genome.fa.s8044.2.7.7.80.10.50.1000.1.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: VEPZ01008044.1 Hibiscus syriacus cultivar Beakdansim tig00110532_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  979496

Tables:   1   2   3   4   

This is table  1  of  4  ( 380 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)
8735--8788	24	2.2	24	90	0	81	42	20	16	20	1.89
9629--9675	20	2.3	20	88	0	67	19	19	29	31	1.96
9662--9754	20	4.7	20	80	5	116	19	20	22	37	1.94
9684--9776	41	2.3	40	81	1	105	25	19	21	33	1.97
13095--13158	33	2.0	31	87	3	83	51	9	23	15	1.72
21061--21090	15	2.0	15	93	0	51	53	20	3	23	1.60
27669--27753	23	3.7	23	92	1	136	23	31	24	20	1.98
27735--27777	19	2.3	19	84	8	52	20	32	32	13	1.92
32382--32414	3	10.7	3	93	6	57	66	0	0	33	0.92
34581--34701	45	2.7	45	84	0	152	38	27	20	13	1.90
36538--36564	14	1.9	14	100	0	54	55	14	0	29	1.40
37115--37158	13	3.3	13	81	6	52	47	25	9	18	1.77
38305--38466	29	5.6	29	79	5	166	38	19	20	21	1.94
38305--38465	87	1.9	87	82	5	209	38	19	20	21	1.94
38305--38468	58	2.8	58	83	0	211	38	18	21	21	1.94
41437--41503	30	2.2	30	86	0	98	43	8	14	32	1.77
43146--43285	66	2.1	66	85	5	185	45	0	7	47	1.30
45321--45347	13	2.1	13	100	0	54	7	7	14	70	1.32
50045--50071	14	1.9	14	100	0	54	51	11	22	14	1.73
50870--50905	17	2.2	16	90	5	54	58	0	0	41	0.98
51233--51279	17	2.9	17	78	6	53	23	21	8	46	1.78
57629--57698	15	4.3	15	72	19	52	74	0	0	25	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57635--57691	21	2.6	22	81	13	73	71	0	0	28	0.86
57635--57689	20	2.8	21	89	8	80	70	0	0	29	0.87
57635--57696	20	3.0	20	77	15	63	70	0	0	29	0.87
62046--62094	19	2.7	17	84	9	53	26	20	28	24	1.99
62111--62162	19	2.7	19	90	0	77	19	17	32	30	1.95
62066--62228	84	2.0	83	83	3	211	26	19	25	29	1.98
62128--62294	65	2.6	65	74	9	171	26	18	23	30	1.98
63266--63306	20	2.0	20	86	9	57	41	7	0	51	1.30
64422--64446	3	8.3	3	100	0	50	0	36	32	32	1.58
66960--67018	21	2.8	21	86	0	91	22	42	28	6	1.79
68108--68173	24	2.8	24	83	0	69	27	43	16	12	1.83
71333--71373	2	20.5	2	84	0	55	0	56	0	43	0.99
71333--71373	12	3.4	12	89	0	64	0	56	0	43	0.99
78573--78612	11	3.0	14	73	26	50	40	20	2	37	1.66
83437--83693	110	2.4	108	82	5	288	24	19	21	34	1.96
84809--84860	7	7.3	7	83	10	52	0	19	1	78	0.84
84817--84860	15	2.8	15	83	10	52	0	20	2	77	0.88
84824--84864	17	2.3	18	84	16	59	0	19	2	78	0.87
94014--94053	20	2.0	20	95	0	71	40	17	5	37	1.72
94003--94122	53	2.3	53	92	4	201	49	15	5	30	1.67
96166--96203	17	2.2	17	86	9	51	47	5	13	34	1.65
98671--98786	53	2.2	53	92	3	191	50	12	6	29	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
100220--100253	10	3.3	10	87	4	50	67	0	2	29	1.05
101619--101707	44	2.0	44	93	0	151	43	7	2	46	1.45
102337--102511	2	95.0	2	74	21	152	54	2	0	42	1.19
102337--102511	16	10.0	17	80	13	171	54	2	0	42	1.19
110407--110466	24	2.5	24	83	0	84	23	20	21	35	1.96
114290--114339	23	2.2	23	92	0	82	26	24	22	28	1.99
117414--117455	19	2.2	20	86	4	59	69	0	7	23	1.13
117447--117484	15	2.5	16	83	12	53	60	2	5	31	1.33
118755--118818	2	32.0	2	77	22	64	50	6	0	43	1.27
118755--118816	22	2.7	22	85	9	72	50	6	0	43	1.28
127266--127318	26	2.0	26	96	0	97	41	7	35	15	1.75
129287--129345	30	1.9	30	86	13	84	52	1	5	40	1.33
130898--130931	17	2.1	16	88	5	50	76	0	8	14	1.01
131406--131452	24	2.0	24	83	8	60	57	12	2	27	1.47
134598--134637	21	1.9	21	89	0	62	35	30	17	17	1.93
135182--135502	103	3.1	103	95	0	572	26	12	23	37	1.91
135519--135581	23	2.7	23	87	4	92	20	26	26	25	1.99
141623--141659	18	2.1	18	89	0	56	27	35	27	10	1.90
142139--142458	103	3.1	103	93	0	552	25	12	24	37	1.91
149355--149387	2	17.5	2	87	12	52	51	0	0	48	1.00
152165--152213	23	2.1	24	88	3	73	42	12	10	34	1.76
152833--153191	45	8.0	45	93	0	601	21	21	11	45	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
153385--153432	23	2.1	23	96	0	87	41	27	14	16	1.87
155095--155153	31	1.9	31	86	3	84	38	20	5	35	1.75
165085--165137	21	2.6	20	82	8	63	30	22	22	24	1.99
176318--176354	14	2.6	15	83	8	51	5	40	0	54	1.24
205453--205499	23	2.0	23	87	4	67	21	14	25	38	1.92
213711--213745	18	1.9	18	94	0	61	48	8	20	22	1.76
218044--218106	27	2.3	27	100	0	126	44	0	15	39	1.47
218101--218135	18	1.9	18	94	0	61	48	8	20	22	1.76
218342--218388	23	2.0	24	87	4	69	23	17	25	34	1.96
222316--222353	18	2.2	18	90	9	62	0	18	2	78	0.86
222649--222680	2	16.0	2	100	0	64	50	0	0	50	1.00
224321--224376	27	2.1	27	86	0	76	60	8	12	17	1.57
225960--226025	29	2.2	29	80	15	73	60	1	6	31	1.30
228233--228304	3	23.7	3	78	13	76	66	0	0	33	0.92
228238--228307	20	3.2	23	69	28	53	67	0	0	32	0.91
228235--228308	25	2.9	25	80	11	87	67	0	0	32	0.91
228233--228307	8	10.4	8	76	23	78	66	0	0	33	0.92
228250--228310	23	2.6	23	82	15	79	67	0	0	32	0.91
232226--232270	15	3.1	15	79	17	51	53	6	0	40	1.27
232247--232365	9	14.1	9	69	18	69	50	5	1	42	1.34
232288--232365	40	1.9	40	87	10	113	53	3	0	42	1.19
232917--232959	17	2.6	17	96	3	79	25	4	6	62	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
241548--241604	23	2.5	22	91	2	87	24	28	26	21	1.99
259913--259937	12	2.1	12	100	0	50	48	8	28	16	1.74
265042--265074	11	3.0	11	95	0	57	24	27	30	18	1.98
265267--265301	18	2.0	18	88	5	54	28	2	11	57	1.48
265418--265476	29	2.0	30	83	3	75	49	15	18	16	1.80
276624--276666	2	22.0	2	95	4	79	51	0	0	48	1.00
292749--293031	140	2.0	140	97	2	539	38	12	13	34	1.83
296046--296080	13	2.6	13	90	4	52	48	8	11	31	1.69
313717--313765	27	2.0	26	84	15	68	55	0	28	16	1.42
319724--319766	21	2.0	21	82	8	52	37	6	6	48	1.57
320861--321040	64	2.8	62	82	9	200	27	18	24	28	1.98
320881--321040	65	2.5	64	87	5	216	28	18	23	29	1.98
320881--321082	65	3.1	65	79	12	186	27	18	24	30	1.98
321538--321570	16	2.1	16	94	0	57	21	24	21	33	1.97
321825--321869	20	2.2	21	88	4	65	48	0	2	48	1.13
321959--322102	30	4.9	30	71	13	113	56	3	2	36	1.31
323642--323689	23	2.0	24	84	4	62	58	6	12	22	1.57
323658--323702	24	1.9	23	81	4	54	66	6	6	20	1.38
326936--326979	3	14.7	3	100	0	88	65	0	0	34	0.93
326727--326973	134	1.9	133	81	1	307	34	13	6	45	1.69
327679--327739	31	2.0	31	93	6	106	32	9	11	45	1.73
328566--328627	31	2.0	31	87	0	88	32	9	16	41	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
329339--329473	68	2.0	69	95	1	245	42	2	11	42	1.56
330107--330144	10	3.5	11	86	13	53	52	2	10	34	1.50
330795--330840	14	3.4	14	74	17	51	43	0	10	45	1.39
330799--330841	13	3.2	13	78	18	52	44	0	11	44	1.40
330795--330849	27	2.0	27	82	6	67	41	0	10	47	1.39
330978--331008	16	1.9	16	100	0	62	35	12	19	32	1.90
334008--334115	45	2.4	45	85	1	155	30	23	7	38	1.82
334112--334154	20	2.2	20	86	0	59	58	18	4	18	1.56
334216--334345	60	2.2	59	83	1	161	30	24	15	30	1.96
341684--341709	7	3.7	7	100	0	52	61	0	11	26	1.30

Tables:   1   2   3   4