genome.fa.s8243.2.7.7.80.10.50.1000.35.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: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10265705

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   

This is table  35  of  49  ( 5786 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)
7301109--7301138	2	15.5	2	93	6	53	50	0	0	50	1.00
7304065--7304189	41	3.0	43	82	8	152	38	19	18	24	1.93
7307188--7307256	28	2.4	28	87	2	102	40	0	24	34	1.56
7307198--7307252	7	7.9	7	85	0	74	32	0	27	40	1.57
7308764--7309105	115	2.9	115	82	5	370	27	20	14	38	1.91
7312058--7312100	16	2.6	16	88	3	59	48	16	9	25	1.75
7332468--7332502	14	2.5	14	90	0	52	57	2	2	37	1.29
7337681--7337886	35	5.8	35	78	7	229	29	18	17	33	1.94
7337685--7337890	71	2.9	71	94	0	358	29	18	16	34	1.93
7340030--7340071	16	2.5	17	80	7	59	9	40	0	50	1.35
7342090--7342590	257	2.0	256	97	0	939	31	9	26	32	1.88
7343023--7343053	15	2.1	15	93	0	53	38	9	16	35	1.81
7352923--7353203	139	2.0	139	90	1	438	28	10	20	40	1.86
7362159--7362238	40	2.0	40	82	0	97	21	27	26	25	1.99
7363263--7363304	16	2.6	16	92	0	66	23	28	11	35	1.91
7375202--7375272	36	2.0	36	91	5	117	46	8	8	36	1.65
7375309--7375380	31	2.3	31	81	9	92	43	11	6	38	1.67
7378172--7378494	163	2.0	160	95	3	576	27	18	30	22	1.97
7381631--7381677	17	2.8	17	96	0	85	36	19	10	34	1.86
7383492--7383550	3	19.7	3	100	0	118	32	0	0	67	0.91
7383961--7384000	21	2.0	20	95	5	71	32	17	10	40	1.83
7385358--7385428	35	2.0	35	91	0	115	25	11	11	52	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7393090--7393116	14	1.9	14	100	0	54	51	0	0	48	1.00
7397441--7397502	20	3.1	20	70	9	54	40	27	11	20	1.87
7402408--7402551	30	4.7	30	78	3	135	30	27	11	30	1.92
7405136--7405222	31	2.9	30	80	8	81	33	20	9	36	1.85
7405136--7405245	31	3.7	28	77	9	78	33	20	10	36	1.86
7408954--7409011	23	2.5	23	88	0	80	20	8	37	32	1.83
7410775--7410825	2	25.5	2	100	0	102	50	0	0	49	1.00
7414842--7414885	19	2.2	20	96	4	81	25	27	9	38	1.86
7417958--7418041	33	2.5	33	90	3	125	13	9	35	41	1.76
7418611--7418650	18	2.3	18	87	8	57	30	30	5	35	1.79
7419455--7419507	24	2.2	24	96	0	97	45	0	18	35	1.50
7424482--7424544	19	3.6	19	65	20	55	17	22	6	53	1.65
7424472--7424543	33	2.2	33	95	4	130	16	22	5	55	1.62
7429571--7429633	6	10.3	6	79	17	60	15	3	1	79	0.94
7429581--7429618	5	7.8	5	88	11	53	15	0	0	84	0.63
7429580--7429625	12	3.8	12	86	11	67	15	2	0	82	0.76
7429586--7429626	19	2.2	19	95	0	73	14	2	0	82	0.76
7429570--7429633	24	2.6	24	83	11	85	17	3	1	78	0.96
7432625--7432676	3	18.0	3	86	7	72	63	0	1	34	1.06
7432894--7433449	121	4.8	117	84	7	595	28	18	13	38	1.89
7433033--7433094	19	3.2	20	68	22	51	19	25	8	46	1.77
7433126--7433435	113	2.8	112	85	4	419	30	19	12	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7435004--7435046	24	1.9	23	90	9	63	11	16	0	72	1.13
7445694--7445750	24	2.5	23	77	8	62	64	1	5	28	1.25
7445715--7445773	28	2.1	29	87	3	84	61	0	6	32	1.22
7446270--7446307	17	2.2	18	85	4	51	44	0	2	52	1.14
7446612--7446660	22	2.3	21	78	21	57	59	6	2	32	1.34
7446615--7446666	24	2.3	20	81	18	59	59	5	1	32	1.32
7447987--7448041	3	19.0	3	79	7	60	60	0	3	36	1.15
7449858--7449944	40	2.2	40	97	0	165	26	25	13	34	1.93
7452940--7453009	35	2.0	36	88	2	106	45	8	12	32	1.73
7459443--7459484	21	2.0	21	90	4	66	59	0	0	40	0.97
7462073--7462383	168	1.9	165	89	2	487	43	16	12	27	1.83
7462389--7462685	100	3.0	100	82	8	354	44	16	15	23	1.86
7471855--7471937	42	2.0	42	100	0	166	28	19	12	39	1.87
7475638--7475726	19	4.8	18	79	6	79	46	6	17	29	1.74
7475743--7475788	13	3.5	13	84	0	65	56	0	21	21	1.42
7482483--7482547	18	3.4	18	72	12	67	29	7	16	46	1.75
7482483--7482559	39	2.0	39	97	0	145	27	7	18	46	1.76
7485850--7485892	15	2.7	16	89	10	70	39	11	6	41	1.68
7492791--7492835	7	6.6	7	80	19	51	42	26	15	15	1.87
7492795--7492824	16	1.9	15	93	6	51	46	26	13	13	1.80
7492823--7492861	20	2.0	20	84	0	51	43	15	17	23	1.87
7497950--7498007	21	2.9	19	80	14	64	32	27	13	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7500721--7500759	14	2.8	14	96	0	69	23	20	20	35	1.96
7504947--7505005	27	2.2	27	87	0	82	35	23	8	32	1.85
7508670--7508703	17	2.1	17	94	5	61	29	11	17	41	1.85
7510406--7510437	6	5.3	6	100	0	64	0	65	0	34	0.93
7513151--7513191	20	2.0	20	86	9	57	60	17	2	19	1.46
7514017--7514063	19	2.4	20	85	7	69	40	17	6	36	1.75
7514018--7514090	20	3.7	19	82	7	74	36	16	9	36	1.81
7515291--7515338	19	2.5	20	86	3	62	47	6	14	31	1.69
7516681--7516883	107	1.9	107	86	1	291	30	12	18	38	1.88
7516854--7516914	21	2.9	21	92	0	104	32	4	14	47	1.66
7516991--7517112	20	6.5	20	72	19	75	35	14	12	37	1.84
7517041--7517087	19	2.4	20	85	7	69	36	12	10	40	1.78
7519295--7519326	2	16.5	2	93	6	57	46	0	0	53	1.00
7524984--7525027	22	2.0	23	86	4	63	18	11	11	59	1.61
7527442--7529840	799	3.0	799	96	0	4370	29	14	24	30	1.95
7530303--7530330	2	14.0	2	100	0	56	50	0	0	50	1.00
7533476--7533637	19	8.9	19	76	16	77	74	0	19	6	1.02
7533495--7533611	7	16.0	7	72	19	71	79	0	15	5	0.90
7533492--7533604	31	3.5	33	81	11	110	78	0	16	4	0.90
7533471--7533662	27	6.6	27	72	23	101	75	0	17	6	1.01
7533471--7533604	15	8.1	16	80	12	114	76	0	18	5	0.97
7533518--7533610	15	6.1	15	86	8	118	80	0	15	4	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7533477--7533670	105	1.8	104	81	11	243	76	0	17	6	0.99
7533496--7533670	15	11.3	15	71	19	71	77	0	15	6	0.96
7534881--7535518	55	11.6	55	83	1	688	28	15	24	31	1.95
7539042--7539073	2	16.0	2	100	0	64	50	0	0	50	1.00
7545035--7545093	29	2.0	29	100	0	118	23	13	13	49	1.78
7547779--7547824	24	1.9	23	86	8	65	36	15	0	47	1.45
7547779--7547824	23	1.9	23	91	8	74	36	15	0	47	1.45
7548764--7548829	28	2.4	28	82	2	89	24	21	21	33	1.97
7556773--7556864	32	3.0	31	92	4	150	25	20	23	30	1.99
7558823--7558874	22	2.4	22	80	6	61	48	9	1	40	1.47
7566249--7566273	12	2.1	12	100	0	50	36	24	0	40	1.55
7566665--7566725	2	30.5	2	100	0	122	50	0	0	49	1.00
7566753--7566910	85	1.9	85	93	0	271	31	17	20	31	1.95
7566889--7566949	13	4.7	13	95	0	104	32	18	21	27	1.96
7569104--7570555	199	7.3	199	90	1	2161	33	14	12	38	1.84
7571218--7571875	182	3.6	182	87	5	934	27	16	13	42	1.86
7571213--7571875	364	1.8	364	89	2	1037	27	16	13	42	1.85
7572495--7572537	13	3.3	13	84	9	61	44	2	0	53	1.13
7573926--7573972	18	2.6	19	78	18	55	25	0	8	65	1.20
7573669--7574037	192	1.9	190	96	2	677	27	7	7	57	1.52
7584605--7584639	17	2.1	17	89	10	54	80	0	20	0	0.72
7584571--7584708	72	1.9	72	83	5	181	53	10	26	10	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7584681--7584722	18	2.4	18	84	7	61	78	0	19	2	0.86
7584679--7584721	7	5.6	7	84	13	50	79	0	18	2	0.85
7585455--7586363	105	9.0	105	85	8	1241	33	25	17	22	1.96
7585567--7586380	193	4.1	196	92	3	1178	34	25	17	22	1.96
7587615--7587722	52	2.1	52	100	0	216	36	31	11	21	1.88
7587859--7587890	2	16.5	2	93	6	57	46	0	0	53	1.00
7589223--7589444	108	2.1	107	94	5	394	38	17	11	31	1.86
7593425--7593523	48	2.0	49	94	1	173	29	8	12	50	1.68
7601705--7601743	20	2.0	19	85	14	53	61	5	17	15	1.51
7602215--7602281	22	3.0	22	100	0	134	35	19	13	31	1.90

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