genome.fa.s9462.2.7.7.80.10.50.1000.55.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  55  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)
12531534--12531594	22	2.6	24	76	12	72	44	0	0	55	0.99
12540974--12541003	16	1.9	15	93	6	51	73	3	0	23	0.98
12541460--12541527	31	2.2	30	84	5	91	25	27	11	35	1.91
12543497--12543562	31	2.2	31	94	2	116	36	15	27	21	1.93
12544791--12544851	31	2.0	31	87	6	88	24	19	13	42	1.87
12545391--12545457	31	2.2	31	88	0	98	25	28	11	34	1.91
12545717--12545761	2	23.0	2	95	4	83	48	0	0	51	1.00
12548191--12548319	59	2.2	59	83	2	152	28	17	24	28	1.98
12548408--12548651	44	5.5	44	91	0	389	38	6	22	31	1.79
12548408--12548651	88	2.8	88	96	0	443	38	6	22	31	1.79
12548957--12548999	22	1.9	23	90	4	70	23	16	20	39	1.92
12548960--12549008	22	2.2	23	81	3	55	24	18	16	40	1.90
12558396--12558438	21	2.0	21	81	0	50	16	23	27	32	1.96
12575533--12575988	131	3.4	131	79	6	398	33	21	14	30	1.93
12575533--12576046	131	3.8	133	74	8	292	34	21	14	30	1.93
12576118--12577614	134	11.2	134	83	3	1538	33	22	14	28	1.94
12576118--12577606	269	5.6	265	80	5	1439	33	22	14	28	1.94
12577754--12577781	14	2.0	14	100	0	56	28	0	0	71	0.86
12580747--12580782	18	2.0	18	88	0	54	52	0	16	30	1.44
12586146--12586181	18	2.0	18	88	0	54	52	0	16	30	1.44
12601669--12602089	208	2.0	207	94	0	734	39	16	15	28	1.89
12610924--12610957	17	1.9	18	88	5	52	47	14	20	17	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12611711--12611749	19	2.1	19	85	9	53	43	2	5	48	1.38
12622013--12622058	20	2.3	20	100	0	92	28	15	23	32	1.95
12628817--12628883	34	2.0	34	85	2	91	59	1	0	38	1.06
12628864--12628943	29	2.8	28	84	3	97	43	3	11	41	1.58
12628988--12629055	26	2.5	28	80	4	86	45	14	2	36	1.60
12628997--12629048	28	1.9	26	84	7	68	38	17	1	42	1.60
12629372--12629430	29	2.0	29	100	0	118	32	30	6	30	1.83
12630095--12630122	3	9.3	3	100	0	56	32	0	0	67	0.91
12631685--12631725	2	20.5	2	94	0	73	51	0	0	48	1.00
12634782--12634830	15	3.5	15	81	18	61	18	8	8	65	1.44
12634781--12634830	13	3.6	14	81	8	66	20	8	8	64	1.46
12637096--12637144	15	2.9	17	85	11	66	75	0	22	2	0.90
12637107--12637144	10	3.6	10	89	10	58	76	0	23	0	0.79
12637116--12637152	18	1.9	19	89	10	58	75	0	24	0	0.80
12640684--12640738	20	2.7	20	91	5	83	36	14	14	34	1.87
12641443--12641691	45	5.5	45	87	2	356	26	19	20	32	1.97
12641372--12641524	76	2.0	75	82	5	182	28	20	18	33	1.96
12641633--12641892	76	3.5	75	82	8	314	29	19	18	32	1.96
12642201--12642263	3	21.0	3	75	12	58	38	0	1	60	1.07
12642208--12642257	21	2.4	21	86	3	66	38	0	2	60	1.09
12645008--12645059	21	2.5	21	93	0	86	7	19	0	73	1.07
12647715--12647744	14	2.2	13	94	5	51	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12654398--12654578	90	2.0	90	92	0	299	37	9	6	46	1.64
12658603--12658869	20	13.2	20	81	7	281	33	23	8	34	1.85
12658594--12658869	60	4.6	60	82	4	313	33	22	9	34	1.86
12658598--12658869	40	6.8	40	90	1	312	33	22	8	35	1.85
12659096--12659316	20	10.9	20	81	5	248	30	25	10	33	1.89
12659096--12659325	41	5.7	41	81	4	270	30	25	11	33	1.91
12659098--12659325	61	3.7	62	83	5	286	30	25	10	33	1.90
12658371--12659313	502	1.9	502	94	0	1679	32	18	14	33	1.91
12660391--12660569	90	2.0	89	92	1	295	44	6	12	36	1.68
12667239--12667403	90	1.8	89	92	1	276	44	7	10	36	1.67
12672261--12672302	22	1.9	22	85	9	59	11	33	0	54	1.37
12672571--12672709	42	3.0	48	79	11	132	30	26	8	34	1.86
12672634--12672688	26	2.1	26	82	3	65	32	25	7	34	1.83
12672505--12672846	41	8.2	39	78	11	256	30	24	10	34	1.89
12672505--12672846	20	16.4	21	75	11	303	30	24	10	34	1.89
12674872--12674910	10	3.9	10	83	12	53	64	7	17	10	1.48
12676963--12676992	15	1.9	16	93	6	53	30	0	23	46	1.52
12680794--12680964	20	7.7	20	78	15	126	40	9	26	22	1.85
12680834--12680944	26	4.5	26	75	13	126	42	9	25	23	1.83
12680814--12680918	46	2.3	46	89	0	165	40	9	27	21	1.84
12680765--12680975	72	3.0	71	86	5	290	42	10	23	24	1.85
12680761--12680977	46	4.7	46	72	20	136	41	10	22	24	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12687546--12687971	26	18.2	25	64	27	149	43	10	21	24	1.84
12687531--12687669	46	3.0	46	88	8	203	44	12	18	23	1.85
12687584--12688003	72	6.0	72	69	20	255	43	10	21	24	1.84
12687656--12688003	46	7.6	46	90	0	507	42	10	22	24	1.85
12689026--12689052	14	1.9	14	100	0	54	59	3	7	29	1.42
12689877--12689940	24	2.7	24	97	0	119	42	12	20	25	1.87
12689866--12689976	24	4.7	24	84	9	95	42	16	17	24	1.88
12691201--12691857	81	8.1	80	85	2	805	30	21	11	36	1.89
12692593--12692642	20	2.5	20	100	0	100	26	32	16	26	1.96
12701265--12701340	40	1.9	40	86	0	107	32	17	21	28	1.95
12702010--12702041	16	2.0	16	100	0	64	62	37	0	0	0.95
12709290--12709717	188	2.3	188	85	1	563	34	21	16	27	1.95
12709129--12710292	620	1.9	620	85	4	1623	34	20	14	30	1.92
12713692--12714092	148	2.7	147	87	4	545	45	12	8	33	1.72
12714325--12714463	60	2.3	61	83	6	176	33	19	5	41	1.73
12714863--12715893	525	2.0	517	83	6	1281	36	12	9	41	1.76
12716582--12716730	75	2.0	75	98	0	289	20	34	11	33	1.89
12722642--12722717	36	2.1	36	85	7	100	47	1	3	47	1.29
12722865--12722902	20	1.9	20	88	0	58	21	26	10	42	1.85
12725010--12725060	13	3.9	13	81	0	66	35	1	33	29	1.69
12725008--12725060	6	8.3	6	76	12	52	33	1	33	30	1.69
12726457--12726511	20	2.7	21	82	2	58	32	21	16	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12730992--12731042	13	3.9	13	76	0	57	37	1	31	29	1.69
12742684--12742733	25	2.0	25	81	14	59	8	32	0	60	1.26
12744489--12744557	20	3.5	20	85	0	102	26	8	15	49	1.74
12744492--12744577	40	2.2	40	87	4	120	31	9	12	46	1.74
12748436--12748468	8	4.2	8	84	7	50	54	0	0	45	0.99
12756955--12756991	19	1.9	19	94	0	65	18	2	32	45	1.64
12757299--12758020	199	3.6	198	86	3	943	31	15	14	39	1.87
12760748--12760814	19	3.5	19	93	0	107	52	10	4	32	1.56
12762445--12762484	21	1.9	21	85	10	55	47	10	12	30	1.74
12762454--12763008	199	2.8	198	89	1	826	31	15	14	38	1.87
12763118--12763148	15	2.1	15	100	0	62	25	6	19	48	1.72
12764570--12764606	18	2.1	18	89	0	56	54	8	5	32	1.53
12765999--12766039	3	13.7	3	84	0	55	26	31	2	39	1.70
12767540--12768807	201	6.5	197	80	9	1296	31	15	14	38	1.87
12769098--12769142	19	2.3	20	88	11	76	51	8	4	35	1.54
12771072--12771114	15	2.9	15	82	3	61	18	53	2	25	1.56
12773461--12774187	182	4.0	183	90	1	1091	26	17	14	42	1.86
12779533--12779574	20	2.0	22	86	9	61	59	4	19	16	1.54
12781614--12781660	11	4.3	11	91	0	76	70	0	10	19	1.16
12782848--12783185	169	2.0	169	97	0	631	28	22	16	32	1.95
12784597--12784705	10	9.9	10	71	16	65	76	2	5	15	1.09
12784595--12784704	45	2.4	46	83	8	129	76	2	5	15	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12784634--12784732	40	2.5	40	82	11	130	73	2	7	17	1.14
12784635--12784704	5	12.8	5	73	19	52	78	2	4	14	1.02
12784773--12784815	18	2.4	18	92	0	68	72	0	6	20	1.08
12786272--12786697	167	2.5	168	87	1	602	21	21	25	31	1.98
12786249--12786701	86	5.3	86	86	2	610	22	21	24	30	1.99
12787277--12787315	15	2.6	15	95	0	69	33	12	25	28	1.93
12791665--12791783	64	1.9	63	81	8	143	66	1	8	23	1.28
12791906--12791949	18	2.4	18	88	3	61	72	0	6	20	1.07
12800244--12800281	20	1.9	20	88	0	58	26	34	26	13	1.93
12804638--12804696	17	3.6	17	68	21	54	61	5	0	33	1.18

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