genome.fa.s9462.2.7.7.80.10.50.1000.52.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  52  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)
11462541--11462586	19	2.2	21	77	18	60	26	13	32	28	1.93
11462547--11462586	19	2.1	19	95	0	71	27	12	32	27	1.93
11476234--11476265	16	2.0	16	100	0	64	43	6	18	31	1.75
11479824--11479855	16	2.0	16	100	0	64	43	6	18	31	1.75
11480357--11480386	13	2.4	12	89	10	51	23	30	0	46	1.52
11495617--11495661	13	3.5	13	84	3	56	35	35	2	26	1.69
11495882--11495914	2	16.5	2	100	0	66	51	0	0	48	1.00
11501476--11501504	2	14.5	2	100	0	58	48	0	0	51	1.00
11509990--11510049	23	2.6	23	86	2	84	61	11	18	8	1.54
11511268--11511312	24	2.0	22	82	8	54	31	15	17	35	1.92
11517271--11517321	20	2.5	21	75	12	52	5	13	3	76	1.11
11527203--11527255	16	3.2	16	77	17	56	66	0	18	15	1.26
11529891--11529927	10	3.7	10	100	0	74	0	27	0	72	0.84
11529887--11529928	5	8.6	5	81	2	50	0	26	0	73	0.83
11534782--11534834	19	2.6	20	82	8	54	39	7	13	39	1.73
11535732--11535770	20	2.0	20	90	10	62	61	5	7	25	1.44
11536981--11537015	8	4.5	8	96	3	63	62	0	0	37	0.95
11539944--11540390	225	2.0	225	95	1	799	38	12	22	26	1.90
11543421--11543453	10	3.4	10	87	8	50	72	15	12	0	1.12
11548118--11548160	12	3.8	12	75	12	54	86	9	4	0	0.71
11548121--11548160	10	3.8	10	87	12	62	87	7	5	0	0.66
11548121--11548167	21	2.2	22	92	3	78	82	10	6	0	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11565279--11565325	16	2.8	16	81	12	51	68	0	17	14	1.22
11565511--11565542	11	3.1	11	86	13	50	0	15	0	84	0.63
11565514--11565543	15	1.9	16	93	6	53	0	13	0	86	0.57
11567419--11567526	36	3.0	36	91	1	173	31	3	35	29	1.75
11567880--11567930	23	2.2	23	96	0	93	19	19	35	25	1.95
11570784--11570813	13	2.4	13	94	5	53	50	0	23	26	1.50
11571742--11571785	21	2.0	21	87	12	63	61	0	22	15	1.34
11573814--11573864	19	2.6	20	87	3	68	33	13	7	45	1.73
11574203--11574313	35	3.2	35	88	2	161	27	36	3	31	1.74
11578919--11579003	2	43.5	2	88	9	131	50	1	1	47	1.16
11578919--11579006	33	2.7	33	91	3	142	50	1	2	46	1.21
11586925--11587061	72	1.9	71	82	7	170	21	18	20	39	1.93
11596634--11596659	5	5.2	5	100	0	52	0	19	0	80	0.71
11596648--11596714	28	2.4	28	80	9	82	7	16	13	62	1.52
11598725--11598784	26	2.3	26	83	16	72	8	15	6	70	1.33
11604253--11604277	12	2.1	12	100	0	50	24	16	16	44	1.86
11604315--11604344	12	2.4	13	94	5	53	0	20	0	80	0.72
11604689--11604729	22	1.9	21	90	5	64	26	0	36	36	1.57
11613499--11613566	35	1.9	36	84	3	93	32	35	2	29	1.73
11613939--11613984	22	2.2	22	88	7	69	82	6	10	0	0.83
11613940--11613976	18	1.9	19	89	10	58	81	8	10	0	0.89
11614015--11614063	24	2.1	24	84	3	64	71	6	18	4	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11626687--11626754	2	34.5	2	94	2	120	50	0	1	48	1.10
11627986--11628028	23	1.9	21	81	13	50	30	18	16	34	1.93
11652312--11652353	22	2.0	21	85	4	57	35	33	0	30	1.58
11656280--11656361	20	4.2	20	85	4	114	36	8	4	50	1.55
11662940--11662979	19	2.0	20	85	4	55	62	0	15	22	1.32
11672307--11672350	6	7.2	6	82	12	54	0	18	2	79	0.83
11672307--11672350	13	3.6	12	82	11	54	0	18	2	79	0.83
11679367--11679396	13	2.4	12	89	10	51	23	30	3	43	1.70
11682131--11682166	14	2.6	14	81	0	54	0	19	2	77	0.88
11682309--11682700	198	2.0	198	82	5	488	35	8	26	28	1.87
11685085--11685127	23	1.9	21	81	13	50	34	13	18	32	1.90
11686384--11686412	15	2.0	15	93	6	51	0	20	3	75	0.94
11696719--11696764	15	3.0	16	87	6	60	76	0	21	2	0.90
11696723--11696781	21	2.8	20	73	19	57	77	0	18	3	0.90
11696822--11696855	7	4.9	7	86	13	52	85	2	11	0	0.71
11697637--11697812	90	2.0	89	93	1	298	38	11	6	43	1.66
11704416--11704592	90	2.0	89	93	1	300	38	10	5	45	1.61
11704866--11704908	18	2.4	18	96	0	77	39	13	23	23	1.90
11706101--11706221	43	2.8	42	83	2	143	31	23	17	27	1.97
11708384--11708422	14	2.7	15	92	4	62	23	2	0	74	0.94
11708386--11708427	17	2.4	18	84	7	61	23	2	0	73	0.94
11708389--11708457	26	2.6	25	80	8	75	23	4	1	71	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11708438--11708485	16	3.1	16	80	14	55	14	4	0	81	0.84
11708440--11708555	6	18.3	6	71	21	51	16	6	1	75	1.11
11708460--11708506	19	2.5	19	83	10	62	10	10	0	78	0.96
11708598--11708647	8	5.9	8	81	9	55	14	12	0	74	1.09
11708651--11708803	9	16.4	9	69	21	77	16	6	1	74	1.12
11708641--11708744	11	10.7	10	69	20	53	18	3	2	75	1.09
11708628--11708733	19	5.9	18	70	17	69	16	5	1	75	1.08
11708592--11708801	5	41.2	5	70	18	98	16	7	1	73	1.15
11708655--11708806	16	10.1	15	75	12	84	16	7	1	74	1.13
11719605--11719636	16	2.0	16	93	0	55	81	9	9	0	0.88
11719594--11719625	12	2.7	12	100	0	64	81	6	12	0	0.87
11724334--11724380	24	2.0	24	82	0	58	27	21	17	34	1.95
11725649--11725693	23	1.9	23	86	4	63	8	8	13	68	1.38
11732541--11732570	2	15.5	2	93	6	53	50	0	0	50	1.00
11752949--11752990	23	1.9	22	85	9	59	26	33	19	21	1.97
11753698--11753723	12	2.2	12	100	0	52	23	53	0	23	1.46
11755266--11755355	45	2.0	45	97	0	171	38	1	28	31	1.64
11755681--11755718	14	2.7	14	100	0	76	15	39	23	21	1.92
11761137--11761413	46	6.0	46	89	2	378	21	19	15	43	1.87
11773401--11773451	22	2.3	22	96	0	93	47	11	1	39	1.52
11773818--11773863	24	1.9	24	95	0	83	43	10	15	30	1.81
11776709--11776877	49	3.4	49	80	1	205	27	21	12	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11780547--11780596	24	2.1	24	100	0	100	34	20	24	22	1.97
11791978--11792049	17	4.2	17	77	12	67	37	13	6	41	1.72
11794941--11795012	17	4.2	17	78	8	67	40	13	6	38	1.72
11797129--11797168	20	2.0	20	100	0	80	50	0	5	45	1.23
11797951--11798048	49	2.0	49	91	0	160	18	15	9	57	1.64
11798497--11798536	21	1.9	21	84	0	53	30	32	5	32	1.79
11801694--11801729	2	18.0	2	100	0	72	50	0	0	50	1.00
11802006--11802115	57	1.9	57	100	0	220	38	9	30	22	1.85
11803584--11803623	20	2.0	20	100	0	80	50	0	5	45	1.23
11805292--11805339	20	2.4	21	82	6	64	27	16	22	33	1.96
11806956--11807021	34	1.9	34	96	0	123	46	22	6	24	1.74
11829506--11829606	35	2.9	35	90	1	157	33	3	34	27	1.76
11829576--11829630	23	2.4	23	93	0	92	34	3	32	29	1.75
11829986--11830028	19	2.2	20	87	4	61	48	6	9	34	1.62
11836262--11836298	16	2.3	17	86	13	60	5	5	13	75	1.15
11837301--11837355	19	2.8	20	88	5	85	41	7	10	40	1.68
11845716--11845757	2	21.5	2	85	4	59	47	0	4	47	1.23
11851141--11851188	23	2.0	23	84	8	60	47	2	2	47	1.25
11871223--11871328	50	2.3	46	84	14	130	33	1	12	51	1.50
11881646--11881759	50	2.3	50	92	3	185	20	21	24	33	1.97
11887172--11887198	12	2.2	12	100	0	54	51	0	14	33	1.43
11888570--11888615	21	2.1	22	84	4	58	19	10	0	69	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11901012--11901072	16	3.9	15	77	8	68	65	3	0	31	1.09
11901076--11901118	21	2.0	21	86	9	59	44	9	0	46	1.35
11901149--11901365	36	5.9	36	72	14	165	41	8	5	43	1.59
11901139--11901422	37	7.7	37	76	11	199	41	9	5	42	1.60
11901148--11901386	74	3.2	73	81	7	259	41	9	5	43	1.58
11903235--11903259	11	2.3	11	100	0	50	40	8	36	16	1.77
11903281--11903331	24	2.1	25	89	7	79	54	13	17	13	1.70
11916989--11917045	23	2.6	21	82	15	71	14	12	15	57	1.65
11926226--11926368	73	2.0	73	90	0	223	22	21	28	27	1.99
11926686--11926717	4	7.8	4	93	6	55	71	0	3	25	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   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