genome.fa.s9639.2.7.7.80.10.50.1000.28.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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   

This is table  28  of  62  ( 7398 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)
6038459--6038496	18	2.1	18	100	0	76	13	28	21	36	1.91
6042792--6042826	19	1.9	18	88	11	54	74	0	14	11	1.08
6043190--6043230	21	2.0	21	95	0	73	26	7	7	58	1.51
6045644--6046319	114	6.0	113	88	4	866	38	14	20	26	1.91
6045660--6046319	227	2.9	225	86	4	882	38	14	20	26	1.91
6046135--6046198	20	3.2	20	63	20	53	42	9	23	25	1.84
6046260--6046304	23	2.0	22	83	12	56	48	11	26	13	1.75
6046677--6046706	6	5.0	6	100	0	60	16	0	0	83	0.65
6046678--6046724	18	2.6	18	86	3	58	21	0	4	74	0.99
6046678--6046772	6	15.5	6	77	8	50	29	0	2	68	1.01
6046939--6046968	16	1.9	15	93	6	51	40	26	20	13	1.89
6048163--6048205	2	21.5	2	100	0	86	48	0	0	51	1.00
6048309--6048366	29	2.0	29	83	6	73	32	0	0	67	0.91
6060926--6061173	127	1.9	129	85	3	340	45	14	11	28	1.80
6064354--6064387	14	2.4	14	90	0	50	26	11	23	38	1.89
6065063--6065169	54	2.0	55	90	5	173	39	13	16	30	1.87
6065629--6065839	102	2.0	105	80	7	234	35	8	18	37	1.81
6065753--6065906	68	2.3	67	83	4	186	33	7	19	39	1.79
6065818--6066212	105	3.8	104	81	5	440	38	7	18	35	1.80
6068846--6068920	3	25.0	3	100	0	150	0	33	0	66	0.92
6069734--6069805	28	2.7	27	80	4	74	47	13	19	19	1.83
6083467--6083520	22	2.3	23	84	15	76	53	11	0	35	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6083467--6083566	29	4.1	25	68	26	54	53	12	3	32	1.53
6085864--6085909	22	2.1	22	100	0	92	21	0	26	52	1.47
6095604--6095648	21	2.1	21	84	8	56	22	6	8	62	1.48
6095949--6095987	16	2.4	16	95	0	69	17	43	0	38	1.50
6097873--6097913	15	2.8	15	88	3	57	43	2	2	51	1.28
6109036--6109069	3	11.7	3	87	6	52	70	0	0	29	0.87
6109223--6109249	13	2.1	13	100	0	54	37	18	0	44	1.50
6110464--6110516	3	19.0	3	81	14	60	67	0	1	30	1.01
6110465--6110516	19	2.7	19	82	5	61	69	0	1	28	0.99
6110464--6110540	22	3.5	21	79	10	82	66	0	3	29	1.10
6110740--6111534	224	3.5	225	90	3	1154	27	20	15	36	1.93
6110864--6111534	112	6.0	112	94	0	1128	26	20	15	36	1.93
6111854--6111910	22	2.5	22	78	13	71	40	10	12	36	1.77
6112274--6112586	54	5.8	54	90	0	439	25	22	13	38	1.91
6112274--6112586	162	1.9	162	89	2	486	25	22	13	38	1.91
6113467--6113636	75	2.3	75	83	5	218	31	21	15	31	1.95
6117077--6117106	13	2.3	13	94	0	51	0	30	0	70	0.88
6118803--6118883	42	1.9	42	89	0	126	18	19	14	46	1.83
6119292--6119376	43	2.0	44	88	2	127	35	24	11	28	1.91
6120573--6120641	23	3.0	23	82	0	84	28	26	24	20	1.99
6125844--6125908	23	2.8	23	83	0	85	26	23	29	21	1.99
6129187--6129219	17	1.9	17	88	11	50	72	0	0	27	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6129210--6129279	28	2.6	27	82	10	81	60	1	4	34	1.25
6129187--6129294	29	3.8	30	76	15	97	62	0	3	32	1.19
6129776--6130140	146	2.6	137	89	5	532	48	7	7	36	1.60
6129771--6130215	146	3.2	138	82	8	508	47	7	6	38	1.58
6130281--6130372	11	8.5	11	69	15	57	65	2	5	27	1.26
6131409--6131457	22	2.2	22	92	0	80	22	10	36	30	1.87
6131422--6131467	22	2.1	22	91	0	74	23	10	32	32	1.90
6131724--6131776	3	19.0	3	79	14	51	69	1	0	28	0.99
6131724--6131782	22	2.6	22	86	7	84	71	1	0	27	0.96
6136507--6136532	2	13.0	2	100	0	52	50	0	0	50	1.00
6136505--6136565	18	3.4	19	73	13	58	42	3	0	54	1.17
6136845--6137131	152	1.9	156	88	2	438	47	7	16	28	1.74
6137309--6137338	14	2.1	14	93	0	51	46	20	10	23	1.80
6154617--6154952	57	5.9	57	90	3	475	32	20	11	34	1.89
6154617--6155533	114	7.8	114	80	9	1031	32	20	11	35	1.89
6154929--6154976	24	2.0	24	95	0	87	35	27	16	20	1.94
6154953--6155533	57	10.1	57	92	1	984	32	20	11	35	1.88
6158070--6158249	90	2.0	90	100	0	360	35	18	3	42	1.67
6162831--6162860	13	2.2	14	94	5	53	70	0	0	30	0.88
6162835--6162873	21	1.9	20	89	5	60	66	0	0	33	0.92
6165115--6165160	20	2.3	20	88	0	65	34	32	8	23	1.86
6167441--6167514	2	39.5	2	71	22	54	54	2	0	43	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6167441--6167515	17	3.9	19	75	18	59	54	2	0	42	1.14
6167447--6167553	27	3.7	29	77	13	78	50	3	2	42	1.34
6167447--6167510	19	3.3	19	85	10	78	53	3	0	43	1.16
6167449--6167644	13	15.3	13	69	19	110	48	4	4	42	1.44
6167480--6167521	18	2.2	18	87	8	57	52	4	0	42	1.22
6167476--6167632	70	2.2	71	88	6	239	47	5	5	42	1.47
6167602--6167710	16	6.8	16	70	14	55	49	3	5	41	1.43
6167684--6167769	31	2.8	29	73	13	73	46	2	4	46	1.36
6167641--6167717	15	4.9	15	80	15	66	49	2	5	42	1.39
6167841--6167892	2	26.0	2	88	7	79	50	1	0	48	1.12
6167910--6167968	7	8.4	7	82	0	73	16	0	32	50	1.46
6167910--6167969	21	2.9	21	97	0	111	16	0	31	51	1.45
6168198--6168245	19	2.5	20	89	3	71	27	27	0	45	1.54
6168210--6168252	19	2.4	18	88	7	61	27	25	0	46	1.53
6168210--6168261	19	2.9	17	80	13	52	28	25	0	46	1.53
6168355--6168389	12	2.9	12	82	0	52	54	2	2	40	1.30
6168828--6168897	2	36.0	2	87	11	101	45	1	0	52	1.09
6168828--6168897	31	2.3	31	87	9	99	45	1	0	52	1.09
6169477--6169515	20	2.0	20	100	0	78	48	5	0	46	1.24
6169809--6169872	16	4.0	16	85	0	74	39	12	25	23	1.90
6169903--6169973	32	2.3	31	80	7	81	14	16	29	39	1.88
6169886--6169973	32	2.8	30	72	14	79	17	15	26	40	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6170324--6170352	13	2.2	13	100	0	58	17	20	0	62	1.33
6170506--6170534	13	2.2	13	100	0	58	17	20	0	62	1.33
6170278--6170642	182	2.0	183	99	0	723	35	12	12	39	1.81
6170669--6170752	2	42.0	2	100	0	168	50	0	50	0	1.00
6171571--6171619	25	2.0	25	88	8	73	34	8	0	57	1.29
6182807--6182851	2	23.0	2	95	4	83	48	0	0	51	1.00
6182804--6182848	21	2.1	21	100	0	90	46	0	0	53	1.00
6184624--6184748	50	2.5	49	77	11	137	20	35	25	19	1.95
6184871--6184895	10	2.5	10	100	0	50	36	28	0	36	1.58
6185035--6185359	111	2.9	111	95	0	569	35	8	12	44	1.71
6189740--6189781	20	2.1	20	100	0	84	35	23	26	14	1.93
6191473--6191546	35	2.1	35	100	0	148	40	8	14	36	1.76
6194528--6194552	5	5.0	5	100	0	50	20	0	0	80	0.72
6195621--6195656	2	18.0	2	100	0	72	50	0	0	50	1.00
6196149--6196752	260	2.4	251	86	7	836	26	12	19	40	1.87
6196957--6197036	40	2.0	40	87	7	117	57	11	15	16	1.65
6197119--6197180	17	3.6	18	89	6	92	27	19	9	43	1.82
6198786--6198829	17	2.6	17	96	0	79	36	25	9	29	1.86
6205811--6205898	41	2.1	41	83	6	106	23	18	25	32	1.97
6205792--6205898	42	2.6	42	76	7	112	23	18	24	33	1.97
6206053--6206148	42	2.3	41	80	1	111	22	23	20	32	1.98
6205533--6206358	257	3.2	256	87	2	1102	31	16	18	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6206392--6206462	20	3.5	20	75	17	67	35	11	23	29	1.90
6206430--6206485	20	2.8	20	91	0	85	30	8	30	30	1.88
6206826--6206876	17	2.8	18	94	5	86	74	0	9	15	1.06
6206827--6206886	19	3.3	18	82	13	61	75	0	10	15	1.05
6206897--6206977	22	3.8	22	75	19	73	77	3	1	17	0.97
6206898--6206977	14	5.8	13	72	15	63	78	3	1	16	0.95
6206921--6206984	6	10.8	6	80	9	69	81	4	0	14	0.85
6206921--6206982	11	5.8	11	77	19	69	82	4	0	12	0.82
6206934--6206984	17	3.0	17	82	5	68	80	5	0	13	0.89
6206898--6206984	23	3.8	23	80	7	88	78	3	1	17	0.96

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