genome.fa.s9643.2.7.7.80.10.50.1000.27.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: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8859806

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   

This is table  27  of  41  ( 4862 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)
5659839--5660537	60	11.9	60	91	4	1120	45	12	0	41	1.44
5659954--5660106	25	6.3	24	63	25	65	45	14	0	39	1.45
5660143--5660176	15	2.4	14	85	5	50	52	8	0	38	1.33
5659557--5660639	301	3.7	299	87	7	1459	45	12	0	41	1.43
5660282--5660616	82	4.0	82	76	9	363	45	11	0	42	1.42
5660369--5660395	10	2.7	10	100	0	54	40	18	0	40	1.51
5660319--5660537	108	2.0	110	92	3	372	45	11	0	42	1.44
5660510--5660559	22	2.3	22	96	0	91	48	4	0	48	1.20
5663408--5663433	5	5.2	5	100	0	52	61	0	0	38	0.96
5664767--5664826	21	2.9	21	94	0	102	30	25	26	18	1.98
5664967--5665055	29	3.0	29	91	1	151	17	34	28	19	1.95
5665181--5665247	29	2.3	29	84	0	80	7	31	32	28	1.85
5671205--5671653	229	2.0	227	94	2	785	45	7	7	39	1.61
5671719--5671764	20	2.3	19	89	10	74	54	10	17	17	1.70
5671885--5671931	20	2.4	19	79	10	58	55	8	17	19	1.67
5674235--5674300	33	2.0	33	87	0	96	28	1	45	24	1.62
5675653--5675696	19	2.4	19	92	3	72	31	2	9	56	1.43
5675847--5677173	198	6.7	198	97	0	2473	37	15	15	32	1.88
5678630--5678697	21	3.4	18	69	21	55	36	8	35	19	1.83
5678630--5678727	6	16.3	6	80	0	70	36	7	34	21	1.81
5678645--5678731	3	29.0	3	77	0	84	35	5	34	24	1.79
5678633--5678723	42	2.2	42	91	0	146	35	7	35	21	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5678630--5678727	18	5.4	18	78	0	88	36	7	34	21	1.81
5680202--5681057	184	4.7	184	98	0	1642	35	14	16	34	1.89
5681863--5681926	23	2.8	23	87	0	92	35	6	20	37	1.78
5681863--5681935	23	3.2	23	82	7	85	34	5	20	39	1.76
5682294--5682357	23	2.8	23	87	0	92	35	6	20	37	1.78
5682294--5682366	23	3.2	23	82	7	85	34	5	20	39	1.76
5681788--5682787	431	2.3	431	99	0	1964	40	8	13	38	1.74
5682725--5682789	23	2.8	23	90	0	94	35	7	18	38	1.80
5682993--5683029	18	2.1	18	89	0	56	32	5	10	51	1.60
5682985--5683031	24	2.0	24	86	0	67	34	4	14	46	1.64
5690322--5690377	17	3.3	17	94	0	103	14	23	44	17	1.85
5697592--5697641	22	2.3	22	100	0	100	8	22	50	20	1.74
5697583--5697620	17	2.2	17	95	0	67	13	23	44	18	1.85
5697639--5697680	19	2.3	19	91	4	68	26	21	28	23	1.99
5697682--5697728	20	2.4	20	92	3	78	31	23	25	19	1.98
5697664--5697727	29	2.2	29	86	10	87	29	25	26	18	1.98
5697639--5697728	9	9.4	9	71	9	63	28	22	27	21	1.99
5715039--5715114	6	12.7	6	98	0	134	19	17	30	32	1.95
5717566--5717599	15	2.3	15	94	0	59	35	20	35	8	1.84
5720343--5720468	50	2.5	50	82	0	153	15	33	29	21	1.95
5720771--5720973	111	1.8	111	97	0	388	37	7	10	44	1.67
5722479--5722518	18	2.2	18	95	0	71	27	32	20	20	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5729772--5729809	19	2.0	19	100	0	76	21	10	15	52	1.72
5731855--5732102	43	5.8	43	71	8	157	37	16	16	29	1.91
5731927--5732084	42	3.7	42	70	12	124	37	13	15	32	1.88
5731896--5732102	87	2.4	86	84	6	262	37	15	16	30	1.90
5744753--5744803	22	2.3	22	100	0	102	29	0	15	54	1.41
5746283--5746324	22	1.9	22	95	0	75	21	30	16	30	1.95
5753083--5753287	51	4.0	51	89	0	293	22	7	10	59	1.55
5753149--5753190	22	2.0	22	86	13	61	23	4	9	61	1.45
5753162--5753246	26	3.3	26	71	21	88	22	5	8	63	1.44
5753133--5753219	29	3.2	30	65	28	68	21	4	10	63	1.44
5757819--5757866	2	24.0	2	100	0	96	50	0	0	50	1.00
5758126--5758395	82	3.3	82	76	3	292	35	17	17	30	1.92
5758117--5758363	81	3.0	81	75	3	271	32	16	17	32	1.93
5758673--5758734	33	1.9	31	83	6	79	16	29	20	33	1.94
5761209--5761420	104	2.0	104	96	0	388	27	13	15	43	1.84
5762389--5762696	43	7.2	43	86	1	379	25	24	19	30	1.98
5762389--5762696	129	2.4	127	87	2	429	25	24	19	30	1.98
5763400--5763458	30	2.0	29	83	3	73	33	22	8	35	1.84
5764973--5765039	23	2.9	23	90	0	107	35	23	20	19	1.95
5781548--5781623	36	2.1	36	92	0	125	32	22	22	22	1.98
5782577--5782641	26	2.5	26	80	7	69	21	12	24	41	1.87
5782626--5782687	27	2.3	27	86	5	81	19	9	24	46	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5793672--5793700	14	2.1	14	100	0	58	20	6	13	58	1.58
5795492--5795546	23	2.3	24	81	9	60	23	3	10	61	1.44
5796653--5796744	47	1.9	48	93	2	159	29	21	18	30	1.97
5797264--5797369	45	2.3	45	87	7	144	30	19	19	30	1.97
5799282--5799321	21	1.9	21	90	10	64	55	0	7	37	1.29
5805661--5805840	65	2.8	64	80	7	204	29	24	18	27	1.98
5805792--5805840	19	2.6	19	84	9	57	24	28	20	26	1.99
5817217--5817267	20	2.5	20	96	0	93	23	19	7	49	1.74
5817217--5817273	20	2.8	20	91	0	69	24	21	7	47	1.75
5820217--5820281	24	2.8	23	79	4	85	21	24	24	29	1.99
5821374--5821479	45	2.3	45	82	4	124	32	19	17	30	1.96
5821421--5821580	65	2.5	65	94	0	284	29	19	18	32	1.96
5822242--5822269	2	14.0	2	100	0	56	50	0	0	50	1.00
5823919--5823968	24	2.1	24	100	0	100	50	24	8	18	1.73
5824285--5824360	21	3.5	22	83	5	100	26	21	23	28	1.99
5824285--5824379	21	4.4	20	80	11	93	25	18	25	30	1.98
5824259--5824379	43	2.8	42	78	11	129	23	19	27	30	1.98
5830218--5830264	18	2.7	18	96	3	87	29	17	19	34	1.94
5830154--5830333	83	2.2	82	83	8	217	28	18	22	30	1.97
5831364--5831424	22	2.8	22	97	0	113	45	9	14	29	1.77
5834845--5834921	24	3.6	22	75	20	67	29	19	25	24	1.98
5836511--5836569	23	2.6	23	77	0	64	18	23	27	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5840508--5840541	13	2.6	13	95	0	59	50	5	0	44	1.26
5840508--5840568	15	4.0	15	82	15	72	49	6	1	42	1.38
5840506--5840568	31	2.0	30	90	9	99	47	6	1	44	1.38
5840617--5840655	2	19.5	2	100	0	78	48	0	0	51	1.00
5840987--5841055	4	17.2	4	81	0	57	1	11	47	39	1.49
5840987--5841030	12	3.7	12	93	0	70	0	9	50	40	1.34
5840992--5841038	12	3.9	12	94	0	67	0	12	51	36	1.40
5841054--5841205	68	2.3	65	77	13	150	48	3	6	40	1.48
5841313--5841349	19	1.9	19	88	0	56	51	13	0	35	1.41
5841442--5841502	7	8.7	7	76	7	61	54	21	0	24	1.45
5841436--5841507	21	3.5	20	77	7	72	52	25	0	22	1.47
5841436--5841502	14	4.8	14	90	0	89	53	23	0	22	1.46
5841957--5841991	14	2.5	14	90	9	54	48	28	0	22	1.51
5841927--5841982	21	2.7	21	86	5	78	48	32	0	19	1.49
5842503--5842583	38	2.1	39	84	8	105	49	3	1	45	1.27
5843478--5843523	23	2.0	24	91	4	76	50	2	2	45	1.26
5843793--5843843	16	3.2	16	85	0	75	45	11	17	25	1.83
5844375--5844428	24	2.2	25	77	9	58	66	0	7	25	1.17
5846000--5846059	24	2.5	24	94	0	102	51	6	6	35	1.54
5849267--5849371	34	3.1	34	87	2	122	42	26	6	23	1.79
5861692--5861750	23	2.6	23	88	0	91	20	27	27	25	1.99
5862012--5862049	12	2.8	13	88	11	51	55	0	7	36	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5864466--5864510	13	3.5	13	81	0	54	68	13	2	15	1.30
5864463--5864536	26	2.8	25	80	10	69	67	9	2	20	1.31
5867151--5867198	20	2.4	19	83	10	60	45	2	27	25	1.64
5868088--5868165	19	4.1	19	73	15	61	0	33	0	66	0.92
5871585--5871609	12	2.1	12	100	0	50	24	8	16	52	1.70
5872490--5872543	7	7.4	7	89	4	72	9	35	1	53	1.44
5873213--5873250	19	2.1	19	90	9	62	34	5	0	60	1.19
5881723--5881800	39	2.0	39	100	0	156	12	20	20	46	1.83
5884977--5885053	37	2.1	36	83	9	93	46	1	3	48	1.28
5885199--5885236	20	1.9	20	88	0	58	21	26	10	42	1.85

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