--4926291	291	1.9	292	91	0	915	34	20	14	30	1.92
4928818--4928842	2	12.5	2	100	0	50	48	0	0	52	1.00
4931037--4931078	20	2.2	19	88	12	68	23	28	9	38	1.86
4931186--4931221	18	2.0	18	89	10	56	47	0	0	52	1.00
4931138--4931262	59	2.1	59	82	10	148	41	4	6	48	1.47
4932747--4932841	39	2.4	37	77	16	93	44	1	1	53	1.14
4932773--4932855	39	2.1	39	88	4	121	37	1	2	59	1.19
4934334--4934375	19	2.2	19	87	8	59	38	2	2	57	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4935009--4935270	21	12.6	21	73	13	229	19	20	25	33	1.96
4935034--4935270	42	5.7	41	96	1	404	19	19	26	34	1.96
4935034--4935270	126	1.9	124	97	1	447	19	19	26	34	1.96
4943480--4943538	31	1.9	31	90	10	95	33	10	5	50	1.58
4943689--4943757	31	2.3	31	80	7	81	43	5	14	36	1.70
4946132--4946161	2	15.5	2	93	6	53	50	0	0	50	1.00
4951630--4951661	17	1.9	16	93	6	55	31	9	0	59	1.29
4951962--4952029	31	2.2	31	81	5	75	39	14	25	20	1.91
4953999--4954058	31	1.9	32	89	3	95	46	0	0	53	1.00
4961385--4961413	11	2.6	11	100	0	58	41	20	0	37	1.53
4962159--4963012	426	2.0	425	97	2	1635	36	11	8	43	1.72
4965272--4965305	16	2.1	17	88	5	52	64	0	0	35	0.94
4965888--4965927	22	2.0	21	85	14	57	22	17	0	60	1.37
4966452--4966479	9	3.1	9	100	0	56	21	21	35	21	1.96
4968616--4968653	4	9.5	4	94	0	67	26	0	44	28	1.54
4971086--4971199	55	2.1	55	80	6	124	42	9	16	31	1.81
4984466--4984865	200	2.0	200	89	0	613	27	28	16	28	1.97
4986841--4986899	28	2.1	28	90	3	93	15	10	32	42	1.80
4986477--4986919	221	2.0	217	83	6	545	24	11	27	37	1.89
4994683--4994718	2	18.0	2	94	0	63	47	0	0	52	1.00
4995930--4995954	7	3.6	7	100	0	50	16	12	44	28	1.83
4996484--4996527	15	2.9	15	79	0	52	13	63	11	11	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5001746--5001793	23	2.1	23	88	0	69	35	12	18	33	1.89
5002171--5002222	23	2.3	22	90	6	77	44	19	1	34	1.62
5002181--5002243	23	2.7	23	90	0	90	38	19	6	36	1.77
5005346--5005388	22	1.9	23	90	4	70	44	13	11	30	1.80
5005384--5006076	365	1.9	364	94	2	1237	33	16	14	35	1.89
5005384--5006076	183	3.8	183	96	1	1232	33	16	14	35	1.89
5007265--5007372	12	9.0	12	77	0	63	21	35	8	35	1.83
5007265--5007357	6	15.5	6	74	0	60	22	35	7	34	1.83
5007281--5007369	27	3.2	27	93	4	142	20	35	10	33	1.86
5007278--5007361	9	9.3	9	67	10	55	21	35	9	33	1.86
5008827--5010308	196	7.5	199	98	1	2848	31	16	16	36	1.91
5008827--5010308	591	2.5	591	97	1	2836	31	16	16	36	1.91
5010431--5010479	19	2.6	19	93	0	80	57	10	2	30	1.43
5012031--5012078	15	3.3	14	78	18	53	4	43	0	52	1.20
5012362--5012426	21	3.1	21	80	6	69	15	29	15	40	1.88
5014620--5014661	20	2.2	19	84	16	59	14	14	11	59	1.61
5014783--5014828	20	2.3	20	89	10	76	17	17	10	54	1.70
5014893--5015333	222	2.0	224	92	3	739	39	7	8	44	1.62
5016625--5016671	23	2.1	23	84	11	62	57	4	0	38	1.18
5016623--5016672	21	2.3	21	80	16	57	54	4	0	42	1.19
5022168--5022283	39	2.9	39	76	8	119	35	18	1	44	1.60
5023079--5023107	14	2.1	14	100	0	58	34	6	27	31	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5032342--5032438	35	2.8	35	84	1	106	35	7	10	47	1.65
5032342--5032427	18	4.9	17	72	10	57	34	8	9	47	1.65
5032366--5032436	17	4.2	17	78	5	72	32	7	12	47	1.68
5032365--5032445	18	4.7	18	75	11	71	33	7	11	48	1.67
5033403--5033449	18	2.6	18	80	6	51	68	4	4	23	1.26
5036762--5036801	21	1.9	21	89	0	62	52	0	7	40	1.30
5037555--5037694	60	2.3	61	78	11	146	34	17	5	43	1.70
5037601--5037736	60	2.2	60	80	11	152	30	20	5	42	1.76
5037895--5037975	40	2.0	40	82	0	99	41	4	19	33	1.73
5039329--5039369	20	2.0	20	95	0	73	39	31	7	21	1.81
5040906--5040969	30	2.1	30	91	0	101	40	21	7	29	1.82
5044074--5044279	60	3.4	60	84	4	236	43	3	18	33	1.68
5049044--5049077	10	3.4	10	87	0	50	0	23	0	76	0.79
5049044--5049087	15	2.9	15	79	3	52	2	27	0	70	0.99
5054107--5054211	21	5.1	21	69	4	88	19	17	24	39	1.92
5054111--5054211	41	2.5	41	95	0	175	19	17	23	38	1.93
5054136--5054208	20	3.6	20	74	3	65	16	19	23	41	1.90
5054111--5054251	41	3.5	41	86	2	142	20	18	22	38	1.93
5055095--5055135	2	21.0	2	95	5	75	51	0	0	48	1.00
5055672--5055745	21	3.6	21	71	10	71	20	17	27	35	1.95
5055693--5055765	20	3.6	20	75	10	76	15	19	24	41	1.89
5055669--5055809	41	3.5	40	87	6	187	19	19	23	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5055758--5055840	19	4.1	20	73	11	62	21	16	24	37	1.94
5055757--5055849	22	4.4	22	76	9	86	21	18	23	36	1.95
5055982--5056152	41	4.3	41	78	15	216	38	22	19	19	1.94
5056063--5056131	19	3.5	19	69	11	66	40	20	20	18	1.92
5056081--5056152	22	3.4	22	71	11	78	38	23	19	18	1.93
5055988--5056130	75	1.9	73	88	7	216	37	22	20	19	1.94
5056141--5056299	21	7.7	21	85	2	135	35	25	17	21	1.95
5056186--5056257	20	3.6	20	94	0	117	44	23	22	9	1.82
5056650--5056697	16	2.9	16	75	3	51	54	0	6	39	1.26
5060567--5060729	79	2.1	79	97	1	308	19	21	25	33	1.97
5060585--5060729	80	1.8	77	98	1	209	20	22	26	30	1.98
5066922--5066967	25	1.9	23	86	8	65	36	2	0	60	1.09
5073542--5073606	29	2.2	29	100	0	130	58	0	10	30	1.32
5078610--5078688	22	3.5	22	77	6	86	26	30	22	20	1.98
5082808--5082907	49	2.0	49	100	0	200	36	24	13	27	1.92
5097228--5097258	2	15.5	2	100	0	62	51	0	0	48	1.00
5098438--5098497	22	2.7	22	81	2	66	40	11	20	28	1.87
5100448--5100518	2	36.5	2	83	5	92	50	0	0	49	1.00
5100579--5100655	30	2.6	30	91	0	127	18	35	12	33	1.89
5106468--5106555	44	2.0	42	91	4	140	50	0	0	50	1.00
5108069--5108144	37	2.1	37	100	0	152	53	13	5	27	1.60
5109105--5109165	19	3.1	19	70	9	50	45	0	0	54	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5109098--5109187	40	2.3	39	77	7	101	45	1	0	53	1.07
5110307--5110368	9	6.9	9	72	7	54	62	3	1	32	1.20
5111903--5111945	21	2.0	21	95	0	77	44	0	0	55	0.99
5111967--5112005	20	2.0	20	89	0	60	69	10	5	15	1.34
5111980--5112041	27	2.3	26	76	10	63	69	8	1	20	1.23
5121804--5121835	2	16.0	2	93	0	55	50	3	0	46	1.17
5122623--5122697	32	2.4	31	76	13	80	17	10	30	41	1.83
5123746--5123777	2	16.0	2	100	0	64	50	0	0	50	1.00
5127025--5127503	6	80.2	6	95	4	880	50	16	0	32	1.46
5134431--5134497	19	3.5	19	83	2	80	47	23	16	11	1.80

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