genome.fa.s9458.2.7.7.80.10.50.1000.1.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: VEPZ01009458.1 Hibiscus syriacus cultivar Beakdansim tig00113719_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1407308

Tables:   1   2   3   4   5   6   

This is table  1  of  6  ( 671 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)
2401--2441	8	5.2	8	82	5	57	34	0	29	36	1.58
2509--3105	125	4.8	125	98	1	1139	21	26	19	32	1.97
3495--3593	33	3.0	34	83	5	139	39	3	4	53	1.35
4105--4198	21	4.5	21	92	5	129	20	26	35	18	1.95
4202--4249	21	2.3	21	85	0	60	22	12	39	25	1.89
5990--6058	15	4.5	15	74	13	59	63	5	0	30	1.17
6766--6844	21	3.8	20	88	8	113	22	16	27	32	1.96
6768--6903	21	6.8	21	73	13	106	22	14	28	33	1.94
7175--7263	31	2.9	31	93	3	144	25	12	15	46	1.81
7175--7278	31	3.4	30	86	7	129	26	13	16	43	1.85
29590--29621	2	15.5	2	93	6	55	50	3	0	46	1.17
33745--33789	18	2.6	18	85	3	56	57	0	4	37	1.19
34961--35027	31	2.2	31	81	5	73	20	7	13	58	1.59
45429--45473	21	2.1	21	87	0	63	15	6	28	48	1.70
46000--46038	20	2.0	20	85	10	53	43	15	7	33	1.75
50988--51053	32	2.1	32	91	5	107	33	7	19	39	1.80
52546--52587	10	3.7	11	81	12	50	30	0	2	66	1.04
52544--52588	21	2.0	23	91	8	76	35	0	2	62	1.08
57691--57723	8	4.1	8	100	0	66	75	0	0	24	0.80
63749--64181	216	2.0	216	87	2	618	24	15	22	38	1.92
72189--72222	14	2.3	15	85	10	52	23	38	32	5	1.79
72204--72288	33	2.6	33	79	3	91	25	23	38	11	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
72292--72347	29	1.9	29	96	0	103	19	30	37	12	1.89
72406--72462	29	2.0	29	92	0	96	21	29	33	15	1.94
76165--76198	2	17.5	2	87	6	52	52	0	0	47	1.00
81134--81178	2	22.5	2	100	0	90	48	0	0	51	1.00
81752--81788	19	1.9	19	88	0	56	70	2	0	27	1.01
82183--82436	132	1.9	132	80	4	298	38	10	17	33	1.84
86426--86450	2	12.5	2	100	0	50	48	0	0	52	1.00
90497--90670	89	2.0	89	100	0	348	33	11	26	28	1.91
90989--91089	30	3.4	30	81	1	96	42	7	11	37	1.71
91488--91567	33	2.5	32	76	15	85	45	0	5	50	1.23
91514--91574	22	2.7	23	76	14	65	47	0	1	50	1.10
91577--91624	19	2.6	18	76	6	51	56	0	2	41	1.11
94938--95032	24	4.0	24	77	0	91	21	12	16	49	1.79
109738--109763	13	2.0	13	100	0	52	38	15	15	30	1.88
117411--117892	263	1.8	265	82	6	618	37	15	13	32	1.86
120261--120320	30	2.0	31	86	3	86	40	13	20	26	1.89
122205--122278	38	2.0	37	84	5	96	44	1	4	50	1.29
122873--122905	12	2.8	12	100	0	66	15	33	24	27	1.95
129048--129080	15	2.2	15	100	0	66	45	6	21	27	1.75
141682--141758	39	2.0	39	84	0	100	35	14	37	12	1.84
158820--158873	21	2.6	21	87	0	81	29	16	24	29	1.97
158972--159020	21	2.5	19	90	6	71	40	20	20	18	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
159006--159080	20	3.7	20	73	3	78	44	22	17	16	1.87
158985--159109	41	3.0	41	88	4	146	41	22	17	18	1.90
159032--159101	21	3.4	21	70	4	70	40	27	11	21	1.87
166737--166761	12	2.1	12	100	0	50	48	0	0	52	1.00
170224--170256	17	2.0	17	88	5	50	36	0	3	60	1.12
172427--172554	48	2.7	48	80	3	134	32	21	17	28	1.96
173678--173765	30	2.9	30	75	16	92	20	12	13	53	1.72
173678--173754	29	2.6	30	79	8	86	20	11	12	54	1.69
179054--179084	16	1.9	16	93	0	53	41	41	9	6	1.63
179727--179869	70	2.0	70	85	6	191	55	9	16	18	1.67
179727--179869	71	2.0	70	85	6	191	55	9	16	18	1.67
180052--180208	76	2.1	76	87	2	226	51	19	17	12	1.75
180541--180612	29	2.5	29	97	0	135	30	11	20	37	1.88
181411--181454	21	2.1	21	87	8	63	34	15	4	45	1.67
188948--188991	13	3.5	13	90	6	72	18	52	15	13	1.75
188993--189081	30	3.0	30	73	15	71	55	0	0	44	0.99
189021--189081	24	2.5	26	77	17	69	55	0	0	44	0.99
189039--189078	19	2.1	19	85	0	53	55	0	0	45	0.99
189099--189141	12	3.7	12	90	3	61	32	46	9	11	1.72
189582--189623	21	2.0	21	85	0	57	42	2	16	38	1.61
192333--192375	22	2.0	22	82	8	54	18	6	4	69	1.29
192362--192386	6	4.2	6	100	0	50	0	16	0	84	0.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
192751--192798	2	24.0	2	100	0	96	50	0	0	50	1.00
193068--193125	28	2.1	27	87	6	82	50	20	8	20	1.75
193075--193137	28	2.2	29	80	8	76	55	17	7	19	1.66
193336--193374	20	2.0	20	85	10	53	12	7	2	76	1.09
197253--197430	59	3.0	58	77	4	203	39	5	21	32	1.77
197456--197491	2	18.0	2	100	0	72	50	0	0	50	1.00
209754--210417	330	2.0	330	98	0	1292	35	17	15	31	1.91
210646--210711	28	2.3	29	80	19	77	48	3	6	42	1.43
211658--211763	55	1.9	56	82	5	135	39	12	6	41	1.69
218700--218733	14	2.5	14	90	4	52	47	32	0	20	1.51
220983--221085	32	3.2	32	94	1	179	40	8	10	39	1.71
232362--232401	2	20.5	2	94	5	73	50	0	0	50	1.00
232413--232485	20	3.6	19	73	12	58	50	0	0	49	1.00
233160--233236	29	2.7	29	91	0	127	16	33	28	20	1.95
233303--233359	29	2.0	29	96	0	105	15	36	28	19	1.92
233363--233432	33	2.1	33	89	5	106	8	40	24	27	1.84
233377--233447	33	2.2	33	86	0	97	11	36	26	25	1.90
233429--233461	14	2.4	14	94	0	57	12	30	33	24	1.91
233535--233610	29	2.6	29	95	0	134	25	26	35	13	1.92
243216--243295	30	2.7	30	75	22	80	52	2	1	43	1.22
244007--244036	2	15.0	2	100	0	60	50	0	0	50	1.00
258447--258520	3	24.7	3	91	0	121	32	1	1	64	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
271050--271141	19	4.7	18	79	16	87	82	0	15	2	0.76
271048--271141	34	2.7	35	82	11	122	80	0	15	3	0.83
272174--272649	83	5.7	83	91	1	785	27	13	22	36	1.91
273292--273962	113	5.9	112	89	2	943	37	13	19	29	1.90
273558--273602	24	1.9	23	82	13	56	48	6	26	17	1.72
273284--273962	225	3.0	225	89	3	981	37	13	19	29	1.90
273284--273962	338	2.0	340	90	2	1060	37	13	19	29	1.90
274279--274370	3	30.7	3	91	0	148	32	2	1	64	1.13
278829--278865	20	1.9	19	89	10	58	45	10	24	18	1.81
285476--285508	16	2.1	16	100	0	66	21	42	6	30	1.77
286234--286361	59	2.2	59	86	1	175	33	17	14	34	1.90
290673--290703	4	7.8	4	92	0	53	48	0	3	48	1.17
290961--291012	18	2.9	18	83	11	54	36	5	5	51	1.50
300068--300217	6	25.0	6	98	0	255	49	14	0	36	1.43
300455--300505	22	2.3	22	86	0	66	21	35	17	25	1.95
302120--302262	60	2.4	59	84	4	180	38	16	11	34	1.84
306821--306873	24	2.2	25	80	10	65	58	9	15	16	1.62
306921--306965	19	2.2	21	80	7	58	22	2	6	68	1.24
309841--309892	22	2.4	22	93	0	86	34	13	9	42	1.77
310730--310770	21	2.0	21	90	0	64	51	4	9	34	1.56
329234--329347	60	1.9	60	80	7	133	38	13	11	36	1.80
331081--331123	21	2.1	21	86	4	61	34	4	0	60	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
335831--335862	13	2.4	13	94	5	55	56	6	0	37	1.25
336027--336086	20	3.0	20	88	7	79	25	16	5	53	1.63
336802--338559	298	5.6	304	87	9	2365	36	11	15	36	1.85
336638--338559	627	3.0	627	93	3	3112	35	11	16	35	1.85
337714--338559	331	2.6	331	95	0	1525	36	11	15	35	1.84
339077--339308	116	2.0	115	86	5	324	29	14	6	49	1.67
351935--351960	2	13.0	2	100	0	52	50	0	0	50	1.00
352159--352247	46	1.9	46	88	0	133	38	12	14	34	1.84
359818--359850	17	1.9	17	100	0	66	54	3	0	42	1.15
373743--373953	14	16.1	14	76	13	218	16	28	50	4	1.63

Tables:   1   2   3   4   5   6