genome.fa.s7869.2.7.7.80.10.50.1000.2.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: VEPZ01007869.1 Hibiscus syriacus cultivar Beakdansim tig00110243_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  590314

Tables:   1   2   3   

This is table  2  of  3  ( 294 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)
269506--269574	35	2.0	35	82	5	86	33	18	18	28	1.95
271589--271758	38	4.5	38	80	5	193	44	5	5	44	1.50
271613--271770	75	2.1	76	85	3	212	46	5	4	43	1.47
290215--290267	21	2.5	21	90	6	81	37	3	32	26	1.74
291678--291713	18	2.0	19	89	10	58	47	11	0	41	1.39
295791--295824	16	2.0	18	88	11	54	38	5	26	29	1.80
297522--297554	16	2.1	16	94	0	57	15	21	12	51	1.75
301018--301145	60	2.2	60	85	4	170	38	17	11	32	1.86
302387--302420	16	2.2	16	89	5	52	17	8	8	64	1.47
302442--302548	54	2.0	54	96	3	198	30	15	15	37	1.90
303773--303926	77	2.0	78	96	1	283	33	11	15	38	1.84
306518--306598	3	27.3	3	85	7	103	59	0	2	38	1.11
306766--307577	54	15.2	54	89	3	1137	22	26	20	30	1.98
316571--316617	23	2.0	25	87	8	71	19	23	8	48	1.75
321450--321526	3	26.7	3	74	12	63	55	0	2	41	1.13
321450--321526	11	6.9	11	72	18	61	55	0	2	41	1.13
321452--321521	14	4.9	14	81	10	70	55	0	2	41	1.14
326964--327003	22	1.9	20	90	10	62	30	20	5	45	1.72
329371--329423	26	2.0	26	100	0	106	37	7	18	35	1.80
335491--335523	14	2.4	14	100	0	66	6	36	0	57	1.23
337358--337401	20	2.2	20	100	0	88	34	4	9	52	1.54
338223--338281	23	2.7	21	79	7	73	45	0	6	47	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
338190--338275	23	3.5	23	76	13	82	40	1	8	50	1.40
338190--338279	25	3.6	24	74	15	76	41	1	7	50	1.39
339809--339853	22	2.0	22	87	8	65	26	8	0	64	1.23
339823--339864	22	2.0	22	86	9	61	26	9	0	64	1.24
351703--353038	6	229.0	6	85	12	1703	34	0	0	65	0.97
355252--355387	33	4.2	33	76	7	118	50	8	4	37	1.52
357899--357955	18	3.3	18	73	14	66	28	3	17	50	1.62
357896--357958	33	1.9	33	96	0	117	28	3	19	49	1.63
358062--358095	17	2.0	17	94	0	59	50	8	11	29	1.69
359677--359778	23	4.4	23	79	4	107	42	19	15	22	1.89
362490--362530	20	2.0	21	90	4	66	24	34	19	21	1.97
363276--363355	22	3.6	22	96	0	142	22	27	23	26	2.00
366075--366285	106	2.0	105	99	0	413	33	21	18	26	1.97
369254--369309	18	3.1	18	82	12	78	19	21	10	48	1.79
369244--369271	14	2.0	14	100	0	56	14	21	14	50	1.78
373348--373384	19	1.9	19	94	0	65	24	18	10	45	1.81
376398--376610	32	6.7	32	76	14	208	53	0	4	41	1.25
376395--376610	66	3.4	63	91	4	328	54	0	4	40	1.25
376522--376658	30	4.6	30	73	10	102	54	0	6	37	1.32
376395--376658	66	4.2	60	86	6	205	54	0	5	39	1.30
378354--378393	20	2.0	21	90	5	64	37	0	7	55	1.29
378373--378403	13	2.4	13	94	0	53	41	0	6	51	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
384278--384341	3	20.3	3	78	9	65	31	1	4	62	1.25
384273--384339	13	4.9	13	75	13	55	29	1	5	62	1.28
384281--384341	16	3.8	16	80	0	68	31	1	4	62	1.26
385932--385977	24	1.9	24	86	8	67	34	4	0	60	1.16
386162--386232	9	7.3	9	81	13	72	19	2	2	74	1.07
386161--386233	5	14.8	5	75	13	71	19	2	2	75	1.05
386161--386217	14	3.9	14	82	13	71	21	1	1	75	0.98
386164--386243	14	5.4	14	73	16	54	21	2	3	72	1.12
389903--391232	727	1.8	729	96	0	2475	32	14	19	33	1.92
392020--392067	5	9.4	5	80	11	53	79	0	18	2	0.84
392014--392062	22	2.3	20	86	6	62	81	0	16	2	0.78
392012--392058	17	2.8	17	81	15	62	80	0	14	4	0.85
395240--395309	3	22.3	3	82	8	86	30	0	5	64	1.17
395239--395309	16	4.5	16	84	5	83	29	0	5	64	1.16
395600--395661	30	2.1	30	84	3	81	41	4	17	35	1.71
403141--403202	29	2.1	30	84	3	81	40	4	19	35	1.73
404370--404462	21	4.5	21	78	4	100	39	18	24	17	1.91
404370--404462	41	2.3	41	100	0	186	39	18	24	17	1.91
404389--404523	41	3.3	41	82	6	132	37	21	21	19	1.94
404451--404565	20	5.7	20	82	6	115	31	26	18	24	1.97
404448--404585	41	3.4	41	79	6	154	34	24	17	23	1.96
404753--404796	22	2.0	22	90	0	70	20	43	15	20	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
405059--405137	20	4.0	20	91	0	104	16	17	22	43	1.88
406352--406397	20	2.3	20	88	0	65	36	26	21	15	1.93
406407--406464	14	3.9	14	79	16	71	50	24	15	10	1.75
406391--406481	32	2.8	33	91	3	148	47	21	16	14	1.82
406498--406555	14	3.9	14	77	16	62	10	17	22	50	1.76
406493--406571	32	2.4	33	91	2	124	11	18	21	48	1.80
406544--406610	19	3.5	19	83	4	89	14	23	23	37	1.93
406556--406610	20	2.8	19	89	5	83	16	25	23	34	1.95
410236--410279	5	8.8	5	80	9	54	20	2	2	75	1.03
410232--410279	9	5.0	9	81	18	53	20	2	2	75	1.02
410232--410281	14	3.5	13	78	19	55	20	2	2	76	0.99
410700--410726	13	2.1	13	100	0	54	37	0	7	55	1.28
412615--412654	16	2.4	16	95	4	71	77	2	5	15	1.04
417620--417749	38	3.5	37	77	4	154	33	16	13	36	1.88
417615--417788	38	4.8	35	74	10	120	35	14	12	37	1.85
417615--417794	74	2.5	72	87	5	254	35	16	12	36	1.86
417738--417848	53	2.1	55	91	3	181	28	17	11	42	1.84
417664--417922	127	2.0	129	90	3	416	30	16	12	39	1.86
417822--418288	38	12.6	37	71	10	310	31	17	12	38	1.87
417791--418297	36	13.7	36	71	9	306	31	17	12	38	1.86
417791--418147	74	4.8	74	87	3	488	31	17	12	39	1.86
417621--418297	201	3.3	197	77	14	650	32	16	12	38	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
418155--418300	74	2.0	74	94	0	256	32	15	11	39	1.84
418166--418317	74	2.1	74	89	2	234	32	16	12	38	1.86
418307--418439	59	2.3	59	82	0	158	25	23	17	33	1.96
418434--418796	90	4.0	90	82	7	387	31	23	16	28	1.96
422321--422361	21	2.0	21	85	0	55	39	12	9	39	1.76
428527--428802	57	4.8	58	87	4	364	35	11	21	31	1.89
428527--428872	59	5.9	59	80	5	375	36	11	21	30	1.90
428518--428873	116	3.1	117	82	5	409	35	12	21	30	1.90
434908--434967	20	2.8	21	90	7	86	23	33	21	21	1.97
434929--434989	21	2.8	21	85	5	68	24	37	22	14	1.92
438380--438515	60	2.3	60	92	0	218	33	13	22	29	1.93
438669--439083	44	9.0	44	80	10	400	40	6	18	33	1.77
438798--438833	18	2.0	18	100	0	72	50	0	16	33	1.46
438754--438877	62	2.0	62	100	0	248	43	4	17	33	1.71
438711--438921	106	2.0	106	100	0	422	42	5	18	34	1.74
438669--438965	150	2.0	150	95	0	540	42	6	17	33	1.75
438931--439000	21	3.2	21	64	15	52	41	8	18	31	1.81
440558--440600	22	2.0	22	95	0	77	16	27	27	27	1.97
442187--442290	31	3.2	31	67	19	86	19	18	25	37	1.94
447132--447165	17	2.0	17	94	0	59	23	8	0	67	1.18
447334--447451	59	2.0	59	98	0	227	31	12	27	28	1.93
448775--448807	16	2.1	16	100	0	66	36	12	24	27	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
449358--449658	152	2.0	152	99	0	593	29	19	9	41	1.83
451492--451595	33	3.2	33	93	1	174	44	18	7	29	1.77
451590--451631	21	2.0	21	95	0	75	47	7	14	30	1.71
465824--465886	32	2.0	32	84	12	85	25	0	11	63	1.27
465867--465986	63	1.9	62	89	5	188	30	0	15	55	1.41
466650--466695	16	2.6	18	77	16	51	34	2	0	63	1.07
466668--466730	19	3.3	19	71	20	51	25	4	0	69	1.07
469308--469487	62	2.9	61	84	4	225	52	8	7	31	1.59
473966--474023	25	2.3	25	96	0	107	27	0	13	58	1.36
474010--474072	32	2.0	32	84	12	85	25	0	11	63	1.27

Tables:   1   2   3