genome.fa.s8242.2.7.7.80.10.50.1000.67.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

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   66   67   68   69   70   71   72   73   

This is table  67  of  73  ( 8740 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)
15487421--15487504	38	2.2	38	84	14	104	63	3	5	27	1.34
15487689--15487748	19	3.2	19	79	11	52	58	1	3	36	1.25
15487852--15487914	15	4.5	13	77	16	56	66	3	3	26	1.22
15489401--15489484	29	2.8	30	81	3	80	41	2	2	53	1.27
15496728--15496784	27	2.1	27	100	0	114	43	10	17	28	1.82
15497358--15497410	22	2.4	22	96	0	97	32	9	41	16	1.81
15497973--15498020	23	2.1	23	88	0	69	35	12	18	33	1.89
15498402--15498453	23	2.3	22	90	6	77	44	19	1	34	1.62
15498412--15498474	23	2.7	23	90	0	90	38	19	6	36	1.77
15498876--15498962	39	2.2	39	95	0	156	17	13	20	48	1.81
15499221--15499257	18	2.1	18	89	0	56	51	10	5	32	1.60
15499552--15499602	25	2.0	25	92	0	84	39	19	7	33	1.81
15499870--15499921	23	2.3	22	90	6	77	44	19	1	34	1.62
15499880--15499942	23	2.7	23	90	0	90	38	19	6	36	1.77
15500229--15500294	25	2.6	25	78	0	78	43	13	7	34	1.73
15502756--15503283	184	2.9	184	95	0	930	34	16	13	35	1.88
15504752--15504796	3	15.0	3	85	0	63	26	33	2	37	1.69
15504756--15504844	12	7.4	12	84	0	88	20	34	8	35	1.84
15504756--15504847	18	5.1	18	79	0	85	19	34	8	36	1.83
15504756--15504847	6	15.3	6	81	0	67	19	34	8	36	1.83
15506307--15507874	199	7.9	199	97	0	2971	31	16	15	36	1.90
15506307--15507874	397	3.9	398	98	0	2998	31	16	15	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15506307--15507874	596	2.6	596	97	0	2978	31	16	15	36	1.90
15507993--15508041	19	2.6	19	90	0	71	57	10	4	28	1.50
15509595--15509642	15	3.3	14	78	18	53	4	43	0	52	1.20
15509944--15509992	21	2.3	22	82	10	66	18	30	12	38	1.87
15512218--15512260	20	2.3	18	82	17	61	18	16	11	53	1.72
15512223--15512269	20	2.3	20	89	10	78	17	17	10	55	1.69
15512391--15512436	20	2.3	20	89	10	76	17	17	10	54	1.70
15515352--15515454	52	2.0	52	94	0	179	34	5	9	49	1.60
15526782--15526842	32	1.9	32	86	6	88	39	22	16	21	1.92
15527268--15527297	6	5.0	6	91	0	51	36	0	0	63	0.95
15535643--15535697	27	2.0	27	86	13	78	70	3	0	25	1.03
15535643--15535694	20	2.5	20	81	9	52	71	3	0	25	1.03
15535665--15535702	20	1.9	20	88	0	58	68	2	0	28	1.03
15537602--15537658	30	1.9	30	85	0	78	40	15	3	40	1.65
15541626--15541666	17	2.4	17	95	0	73	46	0	7	46	1.30
15541636--15541733	51	1.9	52	89	2	153	42	4	4	48	1.40
15542376--15542417	20	2.1	20	90	0	66	45	14	21	19	1.85
15542442--15542485	23	2.0	23	86	4	63	29	20	15	34	1.94
15542581--15542621	20	2.0	20	90	0	64	60	14	12	12	1.58
15544312--15544458	61	2.4	61	83	3	179	34	10	6	48	1.63
15544619--15544684	7	9.4	7	81	6	71	43	34	0	21	1.53
15544623--15544683	21	3.0	20	88	7	86	45	31	0	22	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15544619--15544693	28	2.6	28	87	6	98	44	32	0	24	1.54
15544679--15544733	22	2.5	22	82	11	60	49	9	1	40	1.45
15544867--15544915	20	2.5	20	80	3	64	42	6	8	42	1.59
15544909--15545035	2	62.0	2	78	10	132	48	3	1	46	1.30
15545105--15546225	210	5.3	210	92	1	1775	28	12	8	51	1.67
15545112--15546225	418	2.6	415	91	3	1764	27	12	7	51	1.66
15551714--15551741	2	14.0	2	100	0	56	50	0	0	50	1.00
15552176--15552328	31	4.9	31	95	0	261	24	18	20	35	1.95
15556743--15556812	34	2.1	32	86	5	95	22	30	15	31	1.95
15557184--15557250	20	3.3	20	89	0	107	31	25	28	14	1.95
15557270--15557369	21	4.7	21	82	12	116	20	20	37	23	1.95
15557592--15557631	21	1.9	21	89	0	62	47	7	10	35	1.65
15566765--15566822	29	2.0	29	100	0	116	27	17	17	37	1.92
15571337--15571383	23	2.0	23	84	8	60	61	10	4	23	1.46
15571756--15571821	19	3.3	19	83	10	60	18	30	30	21	1.97
15571780--15571853	23	3.3	23	96	1	132	20	22	35	21	1.96
15575591--15575630	21	1.9	21	85	10	55	35	10	2	52	1.48
15583825--15583851	5	5.4	5	100	0	54	81	0	0	18	0.69
15583825--15583863	15	2.6	15	87	0	51	76	0	2	20	0.90
15584934--15584980	2	25.0	2	80	20	57	51	0	2	46	1.13
15594403--15594475	23	3.2	23	90	0	119	35	6	20	36	1.80
15594832--15594876	22	2.1	21	87	4	63	42	8	11	37	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15594894--15594966	23	3.2	23	82	0	101	35	5	19	39	1.75
15595381--15595453	23	3.2	23	90	0	119	35	6	20	36	1.80
15594179--15595989	487	3.7	489	96	1	3348	40	7	11	40	1.70
15595865--15595937	23	3.2	23	88	0	110	35	5	20	38	1.76
15596299--15596376	20	3.9	20	86	5	86	51	10	15	23	1.73
15598456--15598520	21	3.1	21	88	0	94	41	9	30	18	1.82
15598558--15598618	32	1.9	32	86	0	86	31	0	47	21	1.51
15600307--15600355	19	2.6	19	96	0	89	32	2	10	55	1.45
15600589--15601682	200	5.5	200	94	2	1955	36	14	19	29	1.92
15601168--15601682	187	2.7	189	92	3	836	37	14	18	29	1.91
15600589--15601682	387	2.8	392	96	1	1966	36	14	19	29	1.92
15602552--15603595	184	5.7	184	98	0	2013	35	14	17	32	1.90
15610817--15610878	32	1.9	32	93	0	106	16	6	30	46	1.72
15614996--15615033	20	1.9	20	88	0	58	21	26	10	42	1.85
15621586--15621614	14	2.0	15	93	6	51	62	0	17	20	1.33
15622558--15622632	31	2.4	31	88	0	105	28	30	28	13	1.94
15623354--15623412	31	1.9	31	89	0	91	44	3	8	44	1.51
15623436--15623875	22	19.6	22	84	6	542	46	11	0	42	1.39
15623436--15623875	87	4.9	87	84	8	585	46	11	0	42	1.39
15623862--15623901	12	3.6	12	83	16	59	55	0	0	45	0.99
15634890--15634945	23	2.4	22	82	8	58	58	0	5	35	1.21
15635115--15635170	23	2.4	22	85	8	67	60	0	1	37	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15635135--15635178	21	2.0	21	83	12	54	59	2	2	36	1.23
15636260--15636323	33	1.9	33	90	0	101	14	15	15	54	1.71
15637182--15637270	19	4.6	18	70	25	65	39	3	1	56	1.23
15637190--15637242	23	2.3	23	78	15	56	37	3	1	56	1.28
15637396--15637434	20	2.0	20	90	10	62	41	2	0	56	1.13
15637406--15637469	25	2.8	23	76	21	55	45	1	0	53	1.10
15639937--15639977	3	13.7	3	85	10	57	60	0	0	39	0.96
15639945--15639985	16	2.5	16	96	4	73	60	0	0	39	0.96
15639939--15639992	8	6.9	8	79	14	51	57	1	0	40	1.09
15640171--15640337	36	4.6	36	88	1	244	18	17	19	44	1.87
15640171--15640337	73	2.3	72	88	1	244	18	17	19	44	1.87
15642250--15642317	26	2.7	25	80	8	75	8	13	4	73	1.22
15645181--15645262	40	2.0	40	97	0	155	24	17	25	32	1.96
15652665--15652786	40	3.0	40	96	0	226	24	17	25	32	1.96
15658256--15658437	93	2.0	92	91	1	292	28	17	20	34	1.95
15671326--15671376	3	17.7	3	80	15	63	60	0	0	39	0.97
15671326--15671376	21	2.5	20	87	9	77	60	0	0	39	0.97
15674903--15674935	2	16.5	2	93	0	57	51	3	0	45	1.16
15677219--15678188	106	9.4	106	87	4	1166	23	18	24	34	1.96
15677893--15678183	94	3.1	94	93	1	503	23	17	24	34	1.96
15678933--15678980	6	7.7	6	84	11	53	0	16	2	81	0.79
15678938--15678982	19	2.3	19	88	7	63	0	17	2	80	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15696332--15696372	19	2.1	19	86	4	55	4	0	29	65	1.13
15696801--15696847	16	3.0	16	81	3	51	76	4	2	17	1.04
15696811--15696853	16	2.6	16	85	3	50	74	2	0	23	0.93
15696832--15696901	36	2.0	35	81	15	83	57	2	0	40	1.14
15696880--15697068	35	5.3	35	75	11	102	46	4	4	44	1.45
15696880--15697057	70	2.5	69	75	9	164	46	3	5	44	1.43
15697008--15697204	69	3.0	67	88	5	285	42	7	4	46	1.50
15697130--15697248	36	3.2	38	79	14	124	43	6	2	47	1.43
15697995--15698052	27	2.1	27	93	0	98	24	18	22	34	1.96
15697930--15698132	107	1.9	109	85	4	284	23	19	22	34	1.96

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   66   67   68   69   70   71   72   73