genome.fa.s9137.2.7.7.80.10.50.1000.1.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: VEPZ01009137.1 Hibiscus syriacus cultivar Beakdansim tig00112637_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  390993

Tables:   1   2   

This is table  1  of  2  ( 236 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)
1111--1185	37	2.1	36	85	7	98	46	1	2	49	1.24
1335--1377	20	2.3	19	88	8	61	20	18	9	51	1.74
1618--1649	2	16.5	2	93	6	57	53	0	0	46	1.00
3536--3560	2	12.5	2	100	0	50	0	52	0	48	1.00
8754--8782	2	14.5	2	100	0	58	48	0	0	51	1.00
11809--11865	15	3.7	15	77	13	53	70	5	1	22	1.17
11834--11890	21	2.8	21	75	17	57	71	5	1	21	1.14
29059--29507	229	2.0	227	94	2	785	44	8	7	39	1.62
29572--29617	20	2.3	19	89	10	74	54	10	17	17	1.70
29738--29784	20	2.4	19	79	10	58	55	8	17	19	1.67
31992--32057	33	2.0	33	87	0	96	28	1	45	24	1.62
33844--33887	19	2.4	19	92	3	72	31	2	9	56	1.43
33970--34988	198	5.1	199	96	1	1845	37	15	15	32	1.88
33970--34988	397	2.6	394	96	1	1853	37	15	15	32	1.88
36442--36509	21	3.4	18	69	21	55	36	8	35	19	1.83
36442--36539	6	16.3	6	80	0	70	36	7	34	21	1.81
36457--36543	3	29.0	3	77	0	84	35	5	34	24	1.79
36445--36535	42	2.2	42	91	0	146	35	7	35	21	1.83
36442--36539	18	5.4	18	78	0	88	36	7	34	21	1.81
38011--38679	183	3.7	184	96	1	1236	35	14	15	34	1.89
41234--41296	23	2.8	23	85	2	83	34	6	20	38	1.78
41234--41305	23	3.2	23	84	5	76	33	5	20	40	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41451--41517	30	2.2	30	82	10	75	52	4	0	43	1.21
41660--41724	23	2.8	23	88	0	94	35	6	20	38	1.77
41660--41733	23	3.2	23	83	7	87	33	5	20	40	1.75
42090--42154	23	2.8	23	90	0	94	35	7	18	38	1.80
42358--42394	18	2.1	18	89	0	56	32	5	10	51	1.60
42350--42396	24	2.0	24	86	0	67	34	4	14	46	1.64
61008--61078	32	2.2	32	87	5	108	26	45	15	12	1.82
61336--61392	29	2.0	29	85	0	78	17	33	26	22	1.96
61691--61748	26	2.3	26	93	3	100	50	6	36	6	1.56
61688--61752	26	2.4	27	87	10	96	52	6	35	6	1.51
62209--62239	15	2.1	14	94	5	53	38	0	6	54	1.26
64445--64491	14	3.6	14	75	21	57	46	17	0	36	1.48
64446--64636	24	7.9	24	69	16	135	47	11	0	41	1.40
64445--64540	14	6.7	14	69	19	56	48	12	0	38	1.41
64484--64622	34	4.2	34	64	16	87	48	8	0	43	1.34
64464--64674	48	4.3	49	94	1	354	46	10	0	42	1.38
64756--64803	14	3.6	14	81	16	66	47	16	0	35	1.47
64755--64803	25	2.0	25	95	0	89	46	16	0	36	1.47
64755--64813	25	2.6	22	86	10	75	49	13	0	37	1.43
64755--64824	21	3.1	22	80	12	63	50	11	0	38	1.39
64878--65022	21	7.2	21	64	20	58	45	12	0	41	1.47
64771--65424	120	5.6	120	79	13	724	45	11	1	41	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
64771--65082	60	5.3	60	90	5	503	46	10	0	42	1.41
65160--65203	14	3.4	14	78	18	58	45	18	0	36	1.49
65155--65203	25	2.0	25	91	0	80	46	16	2	34	1.58
64560--65424	400	2.2	403	94	3	1508	44	11	2	41	1.54
65217--65261	23	1.9	24	86	4	65	42	13	0	44	1.43
65216--65268	24	2.3	23	80	3	61	47	11	0	41	1.39
65171--65424	60	4.2	60	92	2	431	46	12	0	41	1.41
65284--65371	21	4.3	21	67	18	60	44	13	0	42	1.44
66934--66971	19	2.0	20	94	5	69	28	15	28	26	1.96
66939--67096	62	2.5	61	83	9	178	32	18	21	27	1.96
68412--68447	18	2.0	18	100	0	72	11	22	33	33	1.89
68309--68672	121	3.0	121	96	0	665	25	14	24	35	1.94
68533--68568	18	2.0	18	94	0	63	11	19	33	36	1.87
68680--68739	23	2.6	23	91	0	93	20	26	28	25	1.99
71847--71909	17	3.6	17	74	14	65	53	9	0	36	1.33
72685--72734	23	2.2	23	82	3	57	38	10	20	32	1.85
72859--72902	23	1.9	23	95	0	79	29	27	20	22	1.99
72971--73077	26	4.0	28	77	16	93	10	22	44	22	1.82
72987--73047	24	2.4	27	84	15	78	11	22	42	22	1.86
73037--73102	32	2.1	31	91	5	107	9	15	48	27	1.74
74235--74473	41	5.8	41	70	14	143	30	16	22	30	1.96
74255--74473	82	2.7	82	83	6	248	31	16	22	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
74296--74503	82	2.5	80	79	10	231	31	15	21	31	1.95
75986--76021	18	2.0	18	100	0	72	38	27	22	11	1.88
75944--76063	60	2.0	60	91	0	195	35	19	23	22	1.96
76005--76358	42	8.5	42	88	1	487	35	16	21	26	1.94
76009--76358	125	2.8	124	88	1	513	35	16	21	26	1.94
76719--76767	23	2.1	23	92	0	80	4	38	22	34	1.73
83580--83662	21	4.0	21	80	0	85	39	15	39	4	1.69
83630--83676	21	2.2	21	92	0	76	42	19	36	2	1.63
84090--84270	85	2.1	86	81	3	213	27	24	22	25	2.00
84090--84270	43	4.2	42	84	2	191	27	24	22	25	2.00
84105--84315	43	5.0	42	80	2	172	27	24	19	27	1.99
84382--84432	21	2.5	21	90	3	86	50	15	15	17	1.78
85491--85526	18	1.9	18	88	5	54	77	0	2	19	0.88
94438--94507	28	2.5	28	92	2	113	42	18	10	28	1.82
99099--99276	84	2.1	84	85	0	230	38	22	12	25	1.90
103878--103917	17	2.4	17	91	0	62	35	0	10	55	1.34
113805--113864	29	2.1	29	100	0	120	16	38	15	30	1.89
118531--118811	130	2.2	130	88	1	420	33	20	22	24	1.97
126040--126255	45	4.8	45	84	1	281	31	21	21	24	1.98
126040--126255	89	2.4	90	84	2	274	31	21	21	24	1.98
146704--146737	16	2.1	16	94	0	59	32	8	26	32	1.87
159923--160047	34	3.8	34	72	19	111	42	9	15	32	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
160406--160442	14	2.7	13	91	8	56	24	0	0	75	0.80
160406--160440	13	2.5	14	86	13	54	22	0	0	77	0.78
160404--160442	17	2.4	17	86	4	62	25	0	0	74	0.82
160440--160476	2	18.5	2	94	0	65	45	0	2	51	1.15
160598--160624	14	1.9	14	100	0	54	22	0	3	74	0.98
160926--160959	9	3.8	9	92	7	52	20	2	0	76	0.92
160926--160960	13	2.6	14	90	4	54	20	2	0	77	0.90
162921--162960	18	2.2	18	100	0	80	20	32	12	35	1.90
164666--164747	16	5.1	16	74	22	59	76	8	14	0	1.00
164672--164739	22	3.0	22	76	22	52	77	7	14	0	0.96
164673--164746	38	2.0	37	84	7	96	77	8	14	0	0.99
164672--164739	8	8.9	7	77	19	57	77	7	14	0	0.96
165397--165445	22	2.2	22	92	0	80	32	24	14	28	1.94
165860--165895	18	2.0	18	88	0	54	19	8	30	41	1.81
166373--166654	36	8.0	36	77	8	267	26	19	14	40	1.89
166393--166717	138	2.4	137	81	3	393	28	19	12	39	1.88
167389--168047	105	6.3	105	91	2	999	33	25	17	22	1.96
168594--168718	34	3.8	34	73	19	120	42	9	16	32	1.80
169077--169115	14	2.8	13	88	11	51	23	2	2	71	1.10
169075--169117	18	2.5	17	81	7	52	25	2	2	69	1.12
169115--169153	2	19.5	2	94	0	69	46	0	2	51	1.14
169607--169640	9	3.8	9	92	7	52	20	2	0	76	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
169607--169641	13	2.6	14	90	4	54	20	2	0	77	0.90
171599--171708	7	15.7	7	100	0	220	13	29	14	42	1.84
192529--192556	14	2.0	14	100	0	56	50	7	0	42	1.30
198572--198823	64	3.6	74	75	13	194	46	4	6	43	1.49
198570--198897	34	9.5	35	68	23	121	46	3	6	43	1.48
198754--198886	64	2.1	62	80	9	144	46	3	6	42	1.48
198818--198893	36	2.2	34	86	9	100	48	2	5	43	1.39
198563--198887	175	1.8	177	82	8	421	46	4	6	43	1.48
198933--198962	14	2.1	14	100	0	60	20	0	0	80	0.72
201963--202007	19	2.4	19	92	3	74	11	13	8	66	1.44

Tables:   1   2