genome.fa.s9462.2.7.7.80.10.50.1000.20.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: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  20687664

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   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   

This is table  20  of  91  ( 10815 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)
3991021--3991090	33	2.1	33	97	0	131	20	17	22	40	1.92
3992510--3992573	21	3.3	21	62	20	57	45	14	12	28	1.81
3992506--3992610	37	2.8	37	88	0	147	42	14	13	29	1.83
3992983--3993063	2	43.5	2	71	18	59	41	1	0	56	1.07
3992983--3993065	22	3.7	22	74	17	82	40	1	0	57	1.06
3993355--3993417	23	2.7	24	78	14	69	15	9	1	73	1.17
3997341--3997681	179	1.9	180	91	3	562	26	20	21	30	1.98
3998805--3998965	72	2.2	75	83	7	197	28	18	13	40	1.87
3998805--3998913	36	3.1	36	75	9	116	30	15	10	44	1.79
3998863--3999002	76	1.9	73	82	10	176	28	15	16	39	1.89
3999266--3999337	36	2.0	36	88	0	108	23	20	16	38	1.92
3999048--3999362	100	3.1	101	85	8	422	31	19	11	37	1.87
3999458--3999896	205	2.1	210	88	3	640	32	26	18	21	1.97
3999458--3999896	105	4.2	105	89	3	640	32	26	18	21	1.97
4004837--4004969	51	2.6	50	84	1	167	19	33	29	17	1.95
4006469--4006507	18	2.2	18	100	0	78	20	23	30	25	1.98
4008258--4008296	19	2.1	19	95	0	69	20	38	15	25	1.92
4008195--4008404	65	3.2	64	80	7	201	31	26	15	26	1.96
4014153--4014254	44	2.3	44	80	8	118	28	24	18	28	1.98
4016463--4016501	19	2.1	19	95	0	69	20	38	15	25	1.92
4016400--4016528	65	2.0	63	84	14	165	31	27	15	26	1.96
4016483--4016591	56	1.9	56	85	5	148	31	25	15	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4017396--4017608	110	1.9	111	93	0	365	46	9	7	36	1.64
4017890--4018021	51	2.6	50	88	5	185	17	29	33	19	1.95
4019594--4019722	63	2.0	63	87	0	186	37	13	24	23	1.92
4020971--4021056	41	2.1	41	82	4	102	30	18	19	31	1.96
4023708--4023746	17	2.4	17	95	4	71	51	5	0	43	1.24
4025689--4025747	8	7.1	8	84	7	73	81	3	3	11	0.94
4026475--4026500	11	2.4	11	100	0	52	30	50	0	19	1.48
4027083--4027125	21	2.0	21	83	16	54	11	2	27	58	1.46
4027336--4027817	132	3.7	132	85	2	592	31	19	19	30	1.96
4027425--4027629	44	4.7	44	69	8	130	30	18	19	32	1.95
4028894--4028961	6	11.5	6	78	18	72	1	16	0	82	0.75
4028894--4028961	20	3.5	19	84	11	84	1	16	0	82	0.75
4035349--4035425	37	2.1	38	92	2	129	28	19	22	29	1.98
4038286--4038384	14	6.9	14	79	5	90	26	28	19	26	1.99
4038284--4038384	29	3.5	29	82	8	125	25	28	18	26	1.98
4038286--4038380	43	2.2	44	86	1	129	27	28	18	25	1.98
4047101--4047150	3	17.0	3	84	12	68	36	0	2	62	1.07
4049501--4049546	20	2.3	20	96	0	83	21	19	10	47	1.80
4059359--4059385	2	13.5	2	100	0	54	51	0	0	48	1.00
4059537--4059575	18	2.2	18	90	9	62	38	0	2	58	1.12
4060782--4060840	5	11.8	5	77	12	59	76	1	1	20	0.96
4060783--4060840	20	2.9	21	85	7	77	75	1	1	20	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4061983--4062033	3	17.3	3	87	4	77	60	0	1	37	1.08
4062359--4062648	84	3.5	83	82	4	350	23	20	26	29	1.99
4062684--4063075	36	11.1	36	77	13	334	38	12	19	29	1.88
4062751--4063075	73	4.6	73	79	8	373	39	12	19	29	1.88
4062786--4063047	138	1.9	138	87	1	382	39	11	19	29	1.87
4062945--4063045	21	5.4	21	67	26	91	40	9	21	27	1.85
4062924--4063102	36	4.9	36	87	2	234	37	11	21	30	1.88
4066150--4066182	16	2.0	17	94	5	59	30	39	6	24	1.79
4066599--4066681	5	17.6	5	76	15	52	73	4	2	19	1.12
4067853--4067917	3	22.3	3	90	6	107	63	0	1	35	1.04
4075810--4075834	2	12.5	2	100	0	50	0	48	0	52	1.00
4081157--4081204	23	2.1	23	88	0	69	35	12	18	33	1.89
4081595--4081656	22	2.7	23	85	5	81	38	19	6	35	1.77
4082057--4082143	39	2.2	39	95	0	156	17	13	20	48	1.81
4082401--4082437	18	2.1	18	89	0	56	51	10	5	32	1.60
4082731--4082779	23	2.0	23	84	7	62	38	18	8	34	1.80
4083045--4083096	23	2.3	22	90	6	77	44	19	1	34	1.62
4083055--4083117	23	2.7	23	90	0	90	38	19	6	36	1.77
4083404--4083469	25	2.6	25	80	0	87	42	13	9	34	1.76
4085164--4086527	199	6.9	199	96	1	2492	30	15	16	37	1.90
4085164--4086527	396	3.4	398	97	1	2519	30	15	16	37	1.90
4085164--4086527	594	2.3	595	96	1	2515	30	15	16	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4086643--4086691	19	2.6	19	93	0	80	57	10	2	30	1.43
4088465--4088526	32	1.9	33	86	3	90	22	50	0	27	1.50
4088560--4088601	21	2.0	21	85	0	57	14	30	16	38	1.89
4090807--4090849	20	2.3	18	82	17	61	18	16	11	53	1.72
4090812--4090858	20	2.3	20	89	10	78	17	17	10	55	1.69
4090977--4091020	19	2.3	18	85	11	61	18	18	11	52	1.74
4094102--4094140	20	2.0	20	94	0	69	35	17	17	28	1.94
4098359--4098529	82	2.1	82	94	0	306	33	14	6	45	1.70
4098920--4098998	23	3.3	23	72	13	63	69	1	13	15	1.25
4099020--4099044	13	1.9	13	100	0	50	64	8	12	16	1.49
4099039--4099084	24	2.0	24	86	4	67	84	2	8	4	0.83
4099063--4099096	9	3.9	9	84	7	52	82	0	2	14	0.79
4099048--4099097	24	2.1	24	85	7	66	84	0	6	10	0.79
4099093--4099154	3	21.0	3	74	21	51	64	3	3	29	1.25
4099039--4099094	17	3.2	17	92	2	85	83	1	7	7	0.86
4099034--4099179	17	7.8	18	72	15	77	74	2	5	17	1.12
4100259--4100305	2	24.0	2	91	4	78	51	0	0	48	1.00
4100714--4100791	36	2.1	37	88	6	115	35	14	20	29	1.92
4106509--4106544	8	4.5	8	100	0	72	77	0	0	22	0.76
4106501--4106577	17	4.5	16	80	9	64	72	0	1	25	0.92
4106510--4106610	8	12.2	8	76	19	61	69	0	1	27	1.06
4106539--4106611	3	24.7	3	79	18	82	65	1	2	30	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4108302--4108372	30	2.4	30	87	0	97	38	9	29	22	1.86
4108388--4108427	12	3.3	12	96	0	71	22	45	22	10	1.82
4111438--4111492	24	2.3	24	78	3	58	34	10	7	47	1.66
4118830--4118896	33	2.0	33	91	0	107	26	13	28	31	1.94
4122593--4122639	24	2.0	24	83	8	60	55	14	2	27	1.51
4123782--4123825	11	4.2	11	81	18	58	11	9	0	79	0.93
4128189--4128235	24	2.0	24	83	8	60	55	12	2	29	1.49
4134020--4134075	24	2.4	23	80	11	60	55	3	3	37	1.35
4139374--4139471	44	2.2	44	82	7	119	30	11	25	32	1.91
4141905--4142242	140	2.4	141	78	5	353	39	15	13	31	1.86
4142664--4142693	3	10.0	3	92	0	51	63	0	3	33	1.11
4143562--4143599	16	2.2	16	90	9	58	21	0	36	42	1.53
4145334--4145358	12	2.1	12	100	0	50	40	28	8	24	1.83
4151183--4151233	2	26.5	2	92	7	88	50	0	0	49	1.00
4151228--4151272	18	2.4	19	88	7	65	66	0	0	33	0.92
4151722--4152308	106	5.4	106	87	3	778	21	19	24	35	1.96
4152171--4152203	12	2.8	12	100	0	66	27	12	27	33	1.92
4152065--4152309	118	2.1	118	95	0	436	21	17	24	37	1.94
4156195--4156222	12	2.3	12	100	0	56	60	0	0	39	0.97
4158064--4158110	20	2.3	21	85	10	71	63	0	2	34	1.06
4158470--4158503	2	17.0	2	100	0	68	50	0	0	50	1.00
4158713--4158767	24	2.3	24	96	0	101	36	20	18	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4158758--4158804	21	2.2	21	84	3	58	34	27	19	19	1.96
4161511--4161573	27	2.3	27	88	0	90	17	22	15	44	1.86
4173949--4173990	16	2.6	16	85	11	50	45	26	0	28	1.54
4176013--4176060	22	2.2	22	85	7	62	10	16	14	58	1.63
4176013--4176174	81	2.0	82	92	3	274	18	16	18	46	1.84
4176374--4176425	23	2.3	23	82	0	59	42	9	17	30	1.81
4176337--4176499	87	1.9	87	93	0	281	41	11	14	33	1.81
4176517--4177220	199	3.5	196	81	7	796	31	15	13	38	1.87
4180732--4180771	14	2.8	14	92	3	62	32	15	10	42	1.79
4180751--4181253	199	2.5	198	81	5	582	32	15	13	39	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   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   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91