genome.fa.s9175.2.7.7.80.10.50.1000.26.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: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10629029

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   

This is table  26  of  51  ( 6037 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)
5186774--5186821	15	3.3	15	82	11	55	77	0	14	8	0.99
5186582--5186837	8	33.9	7	72	14	104	73	0	16	10	1.08
5186711--5186842	31	4.3	29	86	12	158	76	0	12	10	1.02
5186840--5186924	45	1.9	44	82	2	107	38	15	29	16	1.89
5188124--5188223	37	2.8	36	85	1	119	40	19	20	21	1.92
5188243--5188579	55	6.1	55	86	5	439	25	16	25	32	1.96
5188243--5188608	166	2.2	165	84	6	456	26	16	25	31	1.97
5190109--5190177	28	2.4	29	81	11	72	24	7	7	60	1.48
5193363--5193419	30	2.0	30	86	6	82	40	10	24	24	1.87
5193470--5193509	20	2.0	20	85	4	55	57	10	2	30	1.45
5204952--5205007	22	2.6	22	84	13	73	48	19	12	19	1.80
5212469--5212526	30	1.9	30	89	6	91	36	15	6	41	1.74
5212740--5212795	20	2.7	21	83	5	78	44	23	16	16	1.86
5212731--5212792	20	3.2	20	80	8	74	45	20	16	17	1.86
5212826--5212876	20	2.5	20	87	0	66	37	25	15	21	1.93
5214047--5214095	20	2.5	20	83	3	64	32	18	22	26	1.97
5217636--5217687	21	2.5	21	84	6	61	32	25	13	28	1.93
5218619--5218658	20	2.0	21	85	5	55	35	12	22	30	1.91
5225470--5225543	33	2.2	33	95	0	130	24	17	36	21	1.95
5227304--5227371	17	4.1	16	81	9	66	60	2	0	36	1.12
5227384--5227429	24	1.9	24	100	0	92	47	0	21	30	1.51
5227702--5227744	19	2.3	19	100	0	86	16	32	30	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5241342--5241541	96	2.1	96	86	3	278	26	13	18	42	1.86
5244018--5244053	18	2.1	18	89	5	56	52	16	5	25	1.65
5252096--5252155	23	2.9	21	85	9	79	21	31	26	20	1.98
5252138--5252177	21	1.9	21	94	0	71	25	37	25	12	1.91
5254503--5254546	13	3.7	13	77	22	60	45	13	4	36	1.64
5254502--5254546	22	2.0	22	100	0	90	46	13	4	35	1.63
5260423--5261111	357	1.9	359	90	1	1107	35	13	11	39	1.80
5261812--5261838	13	2.1	13	100	0	54	22	25	14	37	1.93
5265446--5265490	23	2.0	23	86	4	65	37	2	6	53	1.40
5265446--5265499	23	2.5	23	82	8	60	42	1	5	50	1.36
5266907--5266977	32	2.2	32	80	2	81	30	43	12	12	1.80
5267999--5268034	2	18.5	2	94	5	65	50	0	0	50	1.00
5271530--5271701	77	2.3	77	93	2	294	33	20	12	32	1.91
5275164--5275217	20	2.7	20	97	0	99	35	18	18	27	1.94
5278508--5278588	36	2.2	37	82	6	103	35	17	17	29	1.93
5282785--5282824	3	13.3	3	100	0	80	67	0	0	32	0.91
5282840--5282864	13	1.9	13	100	0	50	64	0	4	32	1.12
5284491--5284552	24	2.6	24	86	0	88	12	11	22	53	1.71
5286060--5286126	16	4.3	16	84	3	84	10	7	19	62	1.50
5295155--5295202	20	2.5	20	86	3	62	33	14	2	50	1.55
5297087--5297152	23	3.0	21	70	12	51	31	24	13	30	1.94
5297095--5297185	23	4.0	23	75	4	94	29	24	16	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5297096--5297187	46	2.0	46	85	4	123	31	23	16	28	1.96
5303225--5303278	21	2.6	21	93	0	99	22	18	22	37	1.95
5303800--5303843	23	1.9	23	85	0	61	18	27	25	29	1.98
5304825--5306043	612	2.0	612	91	0	1956	30	14	24	30	1.95
5311447--5311498	23	2.3	23	93	0	86	19	28	19	32	1.96
5314985--5315051	14	4.7	14	68	23	50	17	4	4	73	1.18
5314984--5315020	13	2.7	14	84	15	51	13	5	2	78	1.03
5316447--5316475	14	2.1	14	100	0	58	41	6	0	51	1.28
5316835--5316882	25	1.9	25	91	0	78	39	18	2	39	1.63
5329900--5329935	18	2.0	18	88	0	54	38	0	0	61	0.96
5329864--5329942	32	2.6	31	82	11	92	43	2	0	54	1.14
5329924--5329992	25	2.9	24	85	6	95	55	2	1	40	1.24
5329964--5330076	30	3.7	30	79	13	99	59	1	2	36	1.22
5329929--5330076	27	5.4	27	74	11	79	56	2	2	39	1.22
5329948--5330073	30	4.3	29	72	16	98	57	1	2	38	1.21
5329988--5330101	30	4.0	29	76	17	96	58	1	4	35	1.28
5331130--5331170	20	2.0	20	85	0	55	39	7	0	53	1.29
5331378--5331467	32	2.8	31	78	9	101	12	13	24	50	1.76
5332540--5333562	182	5.6	182	87	3	1452	44	13	15	26	1.84
5332559--5333562	363	2.8	364	90	1	1543	44	13	15	27	1.83
5333949--5333993	19	2.4	19	92	3	74	42	0	20	37	1.52
5334238--5334276	18	2.2	19	86	9	55	46	5	7	41	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5335237--5335292	24	2.5	22	77	13	60	41	1	7	50	1.40
5335962--5336000	18	2.2	18	95	0	69	53	0	41	5	1.23
5337468--5337516	19	2.6	19	90	3	73	30	2	10	57	1.43
5337860--5339552	199	8.5	199	91	1	2711	41	14	15	28	1.86
5337860--5339552	596	2.8	595	91	2	2792	41	14	15	28	1.86
5337860--5339545	397	4.2	398	91	3	2725	41	14	15	28	1.86
5341309--5341344	17	2.1	17	100	0	72	19	13	16	50	1.79
5342500--5343545	199	5.3	199	87	5	1489	43	15	14	27	1.85
5346427--5346761	162	2.1	162	93	0	571	43	11	15	29	1.82
5347140--5347178	20	2.0	20	89	0	60	41	7	15	35	1.76
5347145--5347184	20	2.0	20	85	0	53	47	7	15	30	1.72
5347407--5347454	23	2.1	23	92	0	78	37	14	8	39	1.76
5349654--5349761	36	3.0	36	88	0	162	39	21	23	15	1.91
5357898--5357986	2	48.0	2	68	14	57	49	0	0	50	1.00
5357897--5357986	41	2.2	41	94	2	155	48	0	0	51	1.00
5359468--5359528	28	2.2	28	85	5	79	62	11	4	21	1.47
5359868--5359915	21	2.2	21	78	10	53	43	4	4	47	1.41
5361034--5361136	50	2.1	50	100	0	206	35	14	3	45	1.63
5362536--5362660	51	2.5	51	84	2	153	16	32	29	20	1.95
5362818--5362897	29	2.7	30	90	5	126	38	35	3	22	1.72
5366782--5366823	9	4.7	9	81	0	57	21	35	11	30	1.90
5366796--5366830	15	2.3	15	95	0	61	20	34	14	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5366930--5366961	9	3.6	9	95	0	55	53	9	28	9	1.64
5373341--5373421	24	3.6	22	74	14	76	28	23	24	23	2.00
5380306--5380399	46	2.0	46	100	0	188	31	6	24	37	1.81
5382244--5382279	18	2.1	17	89	5	54	52	0	44	2	1.15
5384337--5384585	43	5.9	42	76	9	202	35	17	19	27	1.94
5384343--5384561	83	2.6	84	81	8	248	36	17	19	26	1.94
5384334--5384578	83	2.9	82	77	11	237	37	17	19	26	1.93
5388551--5388616	23	2.9	23	88	0	96	63	15	6	15	1.49
5388547--5388611	33	2.0	33	81	6	78	63	13	7	15	1.51
5388890--5388989	24	4.2	24	76	10	87	59	12	9	20	1.59
5392104--5392129	11	2.4	11	100	0	52	15	0	7	76	0.99
5394902--5394937	16	2.2	16	90	9	56	22	0	8	69	1.15
5396648--5396686	21	1.9	21	89	5	62	61	0	30	7	1.24
5401090--5401175	41	2.1	42	82	2	102	29	8	10	52	1.64
5401768--5401822	27	2.1	25	83	12	67	38	1	1	58	1.20
5403562--5403644	2	41.5	2	100	0	166	49	0	0	50	1.00
5405866--5405908	19	2.2	20	95	4	79	30	6	30	32	1.84
5406060--5406098	20	2.0	20	94	0	69	38	10	15	35	1.81
5406246--5406282	2	18.5	2	100	0	74	48	0	0	51	1.00
5406617--5406661	20	2.2	20	100	0	90	11	24	22	42	1.86
5406585--5406702	61	1.9	61	96	0	218	20	22	20	36	1.95
5406637--5406746	41	2.7	41	91	0	184	23	20	20	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5406735--5406809	22	3.5	22	73	10	84	18	17	25	38	1.92
5406735--5406799	19	3.2	20	72	10	62	18	18	24	38	1.93
5407518--5407592	22	3.4	22	84	0	105	38	28	14	18	1.90
5407584--5407798	20	10.6	20	69	3	115	40	20	18	19	1.91
5407604--5407810	41	5.1	41	82	1	254	39	21	16	22	1.92
5407812--5407844	12	2.8	12	95	0	57	42	18	21	18	1.89
5408879--5408928	18	2.8	18	100	0	100	24	0	32	44	1.54
5413124--5413179	14	3.3	19	63	31	54	51	3	7	37	1.47
5413185--5413276	44	2.1	43	84	9	125	38	7	3	51	1.47
5413256--5413280	6	4.2	6	100	0	50	48	0	0	52	1.00

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