genome.fa.s9000.2.7.7.80.10.50.1000.1.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: VEPZ01009000.1 Hibiscus syriacus cultivar Beakdansim tig00112382_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1742898

Tables:   1   2   3   4   5   6   7   8   9   

This is table  1  of  9  ( 1003 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)
5471--5499	14	2.1	14	100	0	58	41	0	13	44	1.44
5611--5640	15	2.0	15	100	0	60	40	6	6	46	1.56
15406--15512	51	2.3	47	84	12	132	55	13	0	31	1.38
19027--19138	59	1.9	59	86	0	161	36	18	17	26	1.94
21513--21564	20	2.5	20	84	9	70	28	25	19	26	1.98
27235--27285	13	3.9	13	86	0	75	41	15	9	33	1.80
27235--27285	26	2.0	26	92	0	84	41	15	9	33	1.80
28338--28471	72	1.9	72	87	0	196	24	18	23	33	1.97
35740--35793	22	2.3	23	81	15	67	50	12	3	33	1.59
45351--45406	28	2.0	29	82	10	71	30	1	3	64	1.21
46194--46245	20	2.6	20	84	0	68	30	19	25	25	1.98
53013--53038	13	2.0	13	100	0	52	38	15	23	23	1.92
67388--67540	45	3.4	47	82	12	194	30	21	18	29	1.97
67417--67541	46	2.7	46	90	6	193	29	21	17	31	1.96
68957--68993	18	2.0	20	84	10	51	35	5	5	54	1.47
91433--91478	24	1.9	24	86	0	65	50	0	0	50	1.00
92085--92128	23	1.9	23	86	9	63	25	6	2	65	1.28
93777--93823	24	1.9	25	86	4	69	36	6	6	51	1.53
99047--99089	23	1.9	22	90	4	68	72	6	0	20	1.08
99797--99830	17	1.9	18	88	5	52	17	26	29	26	1.98
102374--102422	26	1.9	26	87	4	73	46	14	8	30	1.73
104922--105139	103	2.1	103	100	0	436	24	12	25	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
105164--105218	23	2.4	23	87	6	76	23	21	23	30	1.99
111883--112100	103	2.1	103	98	0	418	25	12	24	37	1.91
112117--112184	23	3.0	23	82	4	84	22	23	26	27	1.99
114668--114737	21	3.4	21	73	15	65	28	18	18	34	1.95
114668--114747	41	2.0	41	90	5	126	28	22	16	32	1.95
114672--114758	41	2.1	41	85	4	113	27	22	18	31	1.97
121041--121276	114	2.1	114	97	0	445	34	16	19	28	1.94
125342--125547	114	1.8	114	85	8	294	19	33	15	31	1.93
138704--139029	44	7.5	43	85	6	383	34	23	22	20	1.97
143375--143837	44	10.6	44	87	1	533	34	23	22	19	1.96
146245--146285	20	2.1	19	95	4	73	34	21	21	21	1.97
158726--158830	30	3.6	30	73	10	99	48	9	5	36	1.60
158739--158829	28	3.2	28	71	4	83	48	10	6	34	1.64
158738--158857	58	2.1	58	90	1	188	46	13	8	31	1.72
158738--158857	29	4.1	29	72	4	89	46	13	8	31	1.72
160009--160049	21	2.0	21	95	0	73	41	17	0	41	1.49
160131--160198	27	2.5	27	92	0	109	51	19	13	16	1.76
163808--163836	14	2.0	15	93	6	51	62	0	0	37	0.96
164098--164166	30	2.3	30	87	5	95	49	11	2	36	1.54
165352--165383	7	4.6	7	96	0	55	50	0	50	0	1.00
166552--166690	41	3.4	41	76	6	120	27	12	23	36	1.91
166617--166714	41	2.3	41	78	5	106	25	14	25	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
166876--167003	41	3.1	41	80	2	132	26	18	18	35	1.94
169602--169803	54	3.7	54	93	0	332	32	19	18	29	1.95
172369--172466	45	2.3	41	80	13	117	50	12	4	33	1.59
175494--175553	21	2.9	20	87	7	84	20	6	21	51	1.70
179652--179691	3	13.3	3	100	0	80	32	0	0	67	0.91
179690--179721	3	10.7	3	93	0	55	34	28	0	37	1.57
179654--179729	6	12.7	6	92	0	53	32	13	1	52	1.48
181210--181244	17	2.1	17	89	10	54	40	5	2	51	1.40
188388--188412	2	12.5	2	100	0	50	48	0	0	52	1.00
196681--196723	10	4.4	10	82	5	61	25	0	0	74	0.82
198969--199016	13	3.7	13	80	5	53	35	27	18	18	1.95
200523--200569	24	2.0	23	84	12	60	42	4	4	48	1.42
200558--200621	30	2.1	31	82	8	78	45	0	4	50	1.22
202761--202922	85	1.9	85	97	0	306	29	14	14	41	1.85
204364--204401	18	2.1	18	90	0	58	31	13	7	47	1.71
205144--205196	2	27.0	2	96	3	99	50	0	0	49	1.00
206841--206896	6	9.0	6	77	14	51	75	0	0	25	0.81
206844--206892	16	3.1	16	78	18	50	73	0	0	26	0.83
206843--206896	18	2.8	19	76	18	58	74	0	0	25	0.83
206843--206893	26	2.0	26	84	7	68	74	0	0	25	0.82
207142--207721	164	3.5	163	80	6	625	23	20	26	30	1.98
207142--207720	80	7.0	80	80	7	565	23	20	26	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
207120--207726	83	7.3	84	81	6	630	23	20	26	30	1.98
207973--208824	106	8.0	106	91	1	1314	23	17	24	33	1.96
207842--208824	318	3.1	316	90	2	1457	23	17	24	33	1.96
214030--214088	30	2.0	29	83	3	73	71	1	0	27	0.96
214030--214085	27	2.1	27	86	3	78	71	1	0	26	0.96
217138--217167	14	2.1	14	93	0	51	80	3	13	3	0.97
226603--226645	20	2.1	21	87	8	63	23	11	20	44	1.84
229175--229214	21	2.0	21	90	5	64	35	17	17	30	1.93
266895--266933	17	2.3	17	100	0	78	35	30	5	28	1.79
272403--272466	26	2.5	26	82	2	67	64	6	9	20	1.45
272413--272466	26	2.1	25	90	10	83	62	5	9	22	1.45
278960--278998	20	2.0	20	85	5	53	79	2	12	5	1.00
285149--285187	20	1.9	21	84	5	53	33	0	38	28	1.57
288189--288275	3	29.0	3	85	0	111	40	1	0	58	1.05
288390--288430	16	2.6	16	100	0	82	7	56	19	17	1.64
290348--290390	21	2.1	20	86	4	59	34	2	2	60	1.22
291820--291861	15	3.0	14	83	10	50	19	19	7	54	1.66
297352--297692	114	3.0	114	94	0	574	32	15	20	30	1.94
300216--300273	22	2.6	22	88	0	89	32	15	13	37	1.87
300676--301352	113	6.0	113	91	2	1022	38	14	18	29	1.89
301687--301782	3	32.0	3	84	0	129	39	1	0	59	1.04
301895--301935	16	2.6	16	92	0	73	9	56	17	17	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
304043--304138	42	2.3	43	87	3	133	17	19	22	39	1.92
305143--305181	20	2.0	20	89	0	60	48	15	7	28	1.72
309597--309638	17	2.5	17	76	3	50	50	2	16	30	1.58
309707--309759	24	2.1	24	93	6	88	37	0	3	58	1.16
309818--309855	19	2.0	19	100	0	76	26	26	5	42	1.76
310029--310063	2	17.5	2	100	0	70	51	0	0	48	1.00
310185--310214	2	15.0	2	100	0	60	50	0	0	50	1.00
310534--310559	6	4.3	6	100	0	52	0	38	15	46	1.46
313506--313568	30	2.2	30	85	5	94	30	15	3	50	1.60
313583--313607	13	1.9	13	100	0	50	40	24	8	28	1.83
314701--314822	30	4.1	30	90	6	187	43	12	0	44	1.41
314701--314822	58	2.1	59	89	6	185	43	12	0	44	1.41
314739--314820	16	5.4	16	64	29	54	46	12	0	41	1.41
314808--314893	30	2.9	29	81	10	102	32	6	3	56	1.43
314945--315049	29	3.5	29	81	7	120	38	9	1	50	1.46
315109--315180	30	2.5	28	78	13	83	55	0	8	36	1.30
315614--315684	29	2.5	28	81	6	81	57	5	4	32	1.41
315674--315713	21	1.9	21	89	0	62	62	2	5	30	1.29
316707--316761	19	3.0	18	74	25	53	54	1	5	38	1.34
316720--316776	19	2.8	20	72	17	55	59	1	3	35	1.25
319087--319135	23	2.1	23	100	0	98	46	8	8	36	1.63
323985--324032	21	2.5	19	80	12	55	29	12	27	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
324594--324910	44	7.2	44	90	0	474	41	13	23	22	1.89
331360--331437	22	3.7	21	67	19	54	38	15	17	28	1.91
331858--332218	44	8.2	44	87	0	481	41	12	21	24	1.87
338946--338989	20	2.1	21	83	4	54	50	25	2	22	1.61
342844--342879	3	12.0	3	88	11	56	66	0	2	30	1.06
342858--342904	23	2.0	23	84	8	60	63	4	0	31	1.13
343359--343392	15	2.3	15	89	0	50	52	17	0	29	1.45
345455--345501	23	2.0	23	84	8	60	63	6	2	27	1.30
346423--346464	13	3.2	13	93	0	66	28	16	16	38	1.91
346433--346624	98	2.0	98	82	2	233	32	18	16	32	1.93

Tables:   1   2   3   4   5   6   7   8   9