genome.fa.s8242.2.7.7.80.10.50.1000.44.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

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   

This is table  44  of  73  ( 8740 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)
10515359--10515394	4	8.8	4	87	6	54	69	0	2	27	1.02
10515342--10515394	17	3.2	16	83	5	61	64	0	1	33	1.05
10515439--10515473	2	17.5	2	100	0	70	51	0	0	48	1.00
10516410--10516448	21	1.9	20	89	5	60	5	12	17	64	1.46
10516916--10516975	7	8.4	7	76	10	59	48	1	5	45	1.34
10516908--10516984	23	3.2	23	70	22	59	50	2	3	42	1.34
10520155--10520281	4	31.8	4	100	0	254	50	24	0	25	1.50
10520625--10520673	24	2.0	24	96	0	89	26	0	32	40	1.56
10526333--10526360	14	2.0	14	100	0	56	50	7	0	42	1.30
10526853--10528355	4	380.2	4	97	2	2880	24	0	25	49	1.50
10531006--10531047	22	1.9	22	90	9	68	40	7	9	42	1.65
10530984--10531026	16	2.7	16	78	7	52	41	9	11	37	1.74
10531076--10531115	17	2.5	15	88	8	53	45	0	2	52	1.14
10531218--10531272	20	2.8	20	85	0	83	36	14	18	30	1.91
10531691--10531737	21	2.3	20	86	13	69	23	0	21	55	1.44
10531450--10531976	277	1.9	275	92	1	885	40	12	10	37	1.76
10532080--10532151	7	10.3	7	73	11	58	16	1	36	45	1.56
10532439--10532479	17	2.6	15	85	11	55	53	2	0	43	1.13
10532529--10532571	16	2.7	16	78	7	52	37	11	9	41	1.74
10532508--10532549	22	1.9	22	90	9	68	42	9	7	40	1.65
10532743--10532798	26	2.2	26	100	0	112	28	28	3	39	1.73
10542279--10542365	20	4.3	20	82	0	93	26	14	20	37	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10542457--10542552	35	2.7	35	93	0	165	33	23	22	19	1.97
10542867--10542943	2	39.5	2	94	5	140	49	0	0	50	1.00
10544115--10544169	29	1.9	28	82	10	67	32	5	10	50	1.60
10544861--10544885	13	1.9	13	100	0	50	16	0	0	84	0.63
10546272--10546298	10	2.7	10	100	0	54	11	18	0	70	1.16
10549248--10549312	23	2.8	23	85	0	94	36	24	21	16	1.94
10549390--10549439	20	2.4	22	77	16	61	38	22	18	22	1.94
10549831--10549878	2	24.0	2	100	0	96	50	0	0	50	1.00
10554404--10554468	23	2.8	23	76	0	85	32	23	24	20	1.98
10554987--10555031	2	22.5	2	100	0	90	48	0	0	51	1.00
10558793--10558831	19	2.1	19	100	0	78	25	5	33	35	1.78
10558962--10559155	95	2.0	95	93	0	334	34	15	18	31	1.92
10560587--10561185	85	7.1	85	84	1	720	34	19	18	27	1.95
10564226--10564263	12	3.2	12	96	0	67	0	36	34	28	1.58
10565884--10565923	21	1.9	21	89	0	62	10	25	40	25	1.86
10569773--10569812	21	1.9	21	85	10	55	35	10	2	52	1.48
10573233--10573262	6	4.8	6	95	4	51	33	0	0	66	0.92
10575377--10575425	19	2.7	17	84	9	53	26	18	30	24	1.98
10575500--10575550	19	2.7	19	79	8	61	25	13	35	25	1.93
10575564--10575603	21	1.9	21	94	0	71	20	15	30	35	1.93
10582017--10582056	21	1.9	21	85	10	55	35	7	2	55	1.42
10583983--10584031	19	2.7	17	84	9	53	26	18	30	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10583983--10584192	64	3.3	62	80	8	203	27	15	26	30	1.96
10584109--10584159	19	2.7	19	85	8	70	25	15	35	23	1.94
10584173--10584212	21	1.9	21	94	0	71	22	15	30	32	1.94
10586225--10586363	36	3.9	36	92	0	224	42	15	15	26	1.87
10595815--10596201	182	2.1	185	88	3	579	43	3	6	46	1.44
10596363--10596466	37	3.1	37	62	30	88	34	9	5	50	1.59
10596358--10596482	62	2.0	62	93	0	214	32	8	5	52	1.56
10615975--10616035	30	2.0	30	100	0	122	19	18	26	36	1.94
10616600--10616653	23	2.3	23	93	0	90	22	35	24	18	1.96
10616606--10616675	23	3.2	22	82	7	81	21	34	24	20	1.97
10627230--10627260	12	2.6	12	89	0	53	25	48	6	19	1.72
10627291--10627425	39	3.5	38	88	4	198	26	25	29	18	1.98
10636087--10636162	3	25.3	3	97	0	143	65	1	0	32	1.01
10637948--10638333	41	9.5	41	77	9	301	30	18	19	32	1.95
10641393--10641602	42	5.0	41	82	7	242	26	23	18	31	1.97
10641381--10641604	85	2.7	83	84	6	272	25	24	19	31	1.98
10641540--10641672	69	1.9	68	87	1	194	19	25	24	30	1.98
10644343--10644377	18	1.9	18	88	0	52	51	5	5	37	1.50
10647399--10647441	2	21.5	2	90	0	59	44	2	4	48	1.36
10649487--10649743	110	2.4	110	83	6	321	34	23	17	24	1.96
10649828--10649972	54	2.7	54	84	12	183	31	29	16	22	1.96
10653224--10653269	14	3.3	14	93	0	83	63	0	6	30	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10653694--10653741	18	2.7	18	84	9	62	29	27	8	35	1.86
10654134--10654159	11	2.4	11	100	0	52	61	0	0	38	0.96
10654242--10654278	2	18.5	2	100	0	74	51	0	0	48	1.00
10654461--10654486	2	13.0	2	100	0	52	50	0	0	50	1.00
10654876--10654965	32	2.9	32	76	15	89	2	60	0	37	1.09
10654901--10655032	16	8.3	16	69	18	62	3	56	1	39	1.24
10671265--10671289	10	2.5	10	100	0	50	28	0	24	48	1.52
10683936--10683966	14	2.1	15	94	5	55	6	25	6	61	1.45
10689509--10689575	20	3.5	20	76	15	77	37	4	40	17	1.70
10689506--10689581	38	2.0	38	92	0	125	38	6	36	18	1.77
10689506--10689564	19	3.1	19	75	18	68	37	6	38	16	1.76
10695170--10695236	24	2.8	24	81	4	73	41	1	4	52	1.31
10695159--10695215	25	2.5	21	72	20	51	43	1	1	52	1.21
10696698--10696760	30	2.1	30	81	0	72	46	11	17	25	1.81
10698928--10699059	61	2.2	61	80	0	147	30	16	24	28	1.97
10709907--10709966	31	1.9	31	96	0	111	25	8	33	33	1.86
10721230--10721269	21	1.9	21	89	0	62	42	17	17	22	1.89
10725258--10725299	21	2.0	21	100	0	84	28	14	19	38	1.90
10727381--10727428	25	1.9	25	87	8	71	22	39	18	18	1.92
10728357--10728951	182	3.3	181	88	3	851	43	12	16	27	1.84
10730319--10730511	106	1.8	107	83	1	262	40	11	16	31	1.83
10730419--10730868	197	2.3	199	82	5	538	38	13	15	32	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10730891--10731053	87	1.9	87	90	2	265	30	15	12	41	1.85
10734105--10734529	141	3.0	141	99	0	832	37	9	9	43	1.70
10734843--10734929	29	3.0	29	93	1	138	47	6	12	33	1.68
10741840--10741884	15	3.0	14	84	12	54	8	0	11	80	0.92
10741903--10741945	2	21.0	2	80	4	50	41	2	6	48	1.43
10741927--10741993	29	2.3	29	87	10	93	41	1	11	44	1.50
10741961--10742012	20	2.6	20	74	17	54	46	0	9	44	1.36
10741960--10742012	22	2.6	21	74	14	58	45	0	9	45	1.36
10749349--10749723	188	2.0	188	86	2	527	36	15	20	28	1.92
10749904--10750100	88	2.2	88	85	0	250	36	8	18	37	1.80
10749904--10750100	44	4.5	44	82	5	227	36	8	18	37	1.80
10753704--10753773	27	2.5	29	76	21	78	44	2	11	41	1.55
10753739--10753797	22	2.6	23	81	5	66	45	0	11	42	1.41
10753739--10753797	24	2.5	23	76	15	57	45	0	11	42	1.41
10753689--10753771	28	3.1	28	73	18	72	43	2	10	43	1.52
10753712--10753810	53	1.9	51	84	10	130	43	2	13	41	1.55
10753760--10753825	31	2.1	31	86	10	91	48	0	12	39	1.40
10753730--10753830	53	1.9	53	84	8	134	45	0	14	38	1.52
10757154--10757203	17	3.0	17	85	2	66	34	2	6	58	1.34
10757163--10757211	16	3.0	16	82	11	55	30	4	4	61	1.33
10758883--10758940	27	2.1	27	83	0	71	20	41	13	24	1.89
10758899--10758952	27	2.0	27	81	0	63	16	44	16	22	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10762739--10762783	21	2.1	21	91	0	72	60	2	0	37	1.09
10764850--10764892	20	2.2	20	91	0	68	32	11	20	34	1.89
10779007--10779076	15	4.9	15	73	19	60	21	35	14	28	1.92
10779215--10779251	15	2.5	15	90	0	56	8	37	21	32	1.83
10780333--10780464	58	2.3	57	84	7	169	34	15	13	35	1.87
10780361--10780474	59	1.9	58	84	5	149	34	16	12	36	1.86
10790178--10790238	23	2.7	23	82	5	70	39	11	16	32	1.84
10790510--10790537	2	14.0	2	100	0	56	0	50	0	50	1.00
10792746--10792784	21	1.9	19	90	10	60	43	5	5	46	1.48
10796782--10796823	15	2.8	15	92	0	66	16	40	28	14	1.88

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