genome.fa.s9462.2.7.7.80.10.50.1000.22.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  22  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)
4408940--4408990	20	2.5	20	75	12	59	33	15	11	39	1.84
4409212--4409252	21	1.9	22	90	5	66	36	12	21	29	1.90
4413166--4413554	54	7.2	54	88	1	546	33	12	14	39	1.83
4413166--4413600	54	8.0	51	84	7	377	33	13	14	38	1.85
4414339--4414562	118	1.9	121	87	7	341	38	5	0	54	1.31
4414376--4414562	60	3.1	60	71	14	168	40	4	0	54	1.24
4414538--4414601	31	2.1	31	82	5	76	39	7	1	51	1.40
4414662--4414749	29	2.9	30	79	5	97	48	2	9	39	1.47
4414664--4414729	30	2.2	30	83	2	80	56	1	7	34	1.37
4425066--4425153	24	3.7	24	83	3	106	48	15	14	20	1.80
4425061--4425130	12	5.8	12	74	12	63	51	17	15	15	1.77
4425059--4425167	48	2.3	48	85	6	141	48	15	16	19	1.81
4433996--4434112	22	5.2	22	82	6	137	51	0	4	44	1.21
4434008--4434159	22	6.8	22	75	15	116	50	0	4	44	1.22
4434135--4434198	29	2.3	26	80	15	67	50	3	3	43	1.33
4434201--4434226	3	8.7	3	100	0	52	30	0	0	69	0.89
4434204--4434246	15	3.1	14	87	9	54	25	0	0	74	0.82
4439061--4439143	24	3.4	24	90	6	123	37	21	15	25	1.93
4440977--4441002	12	2.2	12	100	0	52	34	7	23	34	1.83
4454040--4454099	20	2.9	21	75	14	61	41	5	11	41	1.63
4454061--4454201	21	5.9	23	70	18	60	43	3	8	43	1.52
4454106--4454181	29	2.7	27	81	16	93	47	5	6	40	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4454157--4454207	21	2.5	20	87	6	66	47	1	5	45	1.38
4458984--4459021	18	2.2	17	86	9	51	44	2	21	31	1.66
4459880--4459963	38	2.2	38	93	6	145	36	39	11	11	1.79
4460106--4460186	38	2.2	37	88	2	117	38	38	9	13	1.78
4459755--4460217	228	2.1	225	93	2	788	36	29	11	22	1.89
4459795--4460217	223	1.9	224	92	3	627	35	30	11	22	1.90
4463110--4463197	31	2.8	32	80	10	103	48	3	2	45	1.31
4476605--4476639	13	2.7	13	86	0	52	11	28	0	60	1.32
4481742--4481787	15	2.9	16	75	15	51	19	8	6	65	1.43
4493471--4493508	17	2.2	18	90	4	60	15	39	2	42	1.61
4495361--4495396	19	1.9	18	88	5	54	30	2	16	50	1.60
4495753--4495878	24	5.6	22	74	14	73	29	20	23	26	1.99
4495805--4495863	24	2.5	24	91	0	91	35	22	20	22	1.96
4506781--4506905	56	2.2	57	80	5	139	29	20	16	33	1.95
4515055--4515403	46	7.6	46	90	0	540	22	22	14	40	1.90
4515403--4515552	81	1.9	81	84	5	205	30	22	12	34	1.91
4515960--4516015	22	2.6	22	80	5	71	25	21	16	37	1.93
4523239--4523273	18	1.9	18	88	0	52	40	25	22	11	1.88
4531937--4531962	13	2.0	13	100	0	52	0	30	0	69	0.89
4531998--4532026	11	2.7	11	94	5	51	0	17	0	82	0.66
4532047--4532837	238	3.1	256	80	10	989	34	16	16	32	1.91
4532380--4532482	42	2.5	41	80	3	125	33	21	21	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4532597--4532719	42	3.0	41	81	2	138	32	21	21	24	1.98
4539360--4539392	11	3.1	11	86	4	50	33	0	3	63	1.10
4543231--4543259	2	14.5	2	100	0	58	48	0	0	51	1.00
4548385--4548629	128	1.9	127	85	0	337	33	12	15	38	1.85
4550157--4550203	19	2.6	17	78	21	51	29	17	27	25	1.97
4550112--4550253	64	2.2	64	82	6	171	28	16	23	30	1.96
4559881--4559960	31	2.6	31	91	0	124	31	35	2	31	1.71
4567917--4567960	19	2.4	19	81	11	56	29	15	29	25	1.96
4569344--4569381	2	19.0	2	100	0	76	50	0	0	50	1.00
4570419--4570464	24	1.9	24	100	0	92	41	15	13	30	1.85
4574494--4574542	15	3.3	15	76	0	53	69	0	0	30	0.89
4574493--4574552	30	2.0	30	86	0	84	70	1	0	28	0.97
4574992--4575038	24	1.9	24	86	4	67	59	0	2	38	1.09
4575018--4575064	21	2.3	20	75	17	53	70	0	0	29	0.88
4575807--4575861	28	2.0	28	85	0	74	29	23	14	32	1.94
4578653--4578704	20	2.8	17	76	18	59	38	1	3	55	1.29
4578657--4578695	20	1.9	21	89	5	62	38	0	5	56	1.22
4585388--4585449	21	3.0	20	79	9	72	56	3	1	38	1.25
4597814--4597866	27	2.0	27	85	7	72	32	13	16	37	1.88
4603985--4604043	25	2.4	25	80	8	77	55	0	5	38	1.22
4604275--4604339	18	3.7	18	76	11	64	38	6	26	29	1.80
4604917--4604977	28	2.2	28	96	0	113	47	32	6	13	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4604917--4604985	28	2.5	28	92	0	102	47	31	7	13	1.69
4605283--4605314	5	6.4	5	100	0	64	59	0	0	40	0.97
4606994--4607054	13	4.5	13	72	13	52	18	26	24	31	1.97
4606975--4607035	32	1.9	32	86	6	88	16	26	26	31	1.96
4608203--4608326	12	10.5	11	68	20	65	72	0	7	19	1.12
4608231--4608260	15	1.9	16	93	6	53	83	3	0	13	0.77
4608230--4608303	37	1.9	40	89	8	118	74	1	9	14	1.13
4608270--4608319	17	2.9	17	80	16	59	76	0	4	20	0.95
4608268--4608325	17	3.4	17	77	13	57	75	0	3	20	0.94
4608368--4608410	18	2.4	18	92	0	68	72	0	6	20	1.08
4610739--4610776	14	2.7	14	84	8	51	65	0	7	26	1.19
4610884--4610951	28	2.5	28	86	11	97	75	1	2	20	1.02
4610884--4610969	28	3.2	26	76	16	68	72	1	5	20	1.13
4610991--4611036	18	2.5	18	86	10	58	67	2	4	26	1.21
4616177--4616239	30	2.1	30	90	0	99	26	23	19	30	1.98
4620693--4620755	30	2.1	30	93	0	108	26	25	19	28	1.98
4624087--4624236	52	2.9	50	75	7	140	54	13	13	18	1.70
4625513--4625541	3	9.7	3	100	0	58	65	0	0	34	0.93
4625880--4625904	12	2.1	12	100	0	50	36	8	8	48	1.62
4626104--4626173	22	3.3	22	74	8	81	34	25	17	22	1.96
4626116--4626186	20	3.5	20	70	11	54	32	23	21	22	1.98
4626058--4626193	42	3.3	42	81	7	154	30	22	20	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4626199--4626352	59	2.6	59	92	1	254	27	13	28	30	1.94
4626374--4626487	42	2.7	41	78	4	129	29	21	21	28	1.98
4626538--4626757	52	4.1	53	78	7	203	41	16	10	31	1.82
4626898--4627027	38	3.5	37	71	16	115	43	7	18	30	1.78
4626842--4627126	153	1.9	155	82	5	364	42	8	17	31	1.79
4626841--4627174	77	4.4	76	83	4	361	41	8	17	32	1.80
4627145--4627303	65	2.4	67	85	6	227	36	11	18	32	1.88
4627462--4627796	37	9.6	36	66	19	131	42	10	17	29	1.83
4627462--4627573	35	3.1	37	83	7	131	44	9	17	27	1.80
4627359--4627666	138	2.2	137	83	5	388	39	11	18	30	1.86
4627499--4628416	101	8.7	103	74	12	742	39	10	17	32	1.83
4627701--4627815	38	3.1	37	81	7	106	41	9	17	31	1.81
4628145--4628317	37	4.9	37	70	21	129	45	8	16	30	1.76
4628259--4628381	64	1.9	64	80	8	144	43	6	17	31	1.75
4628341--4628413	37	1.9	39	89	8	116	39	6	19	34	1.78
4628347--4628460	38	3.0	39	81	10	119	39	9	17	33	1.82
4629826--4629856	2	15.5	2	100	0	62	48	0	0	51	1.00
4633706--4633735	2	15.0	2	100	0	60	50	0	0	50	1.00
4635204--4635237	3	11.3	3	93	0	59	61	0	0	38	0.96
4639066--4639144	41	1.9	41	97	0	149	25	5	22	46	1.72
4640773--4640843	31	2.3	31	77	0	79	43	14	7	35	1.72
4641773--4641831	31	1.9	31	85	0	82	23	8	15	52	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4641921--4641978	13	4.5	13	77	10	57	53	1	0	44	1.10
4641921--4642042	27	4.4	27	70	19	83	50	3	0	46	1.17
4642062--4642097	18	1.9	19	88	5	56	41	0	2	55	1.14
4642065--4642119	23	2.5	22	82	11	69	41	0	5	52	1.24
4646462--4646499	18	2.1	18	90	0	58	52	2	7	36	1.45
4646712--4646741	2	15.0	2	100	0	60	50	0	0	50	1.00
4646784--4646808	13	1.9	13	100	0	50	48	16	0	36	1.46
4647735--4647819	37	2.3	37	86	6	120	42	20	4	32	1.72
4651654--4651714	3	20.0	3	76	3	59	44	0	0	55	0.99
4651647--4651702	6	9.3	6	90	0	76	46	0	0	53	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