genome.fa.s8428.2.7.7.80.10.50.1000.24.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: VEPZ01008428.1 Hibiscus syriacus cultivar Beakdansim tig00111213_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6915314

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   

This is table  24  of  30  ( 3508 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)
5466512--5466998	267	1.8	269	89	3	775	31	17	22	28	1.97
5468097--5468149	17	3.3	16	85	12	65	7	11	1	79	1.01
5476410--5476477	32	2.1	33	97	2	129	30	27	14	26	1.95
5480709--5480807	32	3.1	32	80	1	110	50	25	8	16	1.72
5480708--5480823	16	7.3	16	71	1	72	50	26	7	14	1.70
5482090--5482184	32	2.9	31	78	4	91	40	27	12	20	1.88
5484466--5484518	22	2.4	22	74	0	52	35	13	20	30	1.91
5484559--5484597	2	19.5	2	94	0	69	51	46	0	2	1.14
5487810--5487847	3	12.7	3	83	10	51	63	2	0	34	1.09
5488083--5488467	48	8.3	48	79	9	406	32	18	21	27	1.97
5488126--5488469	89	3.8	89	88	5	519	31	18	22	27	1.97
5488109--5488467	185	1.9	184	91	1	585	31	18	21	28	1.97
5489604--5489664	26	2.3	27	81	13	74	6	14	1	77	1.05
5502828--5502868	3	13.7	3	85	10	57	63	2	0	34	1.08
5504517--5504636	21	5.8	21	75	7	95	33	22	14	30	1.93
5504542--5504636	42	2.3	41	81	5	111	33	24	12	29	1.92
5507584--5507653	24	2.9	24	93	0	122	34	10	11	44	1.74
5508381--5508420	18	2.2	18	95	0	71	12	17	30	40	1.86
5508673--5508703	5	6.2	5	100	0	62	38	0	19	41	1.51
5509192--5509534	170	2.0	170	100	0	686	33	17	13	35	1.89
5517711--5517785	29	2.6	29	74	16	73	40	20	1	38	1.61
5525045--5525207	6	27.2	6	97	0	209	17	7	32	42	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5526941--5526983	16	2.6	17	77	3	52	58	0	0	41	0.98
5529664--5529710	13	3.5	13	77	13	51	55	2	2	40	1.24
5530948--5530977	14	2.1	15	93	6	53	40	0	0	60	0.97
5530976--5531038	3	20.7	3	90	3	99	61	0	1	36	1.05
5531354--5532596	229	5.4	229	95	2	2162	29	19	13	37	1.90
5531354--5532591	116	10.9	114	86	6	1683	29	19	13	37	1.90
5533366--5533884	83	6.2	83	97	1	968	35	21	14	28	1.93
5543925--5543971	13	3.5	13	77	13	51	55	2	2	40	1.24
5545336--5545365	14	2.1	15	93	6	53	40	0	0	60	0.97
5545364--5545443	3	26.7	3	89	0	124	61	0	3	35	1.14
5547153--5547500	138	2.5	139	78	7	386	41	14	14	28	1.86
5559961--5559999	20	2.0	20	94	0	69	33	7	2	56	1.41
5562538--5562677	69	2.0	70	98	1	273	31	10	8	49	1.68
5563481--5563547	26	2.6	26	95	0	116	25	26	28	19	1.99
5569329--5569557	105	2.2	105	86	0	314	38	10	13	36	1.81
5570401--5570434	13	2.6	13	85	0	50	82	0	5	11	0.83
5573476--5573509	17	2.1	16	88	5	50	76	0	8	14	1.01
5574638--5575026	192	2.0	193	96	3	721	41	22	11	24	1.86
5577290--5577332	19	2.2	20	80	12	54	65	0	13	20	1.27
5577277--5577337	25	2.5	26	82	12	67	63	0	18	18	1.30
5583228--5583262	18	2.0	17	88	5	52	77	0	8	14	0.99
5591569--5591593	9	2.8	9	100	0	50	20	44	0	36	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5607448--5607485	15	2.4	16	82	4	51	44	0	0	55	0.99
5609671--5609700	12	2.5	12	94	0	51	26	50	16	6	1.70
5609721--5609752	2	16.0	2	100	0	64	50	0	50	0	1.00
5626061--5626098	10	3.8	10	96	0	67	55	21	23	0	1.44
5629590--5629630	14	2.9	14	92	3	64	73	0	0	26	0.84
5632816--5633234	53	7.9	53	87	1	606	21	28	19	31	1.97
5633622--5634007	42	9.1	42	71	16	249	31	22	17	29	1.96
5633612--5633964	135	2.8	122	83	10	447	32	21	16	29	1.95
5633733--5634155	177	2.4	177	87	1	598	31	21	17	29	1.96
5634060--5634146	42	2.1	42	88	0	129	32	22	17	27	1.96
5634298--5634377	42	1.9	42	84	5	108	30	22	21	26	1.99
5638657--5638960	151	2.0	151	100	0	608	30	22	13	33	1.92
5645782--5645838	29	1.9	30	82	10	73	33	21	3	42	1.70
5646280--5646742	234	2.0	238	98	1	898	32	13	14	39	1.85
5646913--5647637	371	2.0	371	92	0	1225	31	11	19	37	1.87
5649417--5649455	19	2.1	19	95	0	69	33	10	46	10	1.72
5653088--5653131	22	2.0	23	86	4	63	45	0	0	54	0.99
5653080--5653160	31	2.6	32	79	16	89	46	1	0	51	1.08
5653251--5653295	23	2.0	23	90	0	72	53	2	0	44	1.13
5653570--5653608	20	2.0	20	84	0	51	33	17	7	41	1.79
5653582--5653654	30	2.5	30	95	2	130	30	20	6	42	1.78
5653582--5653654	15	4.9	15	81	3	94	30	20	6	42	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5655464--5655523	23	2.6	23	91	0	93	21	28	23	26	1.99
5660305--5660364	22	2.7	23	92	5	104	16	25	28	30	1.97
5675296--5675343	6	7.8	6	93	4	78	45	18	2	33	1.61
5675296--5675361	6	10.8	6	90	3	60	42	16	6	34	1.73
5684883--5684912	6	4.8	6	95	4	51	0	53	30	16	1.44
5687946--5688013	27	2.6	27	95	4	122	30	11	16	41	1.84
5689648--5690383	368	2.0	368	98	0	1418	32	24	13	29	1.94
5697940--5699352	761	1.8	752	84	9	1673	41	11	10	36	1.75
5699550--5699619	31	2.3	31	82	9	81	28	20	11	40	1.87
5699564--5699627	31	2.1	31	88	5	94	25	25	12	37	1.91
5701586--5701680	31	3.1	31	90	3	147	40	12	23	24	1.89
5702206--5702351	29	5.0	29	94	0	265	14	36	10	39	1.80
5703691--5703760	28	2.4	29	83	9	90	35	18	14	31	1.91
5704308--5704343	18	2.0	18	100	0	72	44	11	5	38	1.63
5723417--5723470	22	2.5	22	87	0	81	24	24	12	38	1.90
5723997--5724030	13	2.6	14	86	13	54	67	0	32	0	0.91
5729357--5729388	11	2.8	11	95	4	55	56	15	9	18	1.66
5734887--5734931	19	2.4	18	85	7	54	48	0	2	48	1.13
5735686--5735712	2	13.5	2	100	0	54	51	0	0	48	1.00
5738631--5738660	14	2.1	14	93	0	51	26	0	3	70	1.03
5738635--5738681	20	2.4	19	79	10	58	31	2	4	61	1.27
5741171--5741309	36	3.9	36	98	0	260	26	15	15	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5748787--5748889	36	2.9	36	91	0	161	23	16	16	43	1.87
5749495--5749527	14	2.4	14	90	10	50	21	3	12	63	1.41
5750233--5750265	2	16.5	2	100	0	66	51	0	0	48	1.00
5750634--5750748	60	1.9	59	85	5	160	33	24	4	37	1.75
5751134--5751167	16	2.1	16	88	0	50	44	11	5	38	1.65
5751212--5751277	27	2.4	27	100	0	132	30	19	13	36	1.91
5751266--5751342	23	3.3	23	96	0	145	27	19	12	40	1.88
5751664--5751740	30	2.6	29	84	11	104	45	6	5	42	1.52
5761864--5761957	41	2.3	41	98	0	179	22	13	40	23	1.90
5763582--5763654	8	8.9	8	86	5	101	58	9	2	28	1.43
5765292--5765361	22	3.3	21	78	7	79	50	10	2	37	1.51
5765328--5765707	35	10.9	35	83	7	368	42	10	4	42	1.58
5767030--5767101	30	2.4	30	88	2	101	30	29	19	20	1.97
5767030--5767128	30	3.3	30	81	2	83	32	28	19	20	1.97
5767087--5767181	31	3.1	31	80	3	93	34	21	17	26	1.95
5768075--5768261	31	6.0	31	94	1	313	37	21	19	21	1.95
5769068--5769112	21	2.1	21	87	0	63	15	24	28	31	1.96
5770284--5770448	64	2.6	64	83	7	201	26	19	19	35	1.95
5773835--5773961	31	4.2	30	78	6	78	31	25	18	23	1.98
5773889--5773983	31	3.1	31	80	3	111	33	21	18	26	1.96
5774618--5774782	64	2.6	64	83	7	201	26	19	19	35	1.95
5776575--5776670	31	3.1	31	81	3	104	38	13	10	37	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5779096--5779220	38	3.3	38	90	2	198	12	12	39	36	1.79
5779788--5779850	17	3.6	17	82	4	81	30	26	7	34	1.85
5780274--5780299	2	13.0	2	100	0	52	50	0	0	50	1.00
5783219--5783393	35	4.9	35	90	0	206	33	18	21	26	1.96
5791019--5791049	2	15.5	2	100	0	62	51	0	0	48	1.00
5794802--5794837	14	2.6	14	100	0	72	25	22	27	25	2.00
5804222--5804248	2	13.5	2	100	0	54	51	0	0	48	1.00
5804361--5804403	20	2.1	21	91	8	72	18	13	9	58	1.62
5809838--5809912	25	2.8	26	80	8	71	46	9	4	40	1.55
5809772--5809973	110	1.8	111	86	3	291	43	15	5	36	1.70

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