genome.fa.s7926.2.7.7.80.10.50.1000.28.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: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10075380

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   

This is table  28  of  42  ( 5024 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)
5804085--5804417	183	1.8	183	83	1	436	39	22	19	19	1.93
5812149--5812250	30	3.4	30	88	0	159	28	16	21	33	1.95
5815240--5815267	12	2.3	12	100	0	56	42	0	0	57	0.99
5820998--5821066	31	2.3	30	85	7	95	28	10	11	49	1.72
5828052--5828128	25	3.2	25	60	14	61	37	6	12	42	1.69
5828025--5828131	48	2.2	48	98	0	205	37	7	12	42	1.70
5829122--5829162	18	2.3	18	91	4	66	29	4	2	63	1.28
5835419--5835458	20	2.0	20	90	0	62	42	32	12	12	1.80
5836288--5836332	23	1.9	24	86	4	65	24	0	2	73	0.95
5837202--5837235	15	2.2	16	89	5	52	32	0	0	67	0.91
5837201--5837237	16	2.3	17	81	13	51	32	0	0	67	0.91
5837456--5837503	21	2.3	21	96	0	87	31	33	18	16	1.94
5837848--5837961	21	5.4	21	71	15	101	38	21	18	21	1.93
5837841--5837982	42	3.4	41	93	3	239	35	22	19	22	1.95
5837869--5838007	21	6.6	21	73	12	133	34	23	20	21	1.97
5837841--5838007	42	4.0	42	89	3	189	35	22	19	22	1.96
5837841--5838007	84	2.0	83	87	4	237	35	22	19	22	1.96
5837974--5838040	33	2.0	33	91	0	107	31	28	22	17	1.97
5838007--5838051	21	2.1	21	95	0	81	28	31	20	20	1.97
5837952--5838062	54	2.1	54	94	0	195	31	27	20	20	1.98
5841384--5841503	60	2.0	60	100	0	240	38	10	26	25	1.87
5846259--5846295	19	1.9	19	100	0	74	32	16	27	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5847650--5847714	23	2.8	23	92	0	103	26	21	27	24	1.99
5847732--5847943	103	2.1	103	95	0	379	36	24	13	26	1.92
5852850--5852941	23	4.0	23	89	0	139	27	26	27	19	1.99
5852960--5853169	103	2.0	103	93	1	359	36	23	12	27	1.91
5856331--5856420	23	3.9	23	82	0	108	18	25	24	31	1.98
5856325--5856412	46	1.9	46	95	0	158	20	25	23	30	1.98
5859866--5859902	19	1.9	19	100	0	74	32	16	27	24	1.96
5861451--5861534	23	3.7	23	81	0	105	17	23	25	33	1.97
5863523--5863555	16	2.0	17	88	5	50	36	24	0	39	1.56
5863570--5863616	16	2.9	16	78	6	51	40	23	4	31	1.74
5866222--5866268	22	2.1	22	100	0	94	25	27	8	38	1.85
5870730--5870758	2	14.5	2	100	0	58	48	0	0	51	1.00
5873909--5873942	17	2.0	17	94	0	59	38	11	11	38	1.79
5874357--5874411	13	4.2	13	75	13	58	49	12	3	34	1.59
5874397--5874495	33	3.0	33	94	1	164	45	15	7	32	1.73
5874490--5874529	21	1.9	21	94	0	71	47	7	15	30	1.72
5876819--5876864	12	3.6	12	81	16	56	17	19	17	45	1.85
5876818--5876857	15	2.9	14	85	14	57	20	17	15	47	1.83
5878639--5878681	21	2.0	21	100	0	86	37	18	13	30	1.90
5882985--5883032	24	2.0	24	83	0	60	68	4	14	12	1.34
5884016--5884053	11	3.5	11	85	0	58	28	26	15	28	1.96
5886216--5886249	14	2.4	14	85	0	50	20	0	32	47	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5886410--5886457	25	1.9	25	82	0	60	41	0	6	52	1.27
5895864--5895897	2	17.0	2	100	0	68	50	0	0	50	1.00
5896239--5896282	3	14.3	3	90	4	70	31	0	2	65	1.05
5896342--5896405	28	2.4	28	80	12	71	67	1	1	29	1.09
5896341--5896405	29	2.3	30	81	7	73	67	1	1	29	1.09
5899548--5899587	21	1.9	21	84	0	53	40	12	0	47	1.41
5899885--5899910	2	13.0	2	100	0	52	50	0	0	50	1.00
5900020--5900059	18	2.3	18	86	4	55	45	0	5	50	1.23
5903463--5903534	36	2.0	36	97	0	135	20	20	5	52	1.66
5903751--5903898	21	7.0	22	70	14	114	22	21	22	33	1.97
5903766--5903891	23	5.8	23	69	14	106	21	21	22	34	1.96
5903757--5903898	42	3.3	42	86	5	196	22	21	22	33	1.97
5908191--5908225	18	1.9	18	94	0	61	48	0	2	48	1.16
5910963--5910996	3	11.3	3	100	0	68	32	0	0	67	0.91
5912283--5912417	67	2.0	67	100	0	270	43	25	13	17	1.85
5913625--5913697	18	3.9	18	78	7	74	30	28	19	21	1.98
5914432--5914501	19	3.7	19	83	9	99	21	31	17	30	1.96
5914645--5914691	20	2.3	20	100	0	94	40	34	0	25	1.56
5918093--5918118	3	8.7	3	100	0	52	34	0	30	34	1.58
5922467--5922538	37	1.9	37	91	0	117	34	13	5	45	1.67
5944288--5944321	16	2.1	16	94	0	59	32	26	8	32	1.87
5947785--5947821	2	19.0	2	94	5	67	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5947959--5948034	30	2.5	31	80	4	82	42	14	9	34	1.78
5948234--5948282	17	2.9	17	78	6	55	67	2	6	24	1.24
5953059--5953118	29	2.1	29	100	0	120	35	16	10	38	1.82
5954246--5954286	18	2.5	17	81	14	50	39	0	0	60	0.96
5955623--5955694	30	2.7	25	71	20	65	43	4	0	52	1.20
5955711--5955774	25	2.5	26	82	10	78	53	0	4	42	1.22
5955725--5955795	25	2.9	26	80	16	80	54	0	4	40	1.20
5956079--5956117	10	3.9	10	93	0	69	30	0	2	66	1.05
5956079--5956119	20	2.0	20	100	0	82	29	0	4	65	1.13
5962920--5962967	25	1.9	25	82	0	60	41	10	12	35	1.77
5963381--5963405	12	2.1	12	100	0	50	32	28	16	24	1.96
5964819--5964859	2	20.5	2	100	0	82	51	0	0	48	1.00
5983885--5983972	31	2.8	31	85	0	131	26	21	12	39	1.89
5984382--5984426	21	2.1	21	87	0	63	28	20	4	46	1.69
5984978--5985035	21	2.8	21	75	14	57	20	22	22	34	1.97
5985632--5985664	6	5.7	6	89	3	50	3	18	48	30	1.63
5987286--5987352	31	2.2	31	94	0	125	20	28	14	35	1.93
6001803--6001856	2	27.0	2	100	0	108	50	0	0	50	1.00
6006053--6006253	96	2.1	96	88	1	296	41	8	16	32	1.80
6008263--6008924	331	2.0	331	99	0	1315	36	18	11	32	1.87
6026703--6026891	61	3.2	60	78	5	188	60	14	5	19	1.54
6030063--6030110	25	2.0	25	88	8	73	18	6	4	70	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6030063--6030111	13	3.9	13	75	20	50	20	6	4	69	1.27
6037352--6037411	29	2.1	29	84	6	77	40	10	1	48	1.47
6039934--6039989	29	1.9	29	82	7	69	41	7	10	41	1.67
6044336--6044374	20	2.0	20	89	0	60	46	7	0	46	1.31
6045727--6045756	15	2.1	14	93	6	51	70	0	0	30	0.88
6057465--6057514	13	3.6	14	71	15	50	36	2	2	60	1.20
6057463--6057527	30	2.3	27	76	10	67	43	1	1	53	1.19
6057559--6057853	41	7.5	39	64	23	102	46	2	1	49	1.24
6057692--6057828	42	3.4	41	77	10	120	40	1	2	55	1.21
6057930--6057972	24	1.9	22	81	13	52	46	4	2	46	1.36
6066548--6066655	33	3.3	33	92	1	173	45	15	6	32	1.72
6066642--6066683	21	2.0	21	100	0	84	47	4	14	33	1.65
6070937--6071003	32	2.1	32	86	10	93	47	32	8	10	1.69
6071219--6071244	9	2.9	9	100	0	52	69	19	0	11	1.18
6076045--6076265	21	10.6	21	70	13	161	21	18	23	36	1.95
6076070--6076293	42	5.4	42	91	1	353	22	18	22	36	1.95
6077015--6077051	5	7.6	5	96	3	67	0	40	21	37	1.54
6077182--6077303	21	5.9	20	71	16	88	36	20	20	22	1.96
6077162--6077311	42	3.7	41	91	3	223	38	20	18	22	1.93
6086033--6086128	22	4.5	21	70	16	54	63	3	2	31	1.21
6086067--6086108	18	2.1	21	87	12	63	73	4	2	19	1.12
6087845--6088114	110	2.5	107	83	4	348	24	18	22	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6089242--6089297	15	3.7	15	86	6	78	1	16	1	80	0.88
6089242--6089297	7	7.6	7	80	11	67	1	16	1	80	0.88
6089242--6089299	8	7.6	8	71	9	50	1	17	1	79	0.90
6099950--6100025	22	3.6	21	72	12	66	63	3	2	30	1.26
6100013--6100043	2	15.5	2	100	0	62	51	0	0	48	1.00
6103287--6103351	25	2.6	25	79	13	71	43	3	1	52	1.26
6103763--6103865	31	3.3	30	83	5	125	34	13	13	37	1.84
6111906--6111948	16	2.6	17	77	3	52	55	0	2	41	1.12
6127266--6127371	20	5.2	20	77	6	88	31	23	18	26	1.98
6127929--6127970	19	2.2	19	91	0	66	50	26	19	4	1.67

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