genome.fa.s9462.2.7.7.80.10.50.1000.86.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  86  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)
19436871--19436943	20	3.7	20	90	0	119	19	28	21	30	1.98
19441639--19441712	31	2.4	31	84	8	89	37	9	21	31	1.85
19444998--19445059	23	2.9	21	85	7	81	20	35	25	17	1.95
19452462--19452800	54	6.3	54	85	2	396	31	20	17	30	1.96
19452470--19452552	27	3.1	27	62	19	64	31	20	18	30	1.96
19452494--19452579	27	3.2	27	66	18	70	27	19	19	32	1.97
19452521--19452606	27	3.2	27	64	26	65	29	20	17	32	1.96
19452464--19452775	162	1.9	162	87	1	455	32	20	15	31	1.94
19456667--19456751	2	42.5	2	100	0	170	49	0	0	50	1.00
19461620--19461931	36	8.7	36	85	0	381	32	22	26	18	1.97
19463214--19463450	36	6.6	36	88	3	334	31	21	28	18	1.97
19463211--19463450	72	3.3	72	90	1	374	30	21	28	19	1.97
19464084--19464117	13	2.5	14	90	9	61	0	5	17	76	0.98
19464736--19464939	36	5.7	36	90	2	329	30	22	28	18	1.97
19471994--19472385	161	2.5	158	80	9	415	49	5	18	26	1.70
19472011--19472505	159	3.1	156	78	8	478	48	5	17	28	1.69
19474338--19474421	41	2.0	41	95	0	150	16	11	16	54	1.70
19481565--19481607	16	2.7	16	81	0	50	27	13	23	34	1.93
19485818--19485862	16	2.8	16	86	6	65	22	17	24	35	1.95
19496890--19496960	20	3.5	20	73	17	67	42	18	15	23	1.88
19496997--19497043	20	2.3	20	92	0	76	31	14	23	29	1.95
19502743--19502787	20	2.2	20	96	0	81	31	20	24	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19504015--19504063	21	2.3	21	82	6	55	28	16	26	28	1.97
19507021--19507062	18	2.3	18	91	0	66	28	16	7	47	1.73
19507029--19507065	18	2.1	18	100	0	74	27	18	5	48	1.70
19507221--19507254	17	2.0	17	88	0	50	38	2	0	58	1.13
19507911--19508104	35	5.5	35	85	2	237	21	25	20	32	1.97
19507911--19508103	70	2.8	70	89	0	278	20	25	20	32	1.97
19513955--19514003	26	2.0	24	92	8	80	36	10	12	40	1.77
19513840--19514130	148	2.0	149	83	3	372	37	9	14	38	1.78
19515383--19515430	24	2.0	24	100	0	96	33	20	12	33	1.90
19524643--19524693	22	2.4	22	87	6	70	43	17	13	25	1.86
19531547--19531589	18	2.5	17	85	7	61	25	4	2	67	1.22
19531852--19531904	20	2.6	20	82	11	72	24	3	0	71	1.02
19532067--19532162	38	2.7	36	78	12	92	29	5	5	60	1.40
19532205--19532229	9	2.8	9	100	0	50	20	0	0	80	0.72
19533193--19533217	4	6.2	4	100	0	50	24	0	0	76	0.80
19536604--19536666	16	3.8	16	78	17	74	76	9	14	0	1.02
19536603--19536656	20	2.9	19	78	15	69	75	11	12	0	1.04
19536633--19536675	16	2.8	15	82	3	50	74	11	11	2	1.17
19538248--19538321	37	2.0	37	86	5	105	28	21	12	37	1.89
19539078--19539945	106	8.1	106	87	3	1107	35	23	18	23	1.96
19540927--19540951	13	1.9	13	100	0	50	64	20	8	8	1.46
19541228--19541270	18	2.5	17	85	7	61	25	4	2	67	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19541321--19541345	2	12.5	2	100	0	50	48	0	0	52	1.00
19541541--19541582	19	2.2	19	83	8	50	23	4	0	71	1.05
19541752--19541854	42	2.5	40	78	10	118	30	3	3	62	1.31
19541897--19541921	9	2.8	9	100	0	50	20	0	0	80	0.72
19552746--19552780	18	2.0	18	88	5	54	45	2	8	42	1.49
19553322--19553351	2	15.0	2	100	0	60	50	0	0	50	1.00
19553483--19553528	24	1.9	24	90	0	74	32	26	26	15	1.95
19553521--19553581	23	2.7	23	84	0	77	32	19	18	29	1.95
19553553--19553620	23	3.0	23	73	0	64	33	26	20	19	1.96
19553709--19553777	31	2.3	30	82	5	77	37	21	8	31	1.84
19553736--19553863	45	2.8	45	84	0	157	33	21	8	36	1.84
19559471--19559506	18	2.0	18	88	0	54	44	5	22	27	1.75
19560023--19560088	28	2.4	28	84	0	87	45	31	7	15	1.74
19560131--19560207	33	2.3	33	90	0	118	46	31	7	14	1.72
19560016--19560245	120	1.9	119	82	8	286	43	29	7	18	1.78
19594628--19594692	2	32.5	2	100	0	130	49	0	0	50	1.00
19599169--19599206	18	2.1	18	85	9	51	21	2	0	76	0.91
19609941--19610193	104	2.4	104	86	1	346	33	25	16	24	1.96
19611784--19611821	16	2.4	16	82	13	51	42	0	7	50	1.31
19614952--19614985	16	2.1	16	94	0	59	38	0	20	41	1.53
19623970--19624100	50	2.6	50	78	4	147	18	30	26	24	1.98
19624283--19624323	18	2.3	18	91	4	66	29	4	2	63	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19624385--19624717	111	3.0	111	95	0	585	36	7	10	45	1.66
19626598--19626647	9	5.6	9	82	0	64	32	18	36	14	1.90
19628845--19628903	21	2.8	21	84	0	73	33	22	16	27	1.95
19633598--19633654	30	1.9	30	96	0	105	43	10	7	38	1.66
19633690--19633773	31	2.7	31	83	7	116	42	4	7	45	1.52
19633725--19633796	36	2.0	35	81	7	83	41	1	9	47	1.45
19643069--19643103	18	1.9	18	94	0	61	31	14	0	54	1.40
19643269--19643316	17	2.5	18	80	19	53	50	0	0	50	1.00
19643300--19643425	58	2.2	56	82	9	141	42	2	1	53	1.23
19643757--19643860	30	3.5	30	76	3	104	33	8	9	48	1.67
19644385--19644414	15	2.0	15	93	0	51	13	23	20	43	1.86
19645332--19645368	12	3.2	12	92	7	67	8	8	18	64	1.45
19645328--19645365	11	3.5	11	89	10	60	7	7	18	65	1.43
19645659--19645748	29	3.0	30	82	11	105	42	23	10	24	1.84
19647530--19647580	15	3.4	15	71	10	50	23	29	11	35	1.90
19647463--19647579	30	3.9	30	88	0	162	27	26	7	38	1.83
19648157--19648214	20	2.9	20	80	12	57	44	15	5	34	1.69
19648179--19648217	20	2.0	20	94	0	69	43	17	7	30	1.77
19651950--19651984	18	1.9	18	94	0	61	31	14	0	54	1.40
19652150--19652197	17	2.5	18	80	19	53	50	0	0	50	1.00
19652183--19652303	11	11.2	11	67	13	56	42	2	1	53	1.24
19652633--19652736	30	3.5	30	78	3	113	34	8	9	47	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19653262--19653291	15	2.0	15	93	0	51	13	23	20	43	1.86
19654208--19654241	11	2.9	12	86	8	52	11	8	11	67	1.42
19654203--19654240	11	3.5	11	82	10	51	10	7	15	65	1.45
19654237--19654339	54	1.9	54	84	4	136	12	7	38	40	1.72
19654533--19654622	29	3.0	30	82	11	105	42	23	10	24	1.84
19656336--19656450	30	3.8	30	88	0	158	26	26	7	40	1.83
19657030--19657067	20	1.9	20	84	10	51	44	13	5	36	1.66
19658471--19658512	19	2.3	18	83	4	57	47	2	11	38	1.53
19661032--19661064	16	2.1	16	94	0	57	42	3	6	48	1.43
19661119--19661174	19	3.1	19	69	27	57	46	8	1	42	1.45
19662386--19662472	39	2.2	38	82	11	97	27	16	25	31	1.96
19663264--19663304	21	1.9	22	90	5	66	75	0	4	19	0.98
19669766--19669829	15	4.3	15	91	0	101	9	25	21	43	1.82
19672184--19672331	76	2.0	75	86	4	208	58	8	3	29	1.44
19678026--19678957	475	2.0	477	91	1	1530	33	20	14	31	1.93
19680149--19680188	19	2.0	21	90	9	66	30	2	5	62	1.29
19684670--19684876	76	2.8	75	87	3	310	19	22	26	31	1.98
19684821--19684859	20	2.0	20	94	0	69	12	23	35	28	1.91
19687555--19687608	22	2.4	23	84	3	65	25	24	29	20	1.99
19692877--19692932	21	2.7	21	94	0	94	19	26	28	25	1.99
19693025--19693085	21	3.0	20	88	7	86	11	26	34	27	1.91
19692971--19693157	97	1.9	96	95	1	338	18	25	28	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19700604--19700653	25	2.0	24	85	11	66	76	6	4	14	1.13
19700571--19700646	36	2.1	38	82	5	93	75	3	6	14	1.16
19700750--19700804	3	18.3	3	100	0	110	67	0	0	32	0.91
19701875--19701955	13	6.7	12	69	12	58	46	2	4	45	1.37
19701878--19701964	30	2.8	31	70	19	83	47	3	4	44	1.40
19701886--19701964	23	3.6	23	68	11	67	48	3	3	44	1.39
19706768--19707010	44	5.5	44	79	3	218	31	17	23	27	1.97
19706797--19707010	89	2.4	88	81	3	214	31	16	23	28	1.96
19707408--19707460	23	2.3	23	90	0	88	47	1	5	45	1.37
19708081--19708123	16	2.7	16	77	0	50	25	25	16	32	1.96

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