genome.fa.s190.2.7.7.80.10.50.1000.18.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

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   

This is table  18  of  62  ( 7381 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)
4192982--4193115	20	6.6	20	75	3	124	17	20	21	39	1.92
4192982--4193115	61	2.2	61	94	0	232	17	20	21	39	1.92
4192958--4193152	102	1.9	101	86	6	277	19	19	21	39	1.93
4193236--4193273	6	6.5	6	90	3	60	31	50	15	2	1.58
4193864--4193948	19	4.3	19	79	8	107	41	20	20	18	1.91
4193927--4193982	28	2.0	28	100	0	112	39	21	21	17	1.93
4194644--4194699	21	2.7	21	83	5	69	30	30	16	23	1.96
4197107--4197194	21	4.2	21	82	5	88	25	34	19	21	1.96
4197140--4197217	21	3.7	21	84	0	84	26	32	20	20	1.97
4200093--4200126	14	2.3	15	90	5	52	61	5	8	23	1.47
4200161--4200197	14	2.6	14	91	0	56	56	2	16	24	1.53
4200381--4200450	30	2.4	29	80	2	77	35	5	27	31	1.80
4203866--4203933	33	2.1	33	97	0	127	41	4	29	25	1.75
4210638--4210707	33	2.1	33	82	10	81	35	14	25	24	1.93
4215316--4215352	19	2.0	19	89	5	58	37	10	5	45	1.62
4222575--4222666	41	2.2	41	98	0	175	16	30	39	14	1.88
4224313--4224466	62	2.5	63	82	6	170	31	22	23	22	1.98
4234436--4234460	2	12.5	2	100	0	50	52	0	0	48	1.00
4235767--4236075	53	5.8	53	89	1	422	22	27	19	30	1.98
4236497--4236881	42	9.2	42	93	0	664	32	20	20	27	1.97
4236886--4236996	42	2.6	42	95	0	195	30	23	18	27	1.98
4236897--4236968	20	3.5	20	67	14	56	29	22	23	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4237623--4237665	17	2.4	17	84	7	59	2	20	6	69	1.23
4247681--4247734	16	3.4	16	82	2	56	66	0	1	31	1.02
4247684--4247745	25	2.5	23	87	10	79	66	0	1	32	1.02
4247683--4247740	15	3.9	16	75	18	54	67	0	1	31	1.01
4249347--4249458	58	1.9	58	85	0	152	37	11	10	40	1.77
4251220--4251277	19	2.9	19	78	17	64	24	22	27	25	2.00
4254770--4254799	7	4.3	7	100	0	60	30	0	56	13	1.37
4257981--4258022	21	2.0	21	95	0	75	26	11	4	57	1.54
4258474--4258498	2	12.5	2	100	0	50	52	0	0	48	1.00
4258722--4258764	2	22.0	2	90	4	70	46	0	0	53	1.00
4260139--4260194	23	2.4	23	93	0	94	44	1	0	53	1.11
4261808--4261887	37	2.2	35	80	12	90	23	5	7	63	1.40
4261820--4261891	37	1.9	37	86	10	103	22	5	6	65	1.38
4261879--4261917	14	2.9	13	77	7	51	23	5	2	69	1.21
4262071--4262122	2	26.0	2	100	0	104	50	0	0	50	1.00
4271056--4271085	14	2.1	14	93	0	51	40	16	0	43	1.48
4271233--4271315	30	2.8	30	83	1	96	33	28	19	18	1.95
4271290--4271384	31	3.1	31	81	3	120	35	21	15	27	1.94
4272070--4272127	20	2.7	20	86	10	71	24	22	24	29	1.99
4275660--4275720	23	2.6	23	94	2	104	24	21	22	31	1.98
4276925--4276965	20	2.0	20	85	0	55	41	17	19	21	1.90
4282535--4282597	21	3.3	19	70	17	58	36	12	25	25	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4282703--4282812	44	2.5	44	84	0	148	30	22	15	30	1.95
4282608--4282956	179	1.9	180	86	1	495	30	21	14	33	1.93
4285705--4285819	38	3.0	39	80	3	144	32	17	29	20	1.96
4289513--4289542	14	2.1	14	100	0	60	23	30	6	40	1.80
4295507--4295562	28	2.0	28	83	13	71	78	5	10	5	1.07
4295521--4295561	18	2.2	18	87	12	57	82	4	7	4	0.93
4295549--4295598	17	2.9	17	78	16	50	80	8	0	12	0.92
4306487--4306549	31	2.1	31	96	3	119	31	6	14	47	1.69
4312002--4312111	58	1.9	58	88	5	170	34	12	13	39	1.83
4314963--4315007	3	15.0	3	95	0	81	64	0	2	33	1.06
4315712--4315782	34	2.2	32	84	5	88	23	28	15	32	1.95
4316201--4316297	21	4.7	20	78	12	81	23	18	32	24	1.97
4316377--4316434	30	2.0	29	90	10	91	44	17	5	32	1.70
4316377--4316436	29	2.0	30	93	6	104	43	16	6	33	1.74
4319477--4319516	21	1.9	22	90	10	66	12	10	40	37	1.77
4319546--4319594	21	2.3	21	100	0	98	22	24	24	28	1.99
4319667--4319713	20	2.3	20	96	0	85	27	21	31	19	1.97
4319778--4319833	21	2.7	21	94	0	94	23	19	35	21	1.96
4319913--4319970	30	2.0	29	90	10	91	44	17	5	32	1.70
4319913--4319972	29	2.0	30	93	6	104	43	16	6	33	1.74
4320124--4320219	44	2.2	44	96	0	174	31	26	3	39	1.72
4321259--4321324	18	3.6	18	73	17	55	37	13	1	46	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4323289--4323386	21	4.7	20	80	10	90	23	18	33	24	1.97
4323288--4323386	42	2.4	42	84	3	119	23	18	34	24	1.96
4323455--4323522	29	2.3	30	87	5	93	48	14	5	30	1.68
4323466--4323525	29	2.0	30	93	6	104	43	15	6	35	1.72
4324276--4324386	3	37.0	3	94	0	186	63	0	1	35	1.05
4326502--4326560	20	3.1	18	75	17	64	40	3	1	54	1.27
4329592--4329637	6	7.5	6	92	4	65	71	15	2	10	1.23
4329592--4329637	19	2.5	19	89	3	67	71	15	2	10	1.23
4330566--4330625	31	2.0	31	90	3	95	31	16	23	28	1.96
4334782--4334829	20	2.5	20	80	12	64	37	2	27	33	1.69
4335262--4335286	13	1.9	13	100	0	50	24	12	16	48	1.79
4341761--4341785	12	2.1	12	100	0	50	0	0	8	92	0.40
4342644--4342678	12	2.9	12	86	0	52	85	0	2	11	0.69
4348185--4348237	23	2.4	21	81	18	63	64	0	13	22	1.28
4350523--4350635	56	2.0	56	94	3	201	20	9	20	49	1.76
4352932--4352986	26	2.1	26	89	0	83	9	18	32	40	1.82
4352993--4353048	3	18.7	3	85	7	78	62	0	0	37	0.95
4353184--4353817	226	2.8	226	96	1	1157	35	21	20	21	1.96
4353184--4353817	75	8.4	76	96	1	1154	35	21	20	21	1.96
4353184--4353817	151	4.2	152	96	1	1154	35	21	20	21	1.96
4354488--4354539	22	2.4	22	90	0	77	36	17	11	34	1.86
4354909--4355024	55	2.2	53	89	6	171	22	20	17	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4357164--4357467	148	2.1	148	99	0	599	30	19	15	34	1.93
4357417--4357700	94	3.0	93	89	4	421	36	21	13	28	1.91
4366095--4366120	13	2.0	13	100	0	52	0	7	7	84	0.77
4366402--4366456	26	2.1	26	89	0	83	9	18	32	40	1.82
4366463--4366545	3	27.7	3	76	9	80	59	0	0	40	0.98
4379821--4379858	20	1.9	20	94	0	67	34	10	31	23	1.89
4380015--4380085	34	2.0	36	81	10	85	47	4	1	46	1.30
4381060--4381159	51	1.9	51	86	6	139	55	5	1	39	1.29
4381062--4381170	51	2.1	50	81	8	121	57	5	0	35	1.28
4382899--4382963	29	2.1	31	81	18	75	56	3	1	38	1.24
4385343--4385394	21	2.5	21	75	6	52	26	3	1	67	1.18
4391039--4391068	12	2.5	12	94	0	51	6	20	0	73	1.05
4399403--4399452	19	2.6	19	81	12	66	20	4	2	74	1.08
4399486--4399531	19	2.3	21	85	7	60	21	4	0	73	1.00
4405441--4405492	19	2.5	21	87	9	72	44	17	3	34	1.67
4405912--4405942	2	15.5	2	93	0	53	48	0	3	48	1.17
4411983--4412041	25	2.4	25	91	5	93	22	13	27	37	1.91
4413110--4413147	13	2.8	13	81	18	51	68	0	2	28	1.03
4413303--4413327	12	2.1	12	100	0	50	36	40	0	24	1.55
4414429--4414467	21	1.9	20	84	5	51	48	5	7	38	1.54
4415483--4415525	10	4.3	10	82	11	52	27	0	39	32	1.57
4417861--4418252	189	2.1	191	84	1	511	33	15	19	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4419866--4419892	14	1.9	14	100	0	54	22	22	7	48	1.75
4427602--4427785	43	4.2	44	79	4	169	30	27	13	28	1.94
4427643--4427785	44	3.3	44	81	3	146	30	26	14	27	1.95
4427775--4427873	43	2.3	43	78	0	117	32	24	17	26	1.97
4429634--4429677	19	2.1	21	84	12	56	56	0	2	40	1.11
4433933--4433964	15	2.2	15	94	5	57	65	0	0	34	0.93
4434665--4434712	17	2.7	18	87	6	71	41	8	25	25	1.83
4435647--4435755	54	2.0	54	85	7	150	25	21	24	28	1.99
4442018--4442072	25	2.2	25	100	0	110	23	14	29	32	1.94
4444887--4444931	22	2.0	22	91	0	72	20	44	15	20	1.87

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