genome.fa.s1129.2.7.7.80.10.50.1000.63.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: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  21326069

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   

This is table  63  of  89  ( 10573 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)
14708318--14708371	6	9.0	6	76	15	58	0	18	3	77	0.91
14708318--14708371	19	3.0	17	82	17	65	0	18	3	77	0.91
14710880--14710933	23	2.2	25	83	6	67	61	14	16	7	1.55
14710889--14710939	25	2.1	23	82	7	57	60	13	19	5	1.53
14713998--14714049	21	2.6	21	90	6	81	34	13	5	46	1.67
14714835--14714886	19	2.6	21	90	6	81	46	5	11	36	1.64
14717155--14717189	10	3.4	10	88	7	52	0	14	0	85	0.59
14717893--14717944	21	2.6	21	84	6	72	46	7	11	34	1.69
14719975--14720024	24	2.1	24	81	7	57	36	12	24	28	1.91
14725515--14725563	6	8.2	6	88	11	66	0	20	0	79	0.73
14725515--14725558	19	2.5	18	86	13	65	0	20	0	79	0.73
14725515--14725564	22	2.0	24	82	17	59	0	20	0	80	0.72
14729551--14729589	19	2.1	19	95	0	69	43	5	15	35	1.69
14729601--14729625	11	2.3	11	100	0	50	28	16	36	20	1.93
14732844--14732900	19	2.9	19	71	23	55	1	21	1	75	0.98
14732829--14732900	33	2.2	32	83	13	94	2	18	4	75	1.09
14732843--14732905	27	2.3	27	74	17	67	1	20	1	76	0.96
14733623--14733674	19	2.6	21	87	6	72	42	7	15	34	1.75
14735554--14735590	6	6.2	6	87	12	58	0	18	0	81	0.70
14736381--14736423	19	2.2	20	87	4	61	48	6	9	34	1.62
14740757--14741126	186	2.0	183	93	1	623	32	14	24	28	1.94
14742448--14742818	186	2.0	185	94	0	643	32	13	24	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14750256--14750302	21	2.3	20	82	10	60	38	12	6	42	1.69
14751019--14751077	19	3.0	20	74	20	61	74	3	20	1	1.05
14754275--14754326	21	2.6	21	90	6	81	34	13	5	46	1.67
14756774--14756821	16	2.9	16	84	6	51	62	0	20	16	1.33
14757024--14757060	13	2.9	12	88	11	56	0	13	5	81	0.86
14757024--14757059	12	2.9	13	92	8	58	0	13	5	80	0.88
14761648--14761700	25	2.2	24	83	10	63	3	15	1	79	0.96
14762837--14763075	119	2.0	120	99	0	471	19	29	15	35	1.92
14764961--14765000	19	2.0	20	95	4	73	22	15	0	62	1.32
14765287--14765311	8	3.1	8	100	0	50	76	0	24	0	0.80
14767444--14767489	19	2.3	21	88	7	69	36	13	6	43	1.69
14767444--14767497	21	2.7	19	88	5	72	35	14	5	44	1.69
14767898--14767939	19	2.2	19	91	8	68	26	14	0	59	1.35
14769196--14769250	25	2.2	25	100	0	110	50	0	30	18	1.47
14772953--14772992	19	2.0	20	90	4	64	20	15	0	65	1.28
14773864--14773906	19	2.2	20	87	4	61	48	6	9	34	1.62
14776404--14776461	30	1.9	30	100	0	116	34	13	15	36	1.87
14776894--14776941	18	2.7	18	81	9	53	66	0	25	8	1.19
14777162--14777216	6	9.0	6	75	18	51	0	16	3	80	0.86
14777162--14777210	26	1.9	25	84	12	64	0	16	2	81	0.78
14777167--14777206	20	2.0	21	85	14	57	0	17	2	80	0.83
14777172--14777209	13	2.7	14	88	8	51	0	15	2	81	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14779002--14779041	14	2.9	14	92	3	64	32	0	45	22	1.53
14779374--14779416	19	2.2	20	87	4	61	48	6	9	34	1.62
14780071--14780418	170	2.0	177	95	4	638	37	18	13	31	1.89
14782237--14782282	22	2.1	22	84	11	60	43	34	4	17	1.69
14792464--14792509	20	2.2	22	88	7	69	82	10	6	0	0.83
14811236--14811551	158	2.0	158	100	0	632	31	16	20	31	1.95
14823186--14823238	27	2.0	27	96	0	97	28	32	18	20	1.97
14837763--14837811	2	24.5	2	100	0	98	51	0	0	48	1.00
14839633--14839677	16	2.9	15	83	6	54	4	15	6	73	1.21
14839821--14840113	144	2.0	144	92	0	480	37	14	21	25	1.92
14848147--14848195	11	4.2	11	78	21	55	34	36	2	26	1.68
14848135--14848212	35	2.2	36	88	2	113	32	37	2	28	1.71
14848824--14848880	16	3.5	15	79	11	51	17	17	0	64	1.29
14860089--14860389	148	2.0	149	99	0	595	36	13	24	24	1.92
14866903--14866927	2	12.5	2	100	0	50	52	0	0	48	1.00
14869111--14869157	19	2.4	20	89	3	69	51	6	8	34	1.58
14874471--14874511	20	2.0	20	100	0	82	29	14	26	29	1.95
14878389--14878424	15	2.3	15	85	4	54	50	0	33	16	1.46
14878893--14878933	20	2.0	20	100	0	82	29	14	26	29	1.95
14882851--14882886	15	2.3	15	85	4	54	50	0	33	16	1.46
14883355--14883395	20	2.0	20	100	0	82	29	14	26	29	1.95
14887313--14887348	15	2.3	15	85	4	54	50	0	33	16	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14887817--14887857	20	2.0	20	100	0	82	29	14	26	29	1.95
14891777--14891812	15	2.3	15	85	4	54	50	0	33	16	1.46
14892281--14892321	20	2.0	20	100	0	82	29	14	26	29	1.95
14896246--14896281	15	2.3	15	85	4	54	50	0	33	16	1.46
14897446--14897489	22	2.0	22	100	0	88	9	27	13	50	1.72
14903498--14903529	15	2.1	15	94	0	55	68	0	21	9	1.17
14904497--14904539	19	2.2	20	87	4	61	48	6	9	34	1.62
14908728--14908781	23	2.2	25	87	6	76	11	14	12	61	1.58
14910459--14910512	20	2.7	20	83	13	67	79	0	14	5	0.90
14910457--14910516	25	2.4	25	80	5	68	78	0	16	5	0.92
14915805--14915839	6	5.7	6	86	6	52	0	14	2	82	0.77
14915805--14915839	13	2.8	12	87	8	52	0	14	2	82	0.77
14916231--14916339	35	3.1	35	79	10	116	33	4	36	25	1.77
14924955--14924994	19	2.0	20	95	4	73	62	0	15	22	1.32
14927061--14927472	208	2.0	203	97	2	779	34	19	17	28	1.94
14929447--14929490	20	2.1	21	88	12	65	2	18	0	79	0.83
14929461--14929492	13	2.6	13	90	9	50	0	18	0	81	0.70
14933200--14933293	24	3.9	24	95	0	170	19	12	36	31	1.89
14933973--14934069	42	2.3	42	100	0	194	42	6	21	29	1.77
14936204--14936237	10	3.3	10	88	8	50	0	20	0	79	0.73
14936225--14936278	24	2.2	25	90	6	85	11	16	12	59	1.61
14950447--14950500	19	2.7	19	85	5	63	40	5	14	38	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14951396--14951455	30	2.0	31	83	3	77	53	10	10	26	1.66
14953823--14953861	13	2.9	13	88	3	51	2	17	2	76	1.01
14954594--14954644	19	2.6	20	90	3	77	43	5	15	35	1.71
14955556--14955615	30	2.0	31	83	3	77	55	10	8	26	1.61
14958140--14958186	24	2.0	24	86	0	67	53	19	12	14	1.73
14961446--14961485	19	2.0	20	90	4	64	65	0	15	20	1.28
14964160--14964221	8	7.8	8	77	21	51	80	0	17	1	0.79
14964163--14964216	18	2.8	20	77	13	67	81	0	16	1	0.78
14964160--14964235	11	6.6	11	78	15	57	77	1	18	2	0.95
14970176--14970220	15	3.2	15	77	22	53	24	33	0	42	1.55
14974548--14974608	26	2.3	26	97	0	113	19	39	21	19	1.93
14981798--14981904	50	2.1	50	78	11	112	21	20	21	36	1.95
14986710--14986752	23	1.9	22	90	4	68	13	11	4	69	1.33
14987808--14987857	20	2.4	21	83	12	59	30	6	10	54	1.58
14988648--14988699	21	2.6	21	90	6	81	34	13	5	46	1.67
14989371--14989424	26	2.1	26	85	0	72	77	1	14	5	1.03
14992783--14992836	21	2.7	21	85	5	67	37	11	5	46	1.63
14993506--14993556	17	3.2	16	78	15	54	80	1	13	3	0.94
14993507--14993562	18	3.1	18	79	7	69	78	1	16	3	0.97
14996918--14996971	21	2.7	21	85	5	67	37	11	5	46	1.63
15001055--15001108	21	2.7	21	85	5	67	37	11	5	46	1.63
15001777--15001822	14	3.1	14	84	6	56	80	2	10	6	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15005189--15005242	21	2.7	21	85	5	67	37	11	5	46	1.63
15013456--15013509	21	2.7	21	85	5	67	37	11	5	46	1.63
15014179--15014234	17	3.1	17	75	17	51	76	1	16	5	1.05
15017582--15017633	21	2.6	21	87	6	72	34	11	5	48	1.63
15018445--15018485	2	20.5	2	89	0	64	53	0	0	46	1.00
15018445--15018492	12	4.0	12	94	0	78	54	0	2	43	1.12
15020789--15020817	14	2.0	15	93	6	51	17	13	20	48	1.81
15028539--15028587	16	2.9	16	84	6	53	65	0	20	14	1.27
15028723--15028764	9	4.3	10	85	11	52	2	19	0	78	0.86
15032314--15032366	23	2.4	22	81	15	65	50	1	3	43	1.30

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