genome.fa.s9462.2.7.7.80.10.50.1000.78.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  78  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)
17869908--17869981	30	2.5	30	95	0	130	45	2	5	45	1.40
17869908--17869990	30	2.8	30	90	3	114	44	2	6	46	1.41
17870084--17870158	28	2.7	27	75	15	73	50	1	0	48	1.09
17870195--17870250	15	4.1	15	72	27	61	39	0	0	60	0.97
17870203--17870250	8	6.0	8	76	9	53	39	0	0	60	0.97
17870206--17870268	25	2.4	27	79	10	69	42	0	1	55	1.09
17870221--17870324	40	2.7	39	80	12	110	43	0	0	54	1.13
17870233--17870302	34	2.2	31	84	7	86	44	1	1	52	1.18
17873010--17873175	23	7.1	25	85	8	158	29	25	22	22	1.99
17873029--17873175	23	6.3	23	88	0	195	29	25	21	22	1.99
17881458--17881600	64	2.2	65	79	8	159	25	19	19	35	1.95
17882328--17882453	23	5.4	24	77	9	125	34	22	20	22	1.96
17882328--17882453	46	2.7	47	82	4	139	34	22	20	22	1.96
17890392--17890420	12	2.3	13	94	5	51	58	3	0	37	1.15
17891811--17891899	32	2.8	32	80	0	106	33	22	16	26	1.96
17893177--17893238	2	31.0	2	96	0	115	50	1	0	48	1.10
17895684--17895777	47	2.0	47	97	0	179	52	7	6	34	1.55
17896052--17896088	18	2.0	19	94	5	67	48	35	16	0	1.46
17896065--17896111	14	3.1	14	77	16	58	55	27	12	4	1.56
17896558--17896604	5	9.0	5	81	9	58	76	2	2	19	0.99
17896558--17896604	16	3.0	16	81	9	53	76	2	2	19	0.99
17896587--17896717	60	2.2	58	77	11	133	66	0	6	25	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17896734--17896805	37	1.9	37	91	5	101	69	2	13	13	1.30
17896862--17896904	18	2.4	18	92	0	68	72	0	6	20	1.08
17898410--17898503	47	2.0	47	97	0	179	52	6	7	34	1.55
17899283--17899323	5	8.0	5	83	5	55	75	2	2	19	1.03
17899439--17899524	36	2.4	36	82	7	95	68	2	12	16	1.30
17899566--17899608	18	2.4	18	92	0	68	72	0	6	20	1.08
17903021--17903141	64	1.9	63	84	1	161	34	21	19	24	1.96
17904743--17904811	23	3.0	23	80	0	84	17	24	24	33	1.96
17908010--17908130	64	1.9	63	86	1	170	34	23	18	23	1.96
17909730--17909798	23	3.0	23	78	0	84	20	21	24	33	1.97
17911607--17911670	23	2.8	23	82	0	92	32	26	23	17	1.96
17914557--17914641	24	3.5	24	81	0	80	51	16	14	17	1.76
17914550--17914658	48	2.3	48	81	0	128	51	16	14	17	1.77
17918693--17918780	24	3.7	24	81	3	97	47	19	15	17	1.82
17918693--17918795	48	2.2	48	82	5	120	48	18	14	18	1.81
17922747--17922881	67	2.0	67	100	0	270	19	25	22	32	1.97
17927316--17927362	13	3.5	13	91	5	67	34	10	31	23	1.89
17928703--17928834	3	41.7	3	67	10	57	56	4	4	34	1.40
17928766--17928860	29	3.4	28	75	15	81	54	2	7	35	1.40
17928809--17928860	25	2.0	26	88	3	79	55	0	5	38	1.24
17930305--17930385	3	27.7	3	75	9	69	35	3	1	59	1.23
17931166--17931257	40	2.3	40	92	0	148	25	21	27	26	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17939040--17939081	21	2.0	21	85	0	57	26	23	16	33	1.96
17943302--17943457	31	5.0	31	91	1	242	37	22	19	21	1.95
17943635--17943682	23	2.0	24	92	4	80	33	20	0	45	1.52
17947073--17947228	31	5.0	31	90	1	242	37	21	19	21	1.94
17947406--17947452	23	2.0	24	91	4	78	34	21	0	44	1.52
17947965--17948008	21	2.1	21	86	0	61	15	25	27	31	1.96
17952055--17952125	17	4.2	17	73	20	60	80	0	14	5	0.89
17952062--17952125	12	5.1	12	82	14	67	79	0	14	6	0.91
17952088--17952134	15	3.1	15	79	14	53	74	0	14	10	1.07
17953235--17953545	113	2.7	113	85	1	399	30	24	14	30	1.95
17953235--17953581	113	3.1	112	81	5	317	30	24	15	29	1.96
17953800--17953909	3	37.7	3	81	8	129	36	0	1	60	1.13
17953801--17953927	15	8.2	16	72	16	90	35	1	2	60	1.19
17956709--17956746	20	1.9	20	100	0	76	42	10	23	23	1.85
17956709--17956758	20	2.7	19	88	11	61	44	8	24	24	1.80
17959731--17959779	25	2.0	25	83	0	62	8	20	18	53	1.70
17961621--17961665	23	2.0	23	83	16	58	28	2	2	66	1.15
17961607--17961670	33	2.0	33	84	9	87	29	4	1	64	1.23
17961599--17961756	9	17.8	9	67	25	56	29	3	2	63	1.25
17961621--17961785	27	6.2	25	68	19	77	29	3	3	63	1.26
17969393--17969418	2	13.0	2	100	0	52	50	0	0	50	1.00
17969427--17969517	28	3.1	29	71	13	71	64	1	3	30	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17970833--17970867	3	11.7	3	100	0	70	65	0	0	34	0.93
17971099--17971548	45	10.0	45	92	0	729	34	17	22	24	1.96
17972208--17972289	22	3.7	22	93	0	137	39	13	15	31	1.87
17972599--17972761	54	3.0	54	81	3	211	24	22	13	39	1.90
17973348--17973404	3	19.7	3	77	16	50	40	0	1	57	1.09
17973347--17973402	15	3.6	16	73	21	57	41	0	1	57	1.09
17974664--17974701	16	2.5	15	91	4	58	21	0	5	73	1.02
17974662--17974699	19	2.0	20	89	5	60	21	0	5	73	1.02
17977208--17977245	20	2.0	20	89	5	60	13	7	13	65	1.46
17977288--17977362	13	5.5	13	75	13	71	14	14	12	58	1.63
17980627--17980684	22	2.7	21	84	7	80	31	18	15	34	1.93
17981347--17981919	45	12.7	45	92	0	941	24	21	18	35	1.95
17982043--17982105	3	21.7	3	93	6	112	34	0	0	65	0.93
17983393--17983432	16	2.4	17	87	8	55	30	5	2	62	1.29
17983454--17983536	3	28.7	3	74	22	63	28	1	3	66	1.16
17984642--17984713	2	36.0	2	100	0	144	50	0	0	50	1.00
17992272--17992305	18	1.9	18	88	5	52	73	14	2	8	1.19
17992254--17992305	17	3.1	17	75	5	52	69	17	1	11	1.27
17994213--17994300	20	4.4	20	92	0	149	18	23	27	30	1.97
17994324--17994395	21	3.3	21	71	21	58	27	20	19	31	1.97
17998777--17998823	19	2.5	19	96	0	85	38	21	23	17	1.93
18004494--18004639	55	2.7	55	90	0	220	29	19	21	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18004494--18004691	55	3.6	55	82	2	213	28	18	21	31	1.97
18005039--18005088	21	2.4	21	83	6	57	44	6	18	32	1.74
18011327--18011473	55	2.7	55	84	3	179	30	17	18	34	1.94
18011873--18011922	21	2.4	21	83	6	57	42	8	20	30	1.80
18021621--18021694	21	3.5	21	98	0	139	29	22	31	16	1.96
18023409--18023549	3	47.0	3	100	0	282	66	0	0	33	0.92
18031435--18031549	24	4.8	24	89	4	169	39	20	16	24	1.92
18034003--18034066	18	3.6	18	84	0	92	12	23	46	17	1.81
18036197--18036306	24	4.6	24	85	4	141	39	19	13	28	1.89
18037173--18037213	20	2.0	20	100	0	82	39	19	14	26	1.90
18038643--18038927	142	2.0	142	96	0	525	29	20	26	23	1.99
18041997--18042250	79	3.2	79	91	1	411	36	10	24	28	1.89
18048917--18049202	79	3.6	79	91	0	446	36	9	24	29	1.87
18053581--18054113	106	5.1	106	86	4	695	21	17	25	36	1.94
18054449--18054519	36	2.0	36	91	0	115	39	15	21	23	1.91
18054952--18054987	18	2.0	18	88	0	54	41	30	8	19	1.81
18056051--18056088	17	2.3	17	86	4	51	2	18	5	73	1.14
18056079--18056139	8	7.5	8	75	10	61	0	14	4	80	0.87
18056075--18056139	17	4.1	15	76	20	62	0	15	4	80	0.88
18056082--18056145	15	4.3	15	74	7	51	0	15	6	78	0.95
18056063--18056139	32	2.4	31	80	10	82	1	14	5	79	0.97
18069867--18069973	24	4.5	24	78	4	117	49	15	9	25	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18069867--18069963	12	8.1	12	67	13	56	49	16	8	25	1.73
18072481--18072524	19	2.4	19	88	3	63	18	22	40	18	1.91
18078500--18078597	20	4.8	20	77	3	88	36	23	18	21	1.95
18078441--18078597	41	3.9	41	70	11	126	38	25	17	18	1.93
18078584--18078774	20	9.6	20	86	4	129	34	26	18	20	1.96
18078564--18078793	40	5.8	40	87	2	232	36	25	17	20	1.94
18078584--18078793	60	3.5	59	83	3	233	35	26	17	20	1.95
18078618--18078793	20	8.8	20	88	3	189	34	26	17	21	1.95
18079476--18079522	24	2.0	24	87	8	69	25	14	21	38	1.92
18079697--18079721	12	2.1	12	100	0	50	72	0	28	0	0.86

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