genome.fa.s2875.2.7.7.80.10.50.1000.1.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: VEPZ01002875.1 Hibiscus syriacus cultivar Beakdansim tig00005929_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1473696

Tables:   1   2   3   4   5   

This is table  1  of  5  ( 570 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)
4413--4451	2	19.5	2	100	0	78	48	0	0	51	1.00
5940--6173	125	1.9	124	82	4	292	32	17	8	41	1.81
11214--11334	11	10.6	11	76	7	116	29	17	24	28	1.97
11214--11323	23	4.8	23	93	0	184	30	16	25	28	1.97
11564--11620	16	3.7	16	83	4	73	12	8	19	59	1.58
12909--12942	3	11.3	3	100	0	68	67	0	0	32	0.91
13701--13757	30	1.9	29	82	3	69	47	7	10	35	1.65
16143--16200	25	2.3	25	96	0	107	46	5	20	27	1.72
17222--17304	19	4.4	19	79	0	85	46	4	14	33	1.66
17222--17304	38	2.2	38	82	0	94	46	4	14	33	1.66
17388--17470	39	2.1	39	91	4	132	28	6	15	49	1.68
18568--18592	11	2.3	11	100	0	50	52	0	0	48	1.00
24733--24778	18	2.8	16	90	6	65	34	6	30	28	1.82
25351--25424	37	2.0	38	89	2	114	43	37	8	10	1.69
25358--25436	37	2.1	38	83	2	97	48	32	6	12	1.67
25560--25636	33	2.4	33	86	2	111	40	33	10	15	1.81
25447--25815	175	2.0	180	89	7	572	36	26	10	26	1.89
25734--25815	38	2.2	38	88	4	121	39	36	10	13	1.80
27917--28004	43	2.0	43	82	0	104	36	22	19	21	1.95
32356--32460	34	3.1	34	98	0	201	28	7	20	42	1.80
32896--33003	51	2.1	51	98	1	209	8	23	20	48	1.76
36094--36142	21	2.3	21	100	0	98	40	22	4	32	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41078--41128	23	2.2	23	100	0	102	13	27	23	35	1.93
57733--57782	18	2.9	18	71	17	52	26	4	16	54	1.59
58029--58095	31	2.2	31	86	0	89	43	7	13	35	1.72
66071--66107	16	2.3	16	90	9	58	43	2	0	54	1.14
72634--72779	42	3.5	42	91	0	222	35	7	23	32	1.83
82004--82043	21	1.9	21	89	0	62	15	27	25	32	1.95
85043--85104	24	2.6	24	78	17	67	46	1	1	50	1.20
85180--85250	37	1.9	36	83	13	92	53	1	0	45	1.09
85389--85470	32	2.7	29	75	17	78	53	3	0	42	1.18
91698--91747	22	2.3	22	79	3	57	48	8	8	36	1.62
95920--95987	24	2.8	24	100	0	136	39	7	4	48	1.51
98767--98811	23	2.0	23	95	0	81	40	15	13	31	1.86
107972--107997	12	2.2	12	100	0	52	34	57	7	0	1.27
113549--113768	38	5.9	36	71	12	133	30	16	13	40	1.86
113549--113721	75	2.3	75	88	2	258	30	16	13	39	1.87
113587--113759	38	4.6	38	77	7	181	30	16	14	38	1.89
113775--114050	59	4.7	59	84	2	340	28	25	14	31	1.95
115665--115695	16	1.9	16	93	0	53	22	0	0	77	0.77
116911--116945	17	2.1	17	100	0	70	40	0	5	54	1.24
120736--120767	14	2.3	14	94	0	55	37	9	0	53	1.34
122228--122265	19	2.0	19	89	0	58	34	5	26	34	1.79
122253--122301	25	2.1	22	85	11	62	32	6	28	32	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
122223--122304	44	1.9	41	85	7	110	35	6	25	32	1.81
122687--122738	20	2.6	20	72	6	52	25	17	28	28	1.97
122726--122762	19	1.9	19	94	0	65	27	16	24	32	1.96
128886--128944	22	2.7	22	82	10	68	38	1	5	54	1.33
128892--128968	32	2.4	32	86	2	111	41	1	5	51	1.32
131320--131616	115	2.5	116	83	8	316	31	14	7	46	1.73
143508--143539	2	16.0	2	100	0	64	50	0	0	50	1.00
151568--151611	14	2.9	15	75	18	54	6	13	27	52	1.66
153777--153857	42	1.9	42	89	0	126	38	16	33	12	1.85
153920--154017	42	2.4	42	89	3	146	51	0	0	48	1.00
153967--154017	2	26.5	2	76	7	52	49	0	0	50	1.00
153965--154015	17	3.1	17	77	11	61	49	0	0	50	1.00
155787--155869	24	3.5	24	89	0	121	53	20	18	8	1.70
155773--155855	38	2.2	37	83	10	105	53	20	18	8	1.70
155786--155865	14	6.3	14	64	21	50	51	20	20	8	1.73
156051--156116	34	1.9	34	87	0	96	59	15	7	18	1.59
158594--158668	38	2.0	36	82	10	89	49	4	0	46	1.20
159746--159811	23	2.9	23	95	0	114	33	18	22	25	1.97
159797--159863	27	2.5	27	97	0	125	40	17	14	26	1.89
160046--160085	16	2.3	18	87	8	57	60	2	7	30	1.38
164277--164343	32	2.2	31	84	10	84	41	4	5	47	1.48
167566--167644	40	2.0	39	85	2	104	24	6	24	45	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
168574--168651	33	2.5	31	78	12	86	34	10	5	50	1.59
169093--169119	2	13.5	2	100	0	54	48	0	0	51	1.00
199519--199805	105	2.6	105	84	7	342	36	12	14	35	1.85
208660--208705	3	15.3	3	95	0	74	32	63	0	4	1.14
209401--209479	39	2.0	40	97	2	151	46	22	12	17	1.82
210563--210635	29	2.4	31	81	4	96	58	15	0	26	1.37
213833--213895	21	3.0	21	64	13	58	41	23	15	19	1.90
213805--213895	41	2.2	41	96	0	164	37	24	16	21	1.94
213786--213872	20	4.3	20	75	8	95	31	25	18	25	1.98
214278--214314	19	1.9	19	100	0	74	27	29	5	37	1.79
214303--214375	25	3.0	25	88	5	107	36	24	6	31	1.82
214375--214431	20	2.8	20	83	0	78	28	21	15	35	1.94
216534--216647	60	1.9	60	83	0	147	35	11	19	33	1.87
228954--228991	2	19.0	2	100	0	76	50	0	0	50	1.00
234743--234808	35	1.9	34	81	9	80	56	3	1	39	1.24
234846--234949	39	2.7	39	75	14	115	45	2	17	34	1.63
234965--235005	20	2.1	19	86	4	55	68	0	0	31	0.90
235048--235565	262	2.0	262	100	0	1036	31	15	19	33	1.93
235570--235670	31	3.3	31	88	0	139	50	13	4	30	1.63
236722--236759	3	12.7	3	100	0	76	0	65	34	0	0.93
237726--237771	23	2.0	23	91	0	74	50	8	19	21	1.75
250490--250546	29	2.0	28	86	3	78	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
251368--251428	31	1.9	32	83	9	81	52	9	8	29	1.63
255670--255740	15	4.6	16	71	15	51	43	7	1	47	1.39
280232--280293	27	2.3	27	94	0	106	16	19	24	40	1.91
282288--282378	30	2.9	31	78	15	98	19	17	7	54	1.66
282675--282813	72	1.9	73	86	2	201	45	12	11	30	1.77
288112--288173	19	3.4	19	64	8	56	14	3	19	62	1.44
301974--302026	18	2.9	18	94	0	88	37	5	28	28	1.80
302396--302456	26	2.3	26	97	0	113	40	24	14	19	1.89
302509--302553	18	2.5	18	77	0	54	37	44	6	11	1.66
311320--311380	3	20.0	3	96	3	113	34	0	0	65	0.93
316907--316970	30	2.2	30	80	2	76	31	7	4	56	1.49
325112--325171	4	15.5	4	72	6	52	66	3	1	28	1.17
325112--325171	23	2.6	23	78	5	77	66	3	1	28	1.17
335349--335420	29	2.4	30	86	11	96	44	9	11	34	1.73
335710--335734	13	1.9	13	100	0	50	60	0	0	40	0.97
338191--338535	172	2.0	173	99	0	683	35	17	20	25	1.95
341197--341221	6	4.2	6	100	0	50	0	52	0	48	1.00
341290--341395	35	3.0	35	94	2	185	54	11	14	19	1.69
341290--341395	36	3.0	36	95	1	187	54	11	14	19	1.69
342176--342202	13	2.1	13	100	0	54	22	22	18	37	1.95
343330--343368	14	2.8	14	84	0	51	35	28	12	23	1.91
346746--346775	5	6.0	5	92	0	51	23	0	0	76	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
346739--346773	15	2.2	16	95	5	63	25	0	0	74	0.82
346812--346840	13	2.2	13	100	0	58	65	0	0	34	0.93
347943--347987	20	2.4	19	85	14	58	24	0	4	71	1.05
347977--348054	33	2.4	33	85	8	97	38	0	1	60	1.05
348194--348247	17	3.2	17	72	0	54	31	0	3	64	1.11
352605--352638	9	3.8	9	88	11	52	76	0	2	20	0.92
352604--352638	13	2.6	13	90	4	52	77	0	2	20	0.90
352691--352715	2	12.5	2	100	0	50	52	0	0	48	1.00
353100--353136	2	18.5	2	100	0	74	51	0	0	48	1.00
353558--353692	34	3.9	34	93	2	216	29	13	12	44	1.80

Tables:   1   2   3   4   5