genome.fa.s7984.2.7.7.80.10.50.1000.29.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  29  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)
5775053--5775120	24	2.8	23	80	10	64	82	5	10	1	0.90
5775059--5775119	14	4.3	13	82	15	68	83	4	9	1	0.86
5775722--5775775	22	2.5	22	100	0	108	35	27	12	24	1.92
5776603--5777485	106	8.3	106	93	0	1417	34	25	17	22	1.96
5777424--5777528	43	2.4	43	95	3	185	35	24	20	19	1.96
5777318--5777634	149	2.1	149	94	0	544	34	25	18	21	1.96
5777212--5777740	255	2.1	255	93	0	916	35	24	17	22	1.95
5777109--5777843	361	2.0	360	91	0	1193	35	25	17	22	1.95
5777467--5778019	106	5.3	106	85	5	696	33	24	18	22	1.96
5776894--5778019	573	2.0	566	90	2	1792	34	24	18	22	1.96
5777467--5778019	205	2.6	211	86	4	746	33	24	18	22	1.96
5778754--5778854	37	2.7	37	85	0	121	42	11	14	30	1.82
5779593--5779623	2	15.5	2	100	0	62	48	0	0	51	1.00
5779785--5779813	2	14.5	2	100	0	58	48	0	0	51	1.00
5779901--5779948	18	2.4	21	80	13	57	20	16	0	62	1.33
5785625--5785668	14	3.0	14	84	12	61	18	22	11	47	1.80
5785625--5785668	16	2.9	16	90	6	65	18	22	11	47	1.80
5789481--5789527	23	2.0	23	100	0	94	25	17	25	31	1.97
5789782--5789825	14	3.0	14	81	12	61	15	22	15	45	1.85
5789793--5789825	16	2.1	16	94	0	57	21	24	15	39	1.91
5796586--5796665	39	2.0	40	95	2	144	33	22	8	35	1.85
5802044--5802082	18	2.2	18	85	0	51	17	10	33	38	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5805435--5805474	8	5.3	7	91	8	53	70	0	0	30	0.88
5805436--5805484	23	2.1	23	88	7	73	67	0	0	32	0.91
5805412--5805485	16	4.7	15	75	14	60	63	1	1	33	1.11
5815287--5815414	66	2.0	63	81	4	148	29	3	43	23	1.69
5819985--5821191	199	6.0	200	86	3	1687	38	14	16	31	1.88
5819985--5821191	405	3.0	398	88	3	1753	38	14	16	31	1.88
5823891--5823954	29	2.2	30	83	10	80	73	3	6	17	1.17
5825912--5826090	84	2.1	84	98	0	349	21	18	27	32	1.96
5826123--5826476	36	10.1	36	71	15	210	40	11	19	28	1.86
5826206--5826377	66	2.6	66	83	1	211	40	10	20	28	1.85
5826337--5826477	72	1.9	73	92	1	239	40	11	18	29	1.85
5827868--5828067	95	2.1	95	83	0	247	32	16	15	36	1.90
5834283--5834355	23	3.2	23	94	0	119	34	19	9	36	1.84
5834138--5834513	181	2.1	181	91	0	608	33	15	11	39	1.83
5834454--5834504	23	2.2	23	92	0	84	37	21	3	37	1.72
5838084--5838146	2	31.5	2	100	0	126	50	0	0	49	1.00
5838881--5838918	20	1.9	20	84	10	51	55	2	13	28	1.51
5838926--5838963	19	2.2	17	86	13	51	68	0	7	23	1.16
5838957--5838994	3	12.7	3	94	0	67	68	0	0	31	0.90
5839005--5839051	17	2.6	18	76	6	51	74	0	6	19	1.03
5839106--5839138	3	11.0	3	100	0	66	66	0	0	33	0.92
5840432--5840560	44	2.9	44	70	8	127	26	17	21	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5840452--5840736	133	2.2	132	83	3	367	29	18	20	32	1.96
5840979--5841573	83	7.4	83	81	7	461	25	18	21	33	1.96
5841256--5841573	80	3.9	79	84	2	375	24	16	23	35	1.95
5841643--5842360	124	5.8	125	87	2	825	24	16	25	33	1.96
5842278--5842441	82	2.0	82	93	0	283	26	17	23	32	1.96
5842510--5842640	64	2.0	67	85	7	180	28	12	22	36	1.90
5847079--5847128	22	2.3	22	93	3	84	22	24	26	28	1.99
5847972--5848028	30	1.9	30	92	0	96	38	24	28	8	1.85
5854862--5854922	22	2.9	21	87	4	86	24	22	24	27	2.00
5855953--5855989	18	2.0	20	89	10	60	78	2	10	8	1.06
5857123--5857160	20	1.9	20	84	10	51	55	2	13	28	1.51
5859558--5859594	17	2.1	18	85	14	51	54	8	10	27	1.63
5859726--5859814	27	3.2	28	87	9	121	61	1	14	22	1.39
5860179--5860209	13	2.4	13	94	0	53	54	0	19	25	1.44
5866384--5866420	2	18.5	2	100	0	74	51	0	0	48	1.00
5866772--5866810	20	2.0	20	85	10	53	53	25	5	15	1.62
5867939--5867978	19	2.1	19	90	0	62	22	12	2	62	1.42
5868170--5868236	31	2.2	31	94	0	116	22	29	14	32	1.94
5869023--5869487	234	2.0	234	90	1	727	28	21	19	30	1.98
5870849--5870887	5	7.8	5	82	0	51	84	0	15	0	0.62
5870846--5870888	15	2.9	14	89	6	59	86	0	13	0	0.58
5870848--5870889	10	4.0	10	87	9	57	83	0	16	0	0.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5874680--5874714	17	1.9	17	88	11	52	68	0	2	28	1.04
5875712--5875759	3	16.3	3	93	4	80	33	0	2	64	1.05
5882713--5882767	23	2.5	22	80	16	69	27	18	18	36	1.94
5882693--5882767	21	3.5	22	76	20	70	24	21	17	37	1.94
5886740--5886804	31	2.1	30	91	2	103	30	20	15	33	1.93
5886740--5886817	31	2.5	31	85	6	88	28	19	19	33	1.96
5887782--5887915	30	4.5	30	82	3	155	18	12	9	58	1.61
5887782--5887918	60	2.3	59	85	6	179	18	12	9	59	1.60
5889471--5889578	52	2.1	52	81	10	123	50	1	3	44	1.30
5894454--5894483	15	2.0	15	93	0	51	53	0	3	43	1.17
5905782--5905838	26	2.2	26	100	0	114	42	12	8	36	1.74
5919528--5919572	19	2.4	19	92	0	72	8	24	4	62	1.43
5927827--5927927	10	9.1	10	68	19	58	60	20	8	9	1.55
5927850--5927880	14	2.2	14	94	0	53	58	25	12	3	1.50
5927839--5927935	23	4.2	23	81	4	106	60	22	8	8	1.52
5927901--5927948	19	2.6	18	78	12	53	68	27	2	2	1.11
5928871--5928911	3	13.7	3	84	0	55	36	26	36	0	1.57
5928857--5928911	12	4.8	12	73	13	53	38	21	36	3	1.71
5929030--5929095	26	2.5	27	80	9	73	18	3	12	66	1.36
5929073--5929106	14	2.4	14	90	0	50	17	2	8	70	1.25
5944829--5944883	25	2.2	25	100	0	110	25	12	20	41	1.87
5944822--5944896	25	2.6	29	76	24	86	24	14	17	44	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5944903--5945017	10	10.1	10	66	23	50	57	18	11	13	1.65
5944906--5944970	14	4.2	14	75	21	67	55	23	13	7	1.64
5944908--5944975	34	2.0	34	94	0	118	52	22	13	11	1.72
5944903--5945017	23	4.9	23	80	9	108	57	18	11	13	1.65
5947001--5947067	20	3.3	20	79	4	89	40	17	22	19	1.92
5946998--5947088	41	2.2	41	96	0	164	40	16	23	19	1.91
5947001--5947090	20	4.4	20	77	4	81	38	17	24	18	1.92
5948481--5948525	18	2.5	18	85	0	63	26	42	15	15	1.87
5948998--5949043	20	2.3	20	84	0	56	34	26	21	17	1.95
5949053--5949142	14	5.9	14	73	19	81	47	25	18	7	1.75
5949037--5949147	32	3.4	32	94	1	195	46	24	19	9	1.78
5949154--5949293	19	7.6	19	79	10	130	13	20	23	42	1.88
5949220--5949274	20	2.8	19	89	5	83	16	25	23	34	1.95
5949154--5949293	39	3.8	37	72	14	128	13	20	23	42	1.88
5951144--5951179	14	2.6	14	90	0	54	30	0	22	47	1.52
5951286--5951362	14	4.7	15	74	22	59	45	19	22	12	1.84
5951296--5951362	18	3.8	19	81	18	92	46	17	22	13	1.83
5951778--5951813	14	2.6	14	90	0	54	30	0	22	47	1.52
5951932--5951970	18	2.2	18	100	0	78	48	15	20	15	1.81
5953091--5953149	24	2.5	24	82	0	73	28	16	18	35	1.93
5953324--5953360	12	3.1	12	96	0	65	70	0	27	2	1.01
5955653--5955750	19	5.7	19	69	22	90	43	19	24	12	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5955653--5955746	33	2.8	33	98	0	179	43	19	24	12	1.85
5955746--5955788	20	2.2	20	87	4	61	16	18	23	41	1.89
5955774--5955807	14	2.4	14	85	0	50	8	23	20	47	1.78
5955928--5955964	14	2.6	14	91	0	65	45	24	0	29	1.53
5957154--5957221	22	3.0	22	93	2	118	26	26	26	20	1.99
5957515--5957586	29	2.5	29	93	0	117	38	12	9	38	1.76
5957888--5957925	20	1.9	20	88	0	58	10	31	34	23	1.89
5957889--5958061	67	2.6	67	84	5	206	17	27	27	27	1.98
5964098--5964165	22	3.0	22	89	2	109	27	26	25	20	1.99
5964459--5964530	29	2.5	29	93	0	117	38	12	9	38	1.76

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