genome.fa.s8243.2.7.7.80.10.50.1000.1.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  1  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)
183--342	64	2.5	63	84	7	209	27	15	26	30	1.96
292--340	18	2.8	17	84	6	62	22	16	36	24	1.94
8839--8889	19	2.7	19	93	0	93	15	21	31	31	1.95
8794--8969	83	2.1	82	81	6	194	26	17	26	30	1.97
10131--10353	103	2.2	103	97	0	419	25	12	24	37	1.90
10365--10427	23	2.7	23	95	0	108	19	26	26	26	1.99
15870--15927	20	2.9	20	89	0	98	22	22	25	29	1.99
16714--16757	19	2.3	19	100	0	88	20	20	31	27	1.97
16783--16849	34	2.0	34	85	5	91	25	26	17	29	1.98
29990--30028	20	2.0	20	85	10	53	41	12	7	38	1.72
32551--32588	14	2.7	14	91	0	58	60	18	10	10	1.57
33145--33174	12	2.5	12	100	0	60	16	23	16	43	1.87
37208--37305	49	2.0	49	92	4	162	27	28	14	29	1.95
40054--40090	2	18.5	2	100	0	74	48	0	0	51	1.00
50344--51435	105	10.4	105	94	0	1844	22	18	25	32	1.97
59778--59806	10	2.9	10	100	0	58	79	0	0	20	0.74
61251--61286	2	18.0	2	100	0	72	50	0	0	50	1.00
63959--63996	2	19.5	2	94	5	69	50	0	0	50	1.00
64214--64258	21	2.1	21	87	0	63	37	15	8	37	1.79
64620--64725	39	2.7	39	86	4	133	22	16	9	51	1.72
67096--67125	15	2.0	15	93	0	51	0	13	3	83	0.77
67744--67775	11	2.9	11	100	0	64	62	0	0	37	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
70291--70318	14	2.0	14	100	0	56	57	7	0	35	1.26
72902--73001	30	3.6	28	75	20	102	39	7	0	54	1.28
72906--72959	23	2.3	23	90	3	81	38	7	0	53	1.29
72906--72965	24	2.5	24	89	5	86	36	6	0	56	1.26
72911--73015	28	3.9	27	76	12	72	42	5	0	51	1.25
73034--73126	32	3.0	31	81	9	118	48	0	5	46	1.25
73019--73151	29	4.5	29	77	12	119	51	0	6	42	1.26
75667--75749	2	42.0	2	97	2	159	49	0	0	50	1.00
75736--75952	109	2.0	109	91	0	355	35	10	7	46	1.66
89959--90002	22	2.0	23	86	4	63	25	25	27	22	2.00
89978--90276	147	2.1	142	91	5	483	34	21	16	27	1.94
91069--91144	36	2.1	37	97	2	145	26	15	7	50	1.72
91761--91805	21	2.1	21	83	0	54	15	24	26	33	1.95
95570--95597	2	14.0	2	100	0	56	50	0	0	50	1.00
96116--96146	2	16.0	2	93	6	55	48	0	0	51	1.00
96354--96421	32	2.2	32	89	2	102	54	7	11	26	1.63
99218--99279	23	2.7	23	84	0	88	17	24	6	51	1.69
102989--103098	35	3.2	35	93	1	177	45	15	22	16	1.85
104684--104743	31	1.9	31	86	0	84	26	23	11	38	1.89
107021--107080	29	2.0	31	90	6	97	36	6	15	41	1.73
107259--107300	21	2.0	21	95	0	75	23	21	28	26	1.99
107329--107368	20	1.9	21	85	10	55	37	37	10	15	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
108891--108922	3	10.7	3	100	0	64	68	0	0	31	0.90
108879--109002	12	8.7	15	71	22	51	68	3	1	26	1.14
110380--110430	27	1.9	27	84	11	70	52	5	1	39	1.37
110445--110571	38	3.5	36	80	14	129	42	6	6	44	1.55
110446--110580	34	3.8	35	80	13	134	42	6	5	45	1.55
110533--110597	27	2.6	23	78	11	67	47	7	1	43	1.41
110567--110596	15	1.9	16	93	6	53	53	6	0	40	1.27
110461--110710	125	2.0	125	92	4	425	43	6	5	45	1.52
110583--110779	36	5.4	36	78	10	179	45	5	4	45	1.46
110585--110802	73	3.0	73	81	7	205	44	6	4	44	1.50
111410--112318	165	5.5	165	96	0	1534	24	21	24	29	1.99
117255--117286	3	10.7	3	100	0	64	68	0	0	31	0.90
117243--117366	12	8.7	15	71	22	51	68	3	1	26	1.14
118711--118748	16	2.3	17	86	4	51	73	0	0	26	0.83
118807--118933	38	3.5	36	80	14	129	42	6	6	44	1.55
118808--118942	34	3.8	35	80	13	134	42	6	5	45	1.55
118895--118959	27	2.6	23	78	11	67	47	7	1	43	1.41
118929--118958	15	1.9	16	93	6	53	53	6	0	40	1.27
118823--119072	125	2.0	125	92	4	425	43	6	5	45	1.52
118945--119133	37	5.1	36	79	10	186	44	5	3	46	1.43
119007--119169	74	2.2	71	83	7	193	47	6	3	42	1.46
120276--120343	31	2.2	31	89	0	100	55	7	1	35	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
120731--120777	16	2.9	16	80	0	58	25	21	17	36	1.94
120773--120808	16	2.2	16	90	0	54	27	16	19	36	1.93
120811--120854	16	2.8	16	86	6	63	31	18	9	40	1.81
120991--121017	13	2.1	13	100	0	54	55	0	0	44	0.99
121327--121384	14	4.1	15	80	8	61	18	0	31	50	1.48
121340--121380	7	5.9	7	82	0	55	19	0	34	46	1.50
121468--121524	2	28.0	2	81	10	62	43	1	5	49	1.35
121459--121524	15	4.4	15	86	5	98	42	1	6	50	1.36
121871--121932	14	4.4	14	75	0	61	19	0	32	48	1.49
121883--121922	21	1.9	21	89	0	62	22	0	27	50	1.50
122019--122093	2	37.0	2	97	2	141	49	1	0	49	1.09
121004--122070	544	2.0	539	91	3	1735	35	8	12	43	1.72
122767--122800	17	2.0	17	94	0	59	41	2	5	50	1.42
122776--122875	28	3.4	28	74	12	85	46	5	4	45	1.44
122967--123661	213	3.2	214	93	1	1178	28	12	8	50	1.69
124689--124791	30	3.3	30	72	15	84	23	7	53	15	1.68
125230--125266	19	1.9	19	94	0	65	32	29	16	21	1.95
125292--125386	20	4.6	21	73	2	59	30	20	17	31	1.96
125372--125467	41	2.3	41	94	0	165	35	27	16	20	1.94
125398--125488	21	4.4	21	80	8	114	39	24	16	19	1.92
125373--125446	20	3.7	20	73	10	78	32	28	17	21	1.96
126052--126102	20	2.5	20	90	0	75	9	15	23	50	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
126066--126109	20	2.2	20	87	0	61	9	15	20	54	1.68
127996--128060	20	3.3	20	80	2	60	41	23	16	18	1.90
129905--129941	19	1.9	19	88	0	56	24	16	27	32	1.96
132221--132266	24	1.9	24	82	8	58	63	0	2	34	1.07
132665--132689	2	12.5	2	100	0	50	52	0	0	48	1.00
138073--138122	17	3.1	16	81	16	50	40	0	2	58	1.10
138182--138220	14	2.9	14	80	3	53	56	2	0	41	1.13
143133--143222	42	2.1	42	83	4	110	40	2	2	55	1.24
143195--143281	27	3.3	25	76	14	77	44	1	1	52	1.15
143489--143519	14	2.2	14	94	0	53	32	9	6	51	1.60
147880--147931	15	3.2	16	89	8	79	15	7	30	46	1.74
147880--147942	32	2.0	31	84	3	81	15	9	28	46	1.78
149385--149448	25	2.4	27	79	10	69	31	12	6	50	1.65
158480--158549	35	2.0	35	100	0	140	37	28	8	25	1.85
160612--160694	40	2.1	40	95	4	150	24	25	22	27	2.00
167554--167595	19	2.2	19	95	0	75	40	0	16	42	1.48
172035--172072	17	2.2	17	90	0	58	26	28	13	31	1.93
178935--178982	12	4.0	12	77	0	60	16	14	18	50	1.79
183875--183927	24	2.2	24	86	6	72	15	18	18	47	1.83
183889--183935	12	3.9	12	82	0	67	14	14	19	51	1.77
184110--184165	2	28.0	2	100	0	112	50	0	0	50	1.00
184972--185161	65	3.0	64	75	9	181	27	17	24	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
184972--185131	65	2.5	65	80	6	182	27	17	24	30	1.97
185632--185664	2	16.5	2	100	0	66	51	0	0	48	1.00
185980--186008	15	1.9	15	100	0	58	24	6	62	6	1.45
187841--187916	22	3.5	22	80	5	91	25	21	25	28	1.99
187841--187935	21	4.4	21	80	9	95	24	18	26	30	1.98
191748--191787	21	1.9	21	85	10	55	35	10	2	52	1.48
213926--213962	2	18.0	2	94	5	65	48	0	2	48	1.15
215443--215531	14	6.9	14	65	23	52	11	12	19	57	1.64
215440--215514	24	3.1	24	90	0	105	10	12	18	58	1.61
215475--215524	24	2.1	24	84	0	64	12	16	20	52	1.75

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