genome.fa.s2340.2.7.7.80.10.50.1000.1.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: VEPZ01002340.1 Hibiscus syriacus cultivar Beakdansim tig00004777_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  583550

Tables:   1   2   3   

This is table  1  of  3  ( 337 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)
267--300	17	1.9	18	94	5	61	35	5	5	52	1.50
291--343	27	2.0	27	81	7	63	54	7	5	32	1.52
13932--14002	23	3.2	23	66	22	60	28	22	21	28	1.99
13906--14007	44	2.3	44	88	3	143	30	21	19	28	1.98
16101--16134	12	2.7	13	86	9	52	44	8	5	41	1.60
18497--18549	19	2.8	19	94	0	88	20	30	22	26	1.98
22640--22690	22	2.5	19	84	9	57	41	3	3	50	1.39
24053--24081	2	14.5	2	100	0	58	48	0	0	51	1.00
24220--24275	29	1.9	29	100	0	112	21	26	19	32	1.97
32193--32242	2	25.0	2	100	0	100	50	0	0	50	1.00
37261--37306	15	3.0	15	80	3	56	36	4	30	28	1.76
37768--38062	20	14.6	20	90	3	423	31	24	18	25	1.97
38230--38273	22	2.0	22	95	0	79	20	45	15	18	1.85
38534--38592	20	3.0	20	87	0	73	16	18	22	42	1.89
38729--38783	25	2.2	24	78	15	58	20	9	18	52	1.71
39911--39955	18	2.5	18	88	0	72	26	44	15	13	1.83
40437--40502	20	3.3	20	82	2	80	40	24	19	15	1.90
40476--40564	31	2.8	32	93	3	153	46	23	17	12	1.82
40607--40650	20	2.2	20	88	4	63	18	25	20	36	1.95
42523--42558	14	2.6	14	90	0	54	30	0	22	47	1.52
42641--42679	20	2.0	20	94	0	69	46	30	10	12	1.75
42672--42725	14	3.5	14	75	22	54	46	20	22	11	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42685--42730	14	2.8	17	75	25	53	45	19	21	13	1.84
42737--42786	20	2.5	20	96	3	93	16	24	28	32	1.96
46290--46416	33	3.8	33	86	4	193	42	18	22	15	1.89
46293--46423	66	2.0	66	96	0	244	41	18	22	16	1.89
46579--46615	14	2.6	14	91	0	65	45	24	0	29	1.53
47970--48173	42	4.9	41	72	9	162	22	18	36	22	1.95
47970--48036	21	3.2	21	68	4	55	19	20	35	23	1.95
48000--48173	82	2.1	84	96	2	325	22	17	37	21	1.93
48390--48574	90	2.0	90	90	6	293	47	18	11	21	1.81
48718--48859	63	2.3	63	87	2	160	26	37	16	19	1.93
48741--48871	63	2.1	63	100	0	262	23	37	18	20	1.94
50315--50426	33	3.1	38	83	11	126	47	18	22	11	1.81
50315--50426	19	6.1	19	80	12	135	47	18	22	11	1.81
50422--50488	19	3.5	18	78	11	71	8	16	25	49	1.74
51005--51057	20	2.7	20	93	0	88	26	20	28	24	1.99
51066--51119	20	2.7	20	94	0	90	27	18	22	31	1.97
51190--51230	21	2.0	21	85	0	55	34	31	17	17	1.93
55379--55425	21	2.2	21	77	7	51	36	19	12	31	1.89
63500--63720	72	3.0	72	83	10	286	33	12	28	25	1.92
65371--65420	2	25.0	2	100	0	100	50	0	0	50	1.00
73390--73425	18	2.0	18	88	0	54	38	2	16	41	1.63
77430--77519	38	2.4	38	96	1	164	30	12	4	53	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
79039--79087	19	2.7	17	79	14	53	53	12	18	16	1.73
79166--79195	15	2.0	15	93	0	51	43	13	16	26	1.85
85102--85217	57	2.0	57	96	0	214	33	27	17	21	1.96
92198--93777	790	2.0	790	99	0	3142	30	15	23	30	1.95
102087--102117	12	2.6	12	89	0	53	61	9	9	19	1.54
133359--133421	31	1.9	34	87	12	96	39	3	12	44	1.59
134087--134161	37	2.0	37	82	10	91	49	4	1	45	1.29
144960--144991	16	2.0	16	100	0	64	18	31	25	25	1.98
144394--145598	623	1.9	623	99	0	2383	28	27	15	28	1.96
146018--146064	24	1.9	25	86	4	69	29	21	10	38	1.87
151276--151320	19	2.2	20	80	11	56	66	6	8	17	1.40
151285--151321	19	1.9	19	100	0	74	64	5	10	18	1.43
151802--151831	2	15.0	2	100	0	60	50	0	0	50	1.00
154982--155018	15	2.5	15	91	4	58	45	0	0	54	1.00
158207--158292	42	2.1	42	89	6	131	46	0	0	53	1.00
158221--158293	21	3.5	22	75	19	75	49	0	0	50	1.00
158237--158300	20	3.2	19	73	18	58	51	1	0	46	1.10
158740--158767	12	2.3	12	100	0	56	42	0	17	39	1.50
158885--158930	9	4.8	10	76	10	51	23	4	4	67	1.27
158885--158930	19	2.4	19	85	7	58	23	4	4	67	1.27
161675--161729	25	2.1	26	86	6	76	52	7	18	21	1.69
161860--162001	44	3.2	43	88	4	203	26	21	6	46	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
165399--165496	42	2.3	42	94	0	169	46	14	25	13	1.80
166414--166571	21	7.8	20	72	7	86	38	24	17	18	1.93
166539--166767	20	11.4	20	84	3	237	37	25	18	18	1.94
167460--167506	24	2.0	24	87	8	69	25	14	21	38	1.92
167681--167705	12	2.1	12	100	0	50	72	0	28	0	0.86
170030--170263	19	12.9	19	81	15	291	46	16	22	14	1.84
170008--170239	72	3.3	71	81	12	266	47	17	21	13	1.82
169988--170257	105	2.6	102	89	7	348	47	17	21	13	1.82
169988--170257	53	5.1	52	88	8	388	47	17	21	13	1.82
169969--170262	72	4.2	68	77	13	240	46	18	21	14	1.84
170055--170257	105	1.9	105	97	0	388	46	17	22	13	1.83
170234--170349	53	2.2	52	86	3	160	18	23	18	38	1.93
170272--170369	19	5.4	19	83	13	134	14	21	17	46	1.83
170334--170378	19	2.4	19	88	0	63	17	17	15	48	1.81
170476--170512	14	2.6	14	91	0	65	45	21	0	32	1.52
172435--172607	19	9.6	19	76	12	150	46	23	19	10	1.81
172510--172602	33	2.8	33	91	0	159	47	21	20	10	1.80
172619--172677	14	3.9	14	76	20	64	6	16	28	47	1.72
172603--172726	33	3.7	33	91	1	185	8	17	27	45	1.78
172603--172694	19	5.4	18	72	24	83	7	17	28	46	1.75
172652--172708	14	3.7	14	72	20	51	8	22	24	43	1.81
172824--173139	93	3.4	93	99	0	623	45	18	13	22	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
174786--174882	20	5.2	20	72	18	100	46	17	24	11	1.81
174784--174848	21	3.1	21	82	4	96	47	15	26	10	1.78
174833--174889	14	3.7	14	75	20	60	43	22	24	8	1.81
174784--174906	33	3.5	33	90	8	165	46	18	24	10	1.81
174923--174979	14	3.7	14	75	20	60	8	24	22	43	1.81
174907--174986	33	2.4	33	95	0	142	8	21	22	47	1.78
174967--175040	21	3.5	21	80	7	96	14	20	17	47	1.83
175120--175190	33	2.2	33	94	0	124	47	15	23	12	1.80
175570--175762	20	9.6	20	85	5	246	18	19	27	34	1.95
177695--178520	433	1.9	433	81	3	993	42	12	11	33	1.80
180637--181244	225	2.7	226	90	1	925	37	13	16	32	1.88
180935--181133	108	1.8	109	81	4	251	36	14	17	31	1.90
182191--182239	12	4.1	12	78	5	55	10	30	0	59	1.31
185009--185259	138	1.8	137	89	4	398	29	12	17	39	1.87
188163--188223	21	2.8	21	78	14	61	32	26	24	16	1.96
188185--188229	23	2.0	23	90	0	72	28	31	22	17	1.97
193151--193193	17	2.5	17	96	0	77	34	4	27	32	1.78
197209--197257	25	2.0	25	84	7	66	51	2	2	44	1.24
198847--198918	3	24.0	3	85	5	101	61	0	0	38	0.96
199067--199338	124	2.3	117	85	6	348	23	18	16	41	1.90
199285--199376	36	2.6	36	94	0	157	17	21	11	48	1.79
199320--199376	17	3.2	17	69	26	55	17	22	10	49	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
199320--200375	108	9.5	108	86	6	1339	29	17	14	37	1.90
199318--200413	224	4.9	219	91	4	1460	29	17	14	37	1.90
201116--201575	115	4.0	115	94	1	798	29	20	15	34	1.94
202774--202833	12	4.8	12	80	11	66	1	15	1	81	0.85
206061--206147	42	2.1	41	83	8	106	34	24	17	24	1.96
206111--206392	80	3.5	80	92	0	492	28	22	18	30	1.97
206101--206393	160	1.8	160	96	0	550	29	22	18	30	1.97
206733--206834	42	2.5	41	79	6	125	29	21	23	25	1.99
223802--223833	15	2.1	15	94	0	55	46	6	18	28	1.73
227673--227721	25	2.0	25	84	7	66	51	2	2	44	1.24

Tables:   1   2   3