genome.fa.s8527.2.7.7.80.10.50.1000.3.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: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9057482

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   

This is table  3  of  37  ( 4336 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)
439841--439943	22	4.5	22	71	7	71	51	8	0	39	1.33
439886--440003	15	7.5	15	81	13	139	51	2	0	44	1.20
439832--439988	69	2.3	67	88	5	219	51	5	0	42	1.30
441798--441837	22	1.9	20	85	10	53	70	15	2	12	1.28
448378--448415	18	2.1	19	90	5	60	42	0	0	57	0.98
451759--452045	131	2.2	131	81	5	339	23	12	23	40	1.89
453492--453521	2	15.5	2	93	6	53	50	0	0	50	1.00
456755--456783	14	2.0	15	93	6	51	48	20	17	13	1.81
459758--459825	29	2.3	29	80	7	84	44	19	1	35	1.60
461614--461697	43	2.0	43	100	0	168	45	21	13	20	1.84
471881--471925	20	2.3	19	84	3	54	35	0	2	62	1.08
471866--471931	29	2.3	29	84	5	80	37	0	1	60	1.06
471924--472027	3	34.7	3	98	0	199	65	0	0	33	0.99
472346--472903	113	5.0	113	93	0	922	29	18	14	38	1.90
473613--473981	83	4.5	83	96	1	636	37	21	13	27	1.91
475165--475194	14	2.1	15	93	6	53	0	16	0	83	0.65
487841--487894	27	2.0	27	85	7	74	37	0	1	61	1.07
487887--487972	3	28.7	3	90	0	136	61	0	2	36	1.09
492584--492627	12	3.7	12	93	0	70	31	31	15	20	1.94
497832--497902	30	2.4	30	100	0	142	35	9	15	39	1.81
511327--511412	35	2.5	35	84	0	100	40	20	1	37	1.61
511381--511423	21	2.0	21	100	0	86	46	13	0	39	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
511546--511577	15	2.0	17	88	11	50	28	3	6	62	1.34
512039--512286	130	1.9	130	92	0	415	36	12	14	35	1.85
512690--512757	35	1.9	35	87	0	100	36	0	22	41	1.54
515001--515035	18	1.9	18	88	11	54	48	0	0	51	1.00
517326--517408	3	27.7	3	100	0	166	66	0	0	33	0.92
520596--520625	2	15.5	2	93	6	53	50	0	0	50	1.00
527474--527594	27	4.6	27	68	23	78	47	6	11	33	1.66
527465--527609	79	1.8	78	98	1	281	44	6	13	35	1.68
527708--527736	14	2.0	15	93	6	51	75	0	0	24	0.80
530302--530348	21	2.2	21	88	7	69	55	4	0	40	1.19
530301--530349	22	2.2	22	82	10	64	53	4	0	42	1.20
530408--530455	22	2.1	23	84	3	62	50	0	4	45	1.21
532853--532935	25	3.3	25	100	0	166	15	10	20	53	1.72
533613--533652	18	2.2	18	95	0	71	30	10	7	52	1.62
539131--539166	15	2.5	15	90	4	56	41	8	16	33	1.78
539783--539820	17	2.2	17	95	0	67	31	7	23	36	1.84
544034--544070	2	18.5	2	100	0	74	51	0	0	48	1.00
544089--544438	37	9.3	37	80	8	307	40	5	4	50	1.45
544089--544435	74	4.6	73	80	9	358	40	5	4	49	1.44
545217--545279	3	20.0	3	83	3	63	41	1	0	57	1.08
545686--545728	21	2.0	21	86	0	59	65	4	27	2	1.25
546692--546721	3	10.0	3	92	0	51	33	3	0	63	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
546812--547050	120	2.0	116	83	5	293	36	7	8	47	1.62
547567--547603	13	2.8	14	84	8	51	27	0	0	72	0.84
547557--547591	16	2.2	16	90	10	54	25	2	0	71	1.00
549167--549226	27	2.3	27	85	2	86	21	13	6	58	1.58
549166--549193	12	2.3	12	100	0	56	25	14	7	53	1.66
549139--549226	14	6.5	14	69	17	51	23	13	5	56	1.58
553283--553502	114	1.9	114	90	0	350	33	14	20	31	1.93
555537--555637	50	2.0	50	94	0	175	35	13	22	27	1.92
556007--556083	22	3.5	22	92	0	136	35	11	12	40	1.80
556761--557412	46	14.0	46	94	2	1083	24	21	19	34	1.96
557636--557682	3	15.7	3	79	16	53	40	0	0	59	0.97
557632--557679	12	4.2	12	82	17	59	41	0	0	58	0.98
557635--557682	21	2.3	20	86	13	62	41	0	0	58	0.98
558089--558131	21	2.0	21	86	0	59	65	6	27	0	1.18
559180--559412	120	2.0	120	83	5	303	38	8	8	45	1.64
559284--559325	20	2.2	19	86	4	57	33	0	2	64	1.07
559381--559438	29	2.0	30	86	3	82	46	1	0	51	1.11
561444--561570	62	2.0	62	91	5	204	33	14	8	44	1.75
567284--567327	18	2.4	18	100	0	88	40	9	20	29	1.83
568341--568405	31	2.0	32	82	14	80	47	0	3	49	1.17
577502--577530	3	9.7	3	100	0	58	31	0	0	68	0.89
577685--577720	2	18.0	2	100	0	72	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
578182--578229	23	2.1	23	88	0	69	37	8	16	37	1.79
578224--578948	199	3.6	195	78	6	647	32	14	13	39	1.85
579865--580840	200	4.9	200	85	1	1240	34	15	12	37	1.86
581243--581291	19	2.6	19	96	0	89	55	10	2	32	1.45
583129--583171	21	2.0	21	95	0	77	13	32	11	41	1.81
583550--583604	24	2.4	23	80	11	69	52	3	0	43	1.18
585536--586391	182	4.7	182	91	0	1302	28	16	14	40	1.87
587903--587927	4	6.2	4	100	0	50	52	24	0	24	1.48
593834--593885	21	2.5	21	80	0	68	30	17	0	51	1.45
593869--593910	23	1.9	23	85	9	61	28	7	4	59	1.44
600262--600287	12	2.2	12	100	0	52	53	0	11	34	1.37
601514--601616	52	2.0	52	100	0	206	37	11	15	34	1.84
607800--607826	12	2.2	12	100	0	54	66	14	0	18	1.25
611246--611272	4	6.8	4	100	0	54	22	0	0	77	0.76
622476--622881	105	3.9	105	95	0	717	33	24	19	23	1.97
622624--623120	269	1.8	265	82	7	635	33	24	19	22	1.97
622729--623040	164	1.9	166	84	6	416	33	25	18	22	1.97
622891--623237	99	3.5	99	91	3	549	35	25	19	20	1.96
622891--623291	99	4.0	98	89	4	520	34	24	19	21	1.96
628924--628958	2	17.5	2	100	0	70	48	0	0	51	1.00
636983--637020	19	2.0	19	85	10	51	18	0	7	73	1.06
640296--640352	28	2.0	28	93	0	96	17	28	17	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
641847--642715	438	2.0	438	94	0	1522	19	31	18	30	1.95
652153--652540	198	2.0	197	85	4	530	30	27	15	26	1.96
652708--652839	51	2.6	51	87	0	174	28	40	12	18	1.88
652856--653070	36	6.0	36	74	15	171	26	48	7	16	1.73
652880--652934	30	1.9	28	82	10	67	27	49	5	18	1.69
652811--653058	69	3.6	66	76	15	173	27	47	7	17	1.75
652964--653065	38	2.8	35	85	5	114	26	48	7	17	1.75
652946--653262	48	8.3	38	73	20	177	26	50	7	15	1.70
653015--653154	48	2.9	48	87	5	187	25	52	7	14	1.68
653125--653226	29	3.2	31	85	12	136	27	49	8	14	1.73
653149--653262	36	3.3	35	85	6	151	27	51	7	14	1.67
663280--663313	16	2.1	17	94	5	61	41	0	0	58	0.98
669268--669297	2	15.0	2	100	0	60	50	0	0	50	1.00
669297--669327	2	15.5	2	100	0	62	0	0	48	51	1.00
673767--674239	199	2.4	198	88	3	693	41	11	12	34	1.80
685155--685258	50	2.0	52	81	3	122	36	18	5	39	1.75
685984--686402	196	2.1	199	86	3	594	37	23	11	27	1.89
688142--688167	1	26.0	1	100	0	52	0	0	0	100	0.00
689396--689497	34	3.0	34	94	0	177	46	21	6	25	1.76
694442--694503	30	2.1	30	93	0	106	22	11	17	48	1.79
696881--696928	19	2.5	20	82	3	62	52	6	12	29	1.63
698359--698411	18	2.9	18	85	0	70	22	32	28	16	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
699067--699269	104	2.0	104	97	1	381	34	19	15	30	1.92
699304--699380	21	3.6	21	73	7	75	20	15	27	36	1.93
699371--699440	22	3.3	22	72	11	83	18	18	24	38	1.93
699390--699455	19	3.3	19	72	12	69	18	19	21	40	1.91
699371--699462	41	2.2	41	98	0	175	19	17	22	40	1.91
699540--699571	6	5.5	6	96	3	57	31	53	15	0	1.43
700206--700278	20	3.6	20	72	3	74	39	23	20	16	1.92
700203--700300	41	2.4	41	94	0	178	37	24	18	19	1.94
700226--700299	21	3.6	21	74	3	87	35	25	17	21	1.95
708635--708664	14	2.1	14	100	0	60	20	6	23	50	1.71

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37