genome.fa.s9634.2.7.7.80.10.50.1000.63.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: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  17174986

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   

This is table  63  of  78  ( 9351 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)
12617451--12617764	22	13.5	22	69	21	146	37	9	1	51	1.43
12617649--12617933	22	13.4	21	69	21	95	40	6	1	52	1.35
12617602--12617767	52	3.1	51	78	14	140	36	8	1	53	1.39
12617815--12617937	2	64.0	2	74	16	100	43	3	0	52	1.23
12617595--12617852	144	1.8	141	84	8	357	38	8	1	52	1.39
12619300--12619371	30	2.4	31	76	6	85	40	9	23	26	1.85
12619825--12619875	26	1.9	27	84	4	68	23	7	25	43	1.81
12620418--12620446	2	14.5	2	100	0	58	51	48	0	0	1.00
12621389--12621436	21	2.2	23	85	7	64	47	2	8	41	1.45
12621427--12621494	20	3.7	20	74	22	67	45	14	1	38	1.54
12621447--12621506	15	3.6	16	74	22	61	45	16	0	38	1.48
12621426--12621512	35	2.5	35	96	0	156	44	17	1	36	1.56
12621443--12621498	19	3.1	19	71	23	66	44	16	0	39	1.47
12621500--12622899	4	350.8	4	92	0	2079	45	24	4	25	1.73
12625494--12625645	49	3.2	46	76	11	130	34	16	5	42	1.72
12626048--12626166	24	5.0	24	88	4	177	40	20	15	23	1.91
12628282--12628318	17	2.2	17	95	0	65	29	32	27	10	1.90
12630351--12630417	35	1.9	35	93	0	116	34	26	28	10	1.90
12630496--12630619	24	5.2	24	85	2	142	41	16	12	29	1.86
12632758--12632805	24	2.0	24	100	0	96	33	29	25	12	1.92
12643481--12643943	41	11.3	41	81	3	432	29	15	17	36	1.92
12650841--12650869	11	2.6	11	100	0	58	89	10	0	0	0.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12657514--12657543	12	2.5	12	100	0	60	76	16	6	0	0.99
12660173--12660199	9	3.0	9	100	0	54	22	11	11	55	1.66
12662307--12662359	13	4.1	13	95	0	79	16	11	35	35	1.85
12671234--12671460	120	1.9	120	89	0	355	42	19	11	25	1.85
12671443--12671495	2	26.5	2	100	0	106	50	0	0	49	1.00
12671800--12671832	6	5.5	6	100	0	66	54	0	45	0	0.99
12681027--12681102	38	2.0	38	100	0	152	28	13	15	42	1.85
12688855--12688912	22	2.7	22	86	5	75	25	24	24	25	2.00
12689177--12689210	13	2.5	14	90	4	52	35	17	0	47	1.48
12693589--12693735	60	2.5	60	81	2	170	31	19	17	31	1.95
12693926--12694062	60	2.3	58	79	10	154	39	16	11	32	1.85
12701988--12702028	21	2.0	21	90	0	64	0	43	12	43	1.41
12702323--12702358	15	2.4	15	90	0	54	13	8	36	41	1.75
12703337--12703379	17	2.5	17	96	0	77	41	6	16	34	1.75
12706774--12707382	54	11.3	53	82	5	404	28	19	18	33	1.95
12706813--12707382	108	5.3	108	84	1	698	27	19	19	33	1.96
12706785--12707373	162	3.6	160	85	2	723	28	19	18	33	1.96
12713566--12714153	54	10.9	53	82	5	483	29	17	19	32	1.95
12713542--12714153	108	5.7	107	83	5	696	29	17	19	32	1.95
12713599--12714153	269	2.1	270	86	0	770	29	17	20	32	1.96
12720414--12720496	39	2.1	39	93	0	139	24	27	18	30	1.98
12725598--12725629	16	2.0	16	100	0	64	37	25	31	6	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12728823--12728868	16	2.8	16	80	12	58	63	17	0	19	1.32
12730801--12730855	23	2.5	22	85	5	76	32	18	21	27	1.96
12736866--12736901	18	2.1	17	90	10	56	38	5	8	47	1.57
12744876--12744914	20	2.0	20	84	0	51	43	12	10	33	1.77
12746346--12746393	22	2.2	20	79	13	51	75	6	2	16	1.11
12746971--12747013	21	2.0	22	86	4	61	48	18	13	18	1.80
12751651--12751689	15	2.4	16	87	8	53	35	0	25	38	1.56
12752404--12752820	182	2.3	183	89	0	640	42	12	17	27	1.85
12752741--12752787	20	2.4	19	79	10	58	53	8	19	19	1.70
12754508--12754856	184	1.9	184	93	1	610	36	13	15	34	1.87
12757556--12758554	180	5.5	182	95	1	1672	41	13	16	28	1.86
12757556--12759100	361	4.3	363	90	4	2455	41	13	16	28	1.86
12758383--12758717	162	2.1	163	93	1	575	42	12	15	29	1.84
12758022--12759080	527	2.0	523	94	1	1868	41	12	16	28	1.86
12758203--12759100	345	2.6	344	90	5	1372	41	12	16	28	1.85
12758545--12759100	182	3.0	182	96	0	988	42	12	17	27	1.86
12760632--12760810	21	8.6	21	73	11	136	20	18	25	35	1.96
12760632--12760831	42	4.8	40	84	2	211	21	19	23	36	1.95
12760657--12760826	84	2.0	82	89	2	259	21	18	23	37	1.94
12760718--12760831	21	5.4	21	73	15	101	23	19	20	36	1.95
12761572--12761614	16	2.7	16	100	0	86	41	6	20	30	1.79
12761616--12761710	21	4.6	21	75	5	95	32	24	21	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12761604--12761685	40	2.0	40	92	0	137	34	23	20	21	1.97
12761719--12761773	21	2.6	21	79	0	65	23	16	25	34	1.95
12761898--12761988	17	5.4	17	71	6	53	53	4	6	35	1.47
12761898--12761958	25	2.4	25	86	2	77	54	4	6	34	1.48
12761915--12761988	3	25.3	3	72	10	55	55	4	5	35	1.42
12761973--12762025	23	2.3	23	81	12	56	52	1	11	33	1.48
12769114--12769224	57	1.9	57	85	0	150	34	18	25	22	1.96
12773272--12773327	18	3.1	18	66	19	53	44	32	3	19	1.68
12773259--12773334	36	2.1	36	95	0	134	47	28	3	19	1.67
12775592--12775660	26	2.7	26	93	0	111	50	2	10	36	1.51
12777286--12777322	2	18.5	2	100	0	74	51	0	0	48	1.00
12777390--12777500	37	3.0	37	79	1	123	38	16	17	27	1.91
12788443--12788470	6	4.7	6	100	0	56	0	17	46	35	1.49
12789269--12789295	13	2.1	13	100	0	54	70	0	14	14	1.17
12792089--12792186	52	1.9	50	86	10	137	35	26	16	21	1.94
12797622--12797673	27	1.9	27	84	0	68	19	25	9	46	1.80
12801115--12801152	20	2.0	20	94	5	69	52	10	5	31	1.58
12806415--12806444	15	2.0	15	93	0	51	10	40	6	43	1.64
12816507--12816546	13	2.6	16	77	22	50	45	2	0	52	1.14
12816507--12816568	30	2.1	29	82	14	74	50	1	0	48	1.10
12817598--12817793	55	3.6	54	90	1	302	27	18	24	29	1.98
12818357--12818471	21	5.3	21	73	15	67	26	17	24	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12823296--12823439	55	2.6	55	86	0	216	29	20	22	27	1.98
12826709--12826743	18	2.0	18	88	5	54	34	22	20	22	1.97
12830120--12830200	35	2.3	35	93	0	135	27	17	19	35	1.94
12830155--12830278	55	2.3	55	92	0	203	26	20	23	29	1.98
12830873--12830942	22	3.2	22	80	9	72	27	22	21	28	1.99
12831683--12831714	16	2.0	16	93	0	55	46	25	15	12	1.81
12831786--12831815	3	9.7	3	92	7	51	30	3	0	66	1.07
12834011--12834040	14	2.1	14	100	0	60	30	13	20	36	1.90
12838691--12838724	12	2.7	13	86	9	52	41	5	8	44	1.60
12840462--12840500	20	1.9	20	89	5	60	35	5	2	56	1.35
12847350--12847433	3	29.3	3	80	9	95	63	2	2	32	1.20
12847349--12847433	28	2.8	30	77	15	86	63	2	2	31	1.20
12848594--12848700	42	2.6	41	79	5	126	32	21	20	25	1.97
12850463--12850511	11	4.4	11	87	12	73	0	16	0	83	0.64
12850460--12850511	8	6.5	8	80	6	52	0	17	0	82	0.66
12850459--12850511	24	2.2	24	93	6	90	0	16	0	83	0.66
12857608--12857685	3	27.3	3	82	10	101	64	1	1	33	1.10
12857609--12857686	25	3.1	26	83	10	108	62	1	1	34	1.11
12857607--12857685	28	2.7	29	82	13	99	64	1	1	32	1.09
12857744--12857780	12	3.0	13	84	11	51	54	13	0	32	1.40
12858870--12858930	31	2.0	31	86	0	86	24	19	26	29	1.99
12868079--12868183	44	2.3	45	80	11	108	34	18	14	33	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12870160--12870205	11	4.6	10	76	17	51	4	13	0	82	0.81
12870122--12870204	6	13.7	6	78	14	64	8	14	0	77	0.99
12870154--12870201	19	2.6	19	93	6	82	4	14	0	81	0.84
12872349--12872433	14	6.0	15	90	5	83	42	1	0	56	1.07
12872313--12872379	20	3.4	19	74	25	59	26	4	0	68	1.08
12872373--12872433	2	31.0	2	95	3	106	47	1	0	50	1.10
12872791--12872860	27	2.6	26	73	24	65	15	7	7	70	1.32
12876035--12876177	69	2.1	69	91	0	232	37	20	17	24	1.94
12877918--12878286	106	3.5	106	85	0	461	36	24	18	20	1.95
12879579--12879618	14	2.7	14	84	7	53	32	2	2	62	1.22

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