genome.fa.s8554.2.7.7.80.10.50.1000.2.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: VEPZ01008554.1 Hibiscus syriacus cultivar Beakdansim tig00111458_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3217407

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  2  of  10  ( 1197 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)
307593--307647	16	3.4	16	94	2	92	32	0	32	34	1.58
309193--309258	2	33.0	2	100	0	132	50	0	0	50	1.00
312177--312215	8	4.9	8	93	0	69	33	12	2	51	1.54
316362--316729	183	2.0	183	99	0	727	32	24	13	29	1.93
323720--324010	49	5.9	49	95	0	505	24	19	15	40	1.90
324437--324485	18	2.7	18	96	0	89	32	26	12	28	1.92
325618--325657	19	2.2	19	95	4	73	22	32	25	20	1.98
327905--327969	32	2.0	32	93	0	112	26	15	18	40	1.90
329220--329393	87	2.0	87	96	1	305	34	10	12	41	1.78
335064--335175	24	4.7	24	90	4	145	25	12	20	41	1.87
335061--335192	24	5.5	24	87	3	140	25	10	21	42	1.85
339772--339903	48	2.8	48	87	2	176	24	13	19	42	1.87
339772--339886	24	4.8	24	89	4	169	23	15	19	41	1.89
341670--341722	25	2.1	24	86	13	72	56	1	9	32	1.42
346349--346415	19	3.5	19	89	6	91	35	14	22	26	1.93
351365--351408	21	2.1	20	87	8	61	34	22	22	20	1.97
351397--351461	24	2.8	24	77	9	82	32	23	26	18	1.97
355608--355634	12	2.2	12	100	0	54	51	14	0	33	1.43
356369--356419	21	2.4	21	74	6	50	25	17	17	39	1.92
357714--357798	23	3.8	23	77	16	106	31	28	18	21	1.97
358010--358070	29	2.1	30	81	3	70	55	6	8	29	1.54
361731--361886	35	4.4	36	77	13	155	41	1	11	45	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
361810--361869	30	2.0	31	93	3	104	41	1	13	43	1.54
361935--361998	29	2.2	29	85	2	83	39	0	9	51	1.34
361998--362061	21	3.2	19	79	20	67	29	0	4	65	1.13
361998--362061	9	6.3	10	72	27	55	29	0	4	65	1.13
387911--387985	37	2.0	37	92	0	123	34	16	17	32	1.92
393081--393127	24	2.0	23	95	4	85	29	0	8	61	1.25
394393--394438	20	2.3	20	84	0	56	32	23	15	28	1.95
394409--394447	20	2.0	20	94	0	69	33	20	10	35	1.86
394433--394485	21	2.5	21	75	6	54	24	26	15	33	1.95
394460--394732	41	6.7	41	76	7	166	33	19	19	27	1.96
394475--394567	21	4.5	21	78	9	102	36	18	22	22	1.95
394460--394689	82	2.8	81	72	10	200	31	20	19	28	1.97
394577--394649	21	3.5	21	81	3	85	21	21	19	36	1.95
394475--394758	61	4.7	60	71	12	188	34	19	19	27	1.96
394475--394750	20	13.6	20	75	11	136	34	19	19	26	1.96
395262--395328	19	3.5	19	85	2	89	47	25	16	10	1.78
395324--395450	19	7.1	19	80	12	94	12	23	18	44	1.84
395365--395401	14	2.6	14	100	0	74	8	27	24	40	1.83
395390--395448	20	3.0	20	84	0	73	15	22	16	45	1.84
398980--399014	13	2.6	14	90	4	54	28	0	25	45	1.54
398967--399015	13	3.7	14	76	10	50	26	0	22	51	1.49
399117--399206	33	2.7	33	89	0	135	41	21	23	14	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
399202--399300	19	5.7	19	66	22	74	14	22	20	43	1.87
399206--399313	33	3.3	33	87	5	164	13	23	20	42	1.88
399199--399332	66	2.0	67	89	1	207	16	22	20	40	1.91
401769--401822	24	2.2	24	90	0	81	40	20	16	22	1.91
402625--402703	20	3.9	20	77	9	70	35	22	18	22	1.96
402663--402712	20	2.5	20	80	0	73	38	22	18	22	1.94
402924--403010	20	4.4	20	81	4	106	37	24	21	16	1.93
402944--403032	33	2.4	37	83	12	105	40	21	21	16	1.91
403059--403104	19	2.4	19	96	0	83	15	19	15	50	1.79
405115--405169	19	2.8	20	83	5	69	38	23	21	16	1.93
405154--405247	33	2.8	33	95	0	161	47	22	17	12	1.81
405183--405269	19	4.8	19	74	16	87	45	22	18	12	1.83
405262--405320	17	3.5	17	73	17	61	15	18	18	47	1.83
405305--405359	20	2.8	19	83	8	65	16	23	23	36	1.94
407177--407234	20	3.0	20	87	2	73	43	22	18	15	1.88
407496--407539	22	2.0	22	95	0	79	18	15	45	20	1.85
407708--407842	20	6.7	20	77	7	121	25	17	23	34	1.96
407708--407845	61	2.3	61	85	0	195	24	16	23	35	1.95
407708--407863	61	2.6	61	81	2	161	23	18	23	34	1.96
409043--409079	15	2.5	15	87	12	51	64	0	0	35	0.94
410453--410564	55	2.0	55	92	0	188	17	30	6	45	1.73
412014--412101	20	4.6	20	71	24	57	31	3	0	64	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
412065--412109	14	3.1	14	83	6	54	37	0	0	62	0.96
412089--412117	2	14.5	2	100	0	58	48	0	0	51	1.00
412221--412275	29	1.9	28	85	3	74	23	3	0	72	1.00
415626--415678	28	2.0	25	89	10	79	75	3	16	3	1.10
415628--415678	13	3.8	14	82	15	63	74	3	17	3	1.12
415619--415678	26	2.4	26	83	8	72	75	3	18	3	1.09
417334--417647	37	9.1	37	71	15	161	29	19	12	39	1.88
417421--417645	36	6.4	36	75	10	198	27	19	12	40	1.88
417334--417611	100	2.8	101	82	3	308	29	19	11	39	1.87
417445--417699	138	1.9	137	83	0	339	27	20	11	40	1.87
417603--417765	67	2.4	67	83	6	197	30	21	8	39	1.83
417603--417786	67	2.8	68	81	8	191	32	21	8	38	1.83
420231--420280	2	25.5	2	78	11	50	42	4	4	50	1.40
420304--420363	17	3.2	17	70	20	57	30	5	1	63	1.25
420376--420428	16	3.2	16	76	15	54	24	3	0	71	1.02
420613--420655	11	4.3	10	80	19	54	18	2	0	79	0.85
420613--420656	9	4.6	9	81	13	52	20	2	0	77	0.88
420640--420689	25	2.0	26	84	4	66	12	6	8	74	1.22
423117--423174	21	2.8	20	79	20	66	32	0	1	65	1.03
425402--425445	13	3.4	13	80	0	52	15	0	13	70	1.17
425468--425551	34	2.5	32	81	9	89	23	2	13	60	1.44
428907--428937	16	1.9	16	93	0	53	64	3	3	29	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
430119--430164	3	15.3	3	100	0	92	67	0	0	32	0.91
430190--430249	27	2.2	27	96	0	111	16	3	43	36	1.65
430199--430256	27	2.1	27	87	0	80	22	5	39	32	1.76
433704--433757	15	3.6	15	82	5	56	51	1	1	44	1.22
433893--433920	2	14.0	2	100	0	56	50	0	0	50	1.00
434684--434719	2	18.0	2	100	0	72	50	0	0	50	1.00
441596--441913	112	2.8	111	82	7	349	30	15	23	30	1.95
441838--441961	48	2.6	48	92	0	194	30	17	21	29	1.96
441742--442070	162	2.0	161	84	1	426	32	15	22	29	1.95
441630--442193	275	2.1	273	83	6	712	32	15	22	29	1.95
441888--442191	113	2.7	113	83	5	391	31	16	21	29	1.95
444393--444444	19	2.7	18	85	11	68	11	11	0	76	1.01
444402--444482	23	3.5	23	71	14	60	7	12	4	75	1.17
451063--451105	18	2.4	18	81	14	54	46	2	2	48	1.27
454013--454109	36	2.7	35	78	7	97	54	0	0	45	0.99
454107--454137	12	2.6	12	94	0	53	19	45	22	12	1.84
454895--454935	21	1.9	22	90	5	66	19	36	24	19	1.95
456197--456244	19	2.5	20	82	3	62	52	6	12	29	1.63
466389--466419	5	6.2	5	100	0	62	80	0	0	19	0.71
466719--466749	11	2.8	11	100	0	62	70	0	0	29	0.87
470517--470600	42	2.0	41	82	11	100	27	16	8	47	1.75
474184--474236	21	2.5	20	85	11	63	26	32	11	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
475552--475597	17	2.7	17	89	0	65	54	6	4	34	1.46
477413--477704	20	14.5	20	76	9	184	38	21	18	21	1.93
477413--477663	40	6.2	40	83	4	254	38	21	18	21	1.94
477413--477704	40	7.2	40	82	5	232	38	21	18	21	1.93
481133--481233	34	3.0	34	82	2	132	40	19	22	16	1.91
481166--481383	52	4.3	52	72	17	186	43	18	24	13	1.86
481195--481383	19	10.9	19	67	21	103	43	18	24	13	1.86
481238--481325	14	5.6	14	69	23	59	44	19	25	11	1.84
481220--481379	33	4.8	33	96	0	293	43	18	25	13	1.85
481126--481313	86	2.2	86	84	1	243	41	19	23	15	1.90

Tables:   1   2   3   4   5   6   7   8   9   10