genome.fa.s9462.2.7.7.80.10.50.1000.27.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  27  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)
5505895--5505942	19	2.5	20	82	3	62	31	10	6	52	1.60
5507152--5507193	21	2.0	21	86	9	59	21	23	21	33	1.97
5507224--5507312	20	4.8	19	82	10	98	20	20	38	21	1.94
5507450--5507507	30	2.0	29	86	10	82	44	15	5	34	1.69
5507450--5507508	29	2.0	30	90	6	93	44	15	5	35	1.68
5508917--5509034	39	3.0	39	86	4	166	37	22	13	26	1.92
5512881--5512905	12	2.1	12	100	0	50	36	0	8	56	1.29
5513448--5513532	29	3.0	28	84	5	91	43	4	4	47	1.45
5520916--5520975	2	30.5	2	83	9	79	50	0	3	46	1.18
5521535--5521576	20	2.2	19	86	4	57	64	2	0	33	1.07
5521448--5521681	120	2.0	120	82	5	287	46	8	7	37	1.63
5523088--5523140	3	17.7	3	77	14	56	62	0	0	37	0.96
5523090--5523137	10	4.9	10	82	12	64	62	0	0	37	0.95
5523093--5523143	25	2.0	25	85	7	68	60	0	0	39	0.97
5525629--5525663	8	4.4	8	88	0	52	51	11	0	37	1.38
5525840--5525874	2	17.5	2	100	0	70	51	0	0	48	1.00
5526255--5526296	22	2.0	21	86	13	59	64	7	0	28	1.20
5528249--5528310	24	2.4	25	76	13	63	54	0	0	45	0.99
5528263--5528296	17	1.9	18	88	5	52	61	0	0	38	0.96
5528536--5528665	38	3.6	37	74	15	123	37	18	21	22	1.94
5529460--5529521	12	4.8	13	79	16	76	43	0	0	56	0.99
5529459--5529509	3	17.0	3	83	0	66	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5531037--5531273	126	1.9	126	83	4	300	38	8	10	43	1.69
5534242--5534291	22	2.3	22	89	3	75	18	16	10	56	1.67
5534242--5534292	7	7.1	7	80	10	59	17	15	9	56	1.65
5538495--5538831	114	3.0	114	94	0	557	32	15	21	30	1.94
5539930--5540096	75	2.2	75	82	6	212	29	13	23	32	1.93
5541386--5541464	22	3.5	23	86	6	108	32	11	12	43	1.79
5541978--5542303	165	2.0	167	89	4	507	35	14	11	38	1.82
5542306--5543091	76	10.4	75	95	1	1365	23	19	22	35	1.96
5542306--5543091	151	5.2	151	95	0	1421	23	19	22	35	1.96
5543242--5543341	12	8.8	12	81	13	90	42	0	0	58	0.98
5543240--5543341	15	6.6	16	78	16	117	41	0	0	58	0.98
5543240--5543329	3	30.0	3	86	0	126	40	0	0	60	0.97
5545022--5545256	111	2.1	111	84	3	285	38	10	9	41	1.72
5547845--5547869	2	12.5	2	100	0	50	48	0	0	52	1.00
5566453--5566544	27	3.4	27	95	0	166	39	14	21	25	1.91
5571409--5571434	9	2.9	9	100	0	52	0	11	69	19	1.18
5572888--5572941	20	2.6	21	82	2	65	27	25	11	35	1.90
5578093--5578149	24	2.4	24	96	0	105	24	35	14	26	1.93
5579946--5579985	17	2.4	17	86	0	53	17	22	30	30	1.97
5582408--5582522	24	4.8	24	86	4	133	26	13	18	41	1.88
5587201--5587315	24	4.8	24	86	4	133	26	13	18	41	1.88
5587278--5587332	24	2.3	24	83	0	65	30	9	18	41	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5589390--5589438	22	2.2	23	85	10	66	20	2	26	51	1.59
5591972--5592136	48	3.4	48	91	2	242	26	13	17	41	1.87
5591974--5592136	72	2.3	72	81	8	197	26	14	17	41	1.88
5591974--5592136	24	6.8	24	80	5	177	26	14	17	41	1.88
5595724--5595866	3	47.7	3	88	0	214	34	3	0	62	1.12
5597305--5597346	21	2.0	22	86	13	61	35	0	2	61	1.09
5608659--5608738	5	16.6	5	73	21	73	80	0	17	2	0.83
5608657--5608738	33	2.5	32	86	9	103	80	0	17	2	0.82
5608654--5608739	28	3.1	28	83	11	106	79	0	18	2	0.85
5608672--5608739	14	4.9	14	79	18	61	77	0	19	2	0.89
5609856--5610278	82	5.2	81	88	4	629	29	12	21	36	1.90
5609856--5610278	165	2.6	161	95	2	733	29	12	21	36	1.90
5610891--5611536	113	5.8	113	89	1	980	38	13	20	28	1.90
5610891--5611538	336	1.9	337	92	2	1088	38	13	20	28	1.90
5611787--5611925	3	47.3	3	80	4	158	34	5	0	60	1.19
5613357--5613397	20	2.0	20	86	13	57	36	0	2	60	1.10
5613315--5613389	38	2.0	36	82	14	91	28	0	5	66	1.13
5622054--5622131	32	2.5	33	85	10	101	30	0	5	64	1.15
5622300--5622353	17	3.2	17	72	0	54	31	0	3	64	1.11
5623871--5623918	21	2.3	21	85	0	60	25	39	12	22	1.89
5623922--5624015	21	4.5	21	90	5	120	18	34	26	21	1.96
5624524--5624625	32	3.1	34	84	8	138	54	4	2	37	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5625011--5626007	127	7.9	128	94	4	1791	32	19	25	22	1.98
5625011--5626007	371	2.6	378	95	3	1768	32	19	25	22	1.98
5632268--5632298	10	3.1	10	95	0	53	58	0	41	0	0.98
5633979--5634019	17	2.4	16	84	11	55	39	0	4	56	1.21
5634011--5634062	2	26.0	2	100	0	104	50	0	0	50	1.00
5634221--5634264	20	2.3	19	84	7	54	45	6	25	22	1.77
5634415--5634487	36	2.0	36	84	10	96	49	4	0	46	1.21
5635133--5635205	38	1.9	38	83	5	94	47	1	2	47	1.24
5635337--5635373	16	2.3	16	100	0	74	21	27	8	43	1.80
5638910--5638943	3	11.3	3	93	0	59	64	2	0	32	1.08
5642073--5643279	5	249.6	5	84	11	1605	61	20	1	16	1.40
5644337--5644388	20	2.6	19	79	8	59	32	15	28	23	1.95
5645873--5645907	18	1.9	18	94	0	61	20	20	34	25	1.96
5646954--5647086	55	2.4	55	82	5	151	39	10	18	32	1.84
5647265--5647454	68	2.8	68	91	1	301	28	15	27	27	1.96
5647591--5647976	45	8.6	45	87	0	520	35	11	23	29	1.90
5649452--5649512	2	31.0	2	96	3	115	50	0	0	49	1.00
5651628--5651683	20	2.8	19	78	7	67	32	16	28	23	1.96
5652412--5652601	68	2.8	68	87	0	263	30	15	25	27	1.96
5652554--5652704	81	1.9	81	85	0	212	35	12	23	28	1.92
5652739--5653169	45	9.6	45	88	0	583	36	11	23	28	1.90
5653240--5653265	13	2.0	13	100	0	52	76	0	7	15	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5662147--5662186	21	1.9	21	85	10	55	35	10	2	52	1.48
5666313--5666368	20	2.8	19	81	7	67	32	16	28	23	1.96
5666794--5666917	55	2.3	55	81	5	135	36	8	21	33	1.85
5667101--5667288	68	2.8	68	90	0	286	29	15	26	29	1.96
5667243--5667391	81	1.8	81	88	2	228	34	11	24	30	1.90
5667245--5667411	81	2.1	81	80	4	185	35	11	22	29	1.90
5667427--5667742	45	7.0	45	87	0	425	35	11	24	28	1.91
5668803--5668858	3	18.7	3	100	0	112	66	0	0	33	0.92
5669559--5669590	15	2.1	16	94	5	57	31	0	9	59	1.29
5670179--5670209	4	7.8	4	100	0	62	22	0	0	77	0.77
5670711--5670767	28	2.0	28	96	0	105	40	22	14	22	1.90
5671313--5671353	22	2.0	22	90	9	68	46	0	2	51	1.14
5674498--5674540	16	2.6	16	82	14	52	62	18	0	18	1.32
5676965--5676998	16	2.1	17	89	10	54	29	0	29	41	1.57
5687269--5687322	18	2.9	18	71	15	56	51	9	18	20	1.73
5689244--5689315	36	2.0	36	91	0	117	22	22	26	29	1.99
5691418--5691445	14	2.0	14	100	0	56	50	14	21	14	1.78
5695438--5695469	16	2.0	16	100	0	64	31	12	25	31	1.92
5696563--5696727	81	2.0	81	83	2	206	26	6	34	32	1.81
5700244--5700319	36	2.1	37	92	2	127	36	25	11	26	1.90
5705440--5705531	48	1.9	48	100	0	184	29	11	20	38	1.89
5713776--5713836	23	2.7	23	87	2	88	22	32	24	19	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5715991--5716020	2	15.0	2	92	0	51	46	0	0	53	1.00
5720778--5720833	19	3.0	19	97	2	105	10	46	5	37	1.62
5732462--5732522	23	2.7	22	92	2	95	22	32	26	18	1.97
5732462--5732542	23	3.7	22	83	4	65	23	34	25	16	1.95
5739451--5739508	19	3.1	19	94	0	98	12	46	3	37	1.58
5749203--5749238	2	18.0	2	100	0	72	50	0	0	50	1.00
5755515--5755550	18	2.0	18	100	0	72	27	22	11	38	1.88
5768610--5768665	26	2.2	26	100	0	112	33	19	10	35	1.87
5768868--5769087	110	2.0	111	90	2	354	24	10	17	48	1.78
5775650--5775720	35	2.0	35	84	10	92	36	14	18	30	1.90

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