genome.fa.s8110.2.7.7.80.10.50.1000.1.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: VEPZ01008110.1 Hibiscus syriacus cultivar Beakdansim tig00110646_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  844371

Tables:   1   2   3   4   5   

This is table  1  of  5  ( 535 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)
55--135	29	2.8	29	96	3	146	44	16	22	17	1.86
511--565	22	2.6	21	88	2	83	36	10	9	43	1.72
7938--7977	20	2.0	20	85	9	55	45	7	7	40	1.61
8162--8205	16	2.6	17	82	7	54	40	6	22	29	1.80
8956--8989	2	17.0	2	100	0	68	50	0	0	50	1.00
10171--10214	11	3.9	11	82	5	52	50	0	0	50	1.00
10251--10291	19	2.2	19	95	4	75	73	4	4	17	1.19
11571--11632	3	20.7	3	93	6	108	64	0	0	35	0.94
11943--12607	113	5.9	112	95	1	1125	29	20	12	38	1.89
11943--12607	225	3.0	224	94	1	1134	29	20	12	38	1.89
13315--13999	84	8.2	84	97	0	1286	36	21	14	27	1.92
15114--15204	15	5.9	15	77	13	69	2	17	0	80	0.82
15115--15200	16	4.9	17	79	16	88	2	15	0	82	0.77
15125--15200	17	4.6	16	84	12	91	2	14	0	82	0.77
15114--15203	11	8.3	11	76	19	82	2	16	0	81	0.80
25566--25602	15	2.7	15	88	12	53	62	8	5	24	1.44
26331--26365	12	2.8	13	87	12	56	57	0	0	42	0.99
26405--26453	19	2.7	18	90	9	82	73	4	4	18	1.15
27253--27294	18	2.3	19	80	12	52	0	19	2	78	0.86
27735--27796	3	20.7	3	93	0	106	62	1	1	33	1.14
32148--32198	25	2.0	25	100	0	102	23	3	15	56	1.56
35654--35757	7	14.9	7	70	11	52	23	0	31	45	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35664--35761	21	4.7	21	73	19	80	24	0	29	45	1.53
35643--35715	35	2.1	35	85	10	96	28	0	27	43	1.55
35651--35743	42	2.2	42	83	7	109	25	0	30	44	1.55
37437--37523	26	3.3	26	88	1	129	1	19	24	55	1.50
37896--37932	17	2.2	17	95	0	65	24	16	29	29	1.96
37917--37981	11	5.6	11	72	22	53	26	26	23	24	2.00
37911--37982	23	3.1	23	83	2	99	25	26	23	25	2.00
39107--39153	19	2.6	18	83	12	60	80	8	4	6	1.00
39121--39159	17	2.4	15	84	16	51	84	10	2	2	0.81
40163--40201	6	6.2	6	88	11	60	20	0	0	79	0.73
40163--40204	14	3.1	14	80	13	52	21	0	0	78	0.75
40163--40201	20	2.0	20	90	9	64	20	0	0	79	0.73
46977--47020	13	3.4	13	87	6	63	45	9	11	34	1.72
47489--47548	23	2.7	23	92	2	95	35	16	26	21	1.95
47490--47569	22	3.6	22	89	3	108	33	15	27	23	1.94
52957--53142	74	2.5	74	87	1	255	22	19	28	29	1.98
54374--54427	22	2.6	21	91	5	83	14	20	44	20	1.86
56634--56683	27	1.9	26	88	8	75	42	4	4	50	1.40
56855--56893	20	2.0	20	84	0	51	23	7	23	46	1.78
68847--68913	31	2.2	31	81	5	82	44	1	40	13	1.53
69211--69271	28	2.2	28	82	11	72	62	4	1	31	1.26
69288--69328	15	2.9	14	82	7	55	70	0	0	29	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
70083--70116	2	17.0	2	100	0	68	50	0	0	50	1.00
70862--71175	54	5.9	53	82	10	365	27	18	21	32	1.97
70862--71175	107	3.0	106	84	8	392	27	18	21	32	1.97
70862--71162	53	5.7	52	82	11	285	26	18	21	32	1.97
70862--71175	157	2.0	161	84	6	417	27	18	21	32	1.97
71598--71666	22	3.4	20	75	13	70	23	30	17	28	1.97
71543--71728	95	2.0	95	89	4	286	25	24	17	32	1.97
71567--71749	95	1.9	95	84	4	237	27	22	17	32	1.97
77627--77738	34	3.2	35	91	3	181	41	20	4	33	1.72
82233--82351	35	3.3	36	87	5	161	44	17	5	32	1.71
82728--83027	165	1.8	163	89	1	474	27	19	21	31	1.98
82728--83024	54	5.4	54	90	2	432	27	19	21	30	1.98
83466--83522	22	2.8	20	82	10	69	26	29	15	28	1.96
83511--83535	13	1.9	13	100	0	50	24	32	28	16	1.96
107018--107075	31	1.9	30	82	3	71	43	10	0	46	1.38
107121--107256	29	4.7	29	85	6	177	36	8	0	54	1.32
107121--107256	57	2.3	58	82	8	186	36	8	0	54	1.32
107330--107449	54	2.2	53	91	2	186	51	0	8	40	1.32
107358--107416	23	2.4	23	81	15	66	50	0	10	38	1.36
107350--107666	60	5.4	60	73	8	199	51	1	9	38	1.44
107311--107667	30	12.2	30	73	12	176	51	1	8	38	1.41
107519--107668	59	2.5	61	80	7	191	53	2	8	36	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
111423--111487	3	21.7	3	96	0	121	33	1	0	64	1.03
111641--111695	16	3.5	16	97	2	103	7	58	18	16	1.60
111862--111908	18	2.6	18	86	6	60	61	6	31	0	1.21
111976--112017	15	2.8	15	85	7	50	73	2	21	2	1.06
111976--112017	20	2.1	20	86	8	59	73	2	21	2	1.06
124608--124652	16	2.8	16	83	10	56	28	8	6	55	1.56
125395--126325	83	11.2	83	96	0	1628	28	13	21	37	1.91
126238--126493	104	2.4	105	97	1	487	29	12	22	35	1.91
127222--127779	116	4.9	115	89	4	801	36	12	20	30	1.90
128096--128139	3	14.7	3	95	0	79	34	2	0	63	1.07
128479--128527	17	2.7	19	84	12	68	61	8	30	0	1.25
136048--136417	37	9.8	37	81	10	423	42	4	7	45	1.50
136453--136498	7	6.7	7	85	14	60	23	2	0	73	0.94
136457--136497	20	2.0	20	86	9	57	24	2	0	73	0.96
138523--138610	46	1.9	46	100	0	176	26	20	18	35	1.95
138935--138975	20	2.0	22	90	9	68	7	12	2	78	1.06
139883--139942	30	2.1	29	82	17	72	43	18	18	20	1.88
142583--143735	84	13.8	84	84	3	1375	35	22	18	24	1.96
144311--144675	36	10.1	36	78	13	342	43	3	6	46	1.47
144458--144518	27	2.3	27	86	10	74	44	1	6	47	1.39
144421--144550	64	2.1	62	87	8	183	45	3	6	45	1.44
144483--144676	37	5.1	38	76	13	168	40	2	7	50	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
144483--144676	39	5.1	37	77	10	178	40	2	7	50	1.42
144689--144721	16	2.1	16	94	0	57	27	0	3	69	1.03
151539--151597	20	2.9	21	80	9	77	32	16	25	25	1.97
151634--151696	21	3.0	22	84	11	78	33	17	26	22	1.96
152012--152178	59	2.9	58	89	3	246	32	12	20	34	1.90
152561--152812	68	3.7	68	92	1	425	33	14	23	28	1.94
152762--153050	81	3.6	81	89	0	436	35	12	23	28	1.91
154058--154098	21	1.9	21	85	5	55	53	12	12	21	1.70
159721--159762	2	21.0	2	100	0	84	0	50	0	50	1.00
161557--162298	369	2.0	369	98	0	1430	39	14	16	29	1.88
164012--164037	5	5.2	5	100	0	52	42	19	0	38	1.51
168332--168419	40	2.2	40	83	0	104	31	20	13	34	1.92
182675--182702	10	2.8	10	100	0	56	21	32	0	46	1.52
182756--182843	40	2.2	40	83	0	104	29	20	14	35	1.93
183161--183482	83	3.9	82	93	2	533	40	19	13	27	1.88
183161--183482	163	2.0	164	93	2	558	40	19	13	27	1.88
186169--186232	3	21.7	3	90	3	103	65	0	1	32	1.02
186547--187100	113	4.9	114	89	3	728	29	19	12	38	1.89
186547--187100	227	2.4	227	85	7	732	29	19	12	38	1.89
187736--188680	83	11.4	83	97	0	1779	35	21	14	28	1.92
189422--189465	18	2.6	18	89	7	65	52	6	6	34	1.55
189797--189826	10	3.0	10	100	0	60	0	10	0	90	0.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
200440--200490	18	2.9	17	75	16	50	72	1	0	25	0.95
201143--201189	13	3.5	13	77	13	51	55	2	2	40	1.24
202618--202730	3	37.7	3	98	0	208	64	0	1	33	1.04
203624--203706	7	11.6	7	73	10	51	38	1	9	50	1.43
203750--203796	15	3.3	15	80	17	55	42	8	0	48	1.33
203744--203796	21	2.6	21	78	3	63	43	7	0	49	1.31
204861--204899	20	2.0	20	89	0	60	15	5	0	79	0.90
204862--204905	20	2.2	20	83	0	52	13	9	0	77	0.99
210782--210920	75	1.9	75	87	0	206	35	20	15	28	1.93
210851--211325	85	5.7	85	85	3	570	35	19	18	26	1.95

Tables:   1   2   3   4   5